Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	1,631,368	C→T	intergenic (‑73/+91)	SAUSA300_RS08060 ← / ← SAUSA300_RS08065	integrase/integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	1,631,368	0	C	T	100.0%	187.9 / NA	70	intergenic (‑73/+91)	SAUSA300_RS08060/SAUSA300_RS08065	integrase/integrase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (7/63);  total (7/63)

GGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTCTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACGATTATTAATA  >  NC_007793/1631278‑1631464                                                                                           |                                                                                                 tggTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCa                                                                                         <  1:2366873/99‑1 (MQ=255)  ggTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCaa                                                                                        >  1:1322768/1‑100 (MQ=255)      ataatGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCaataat                                                                                    <  1:981065/100‑1 (MQ=255)         atGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTttttctttgttgcctggt                                                                                 <  1:4664094/100‑11 (MQ=255)           ggTTTCATAATATTCATAATCTCATTACAAACTACATTGGATTTCCGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTa                                                                               <  1:5001452/100‑1 (MQ=255)                    atatTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAat                                                                      <  1:487650/100‑1 (MQ=255)                    atatTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAat                                                                      <  1:2037691/100‑1 (MQ=255)                    atatTTATAATCTCATTACAAACTACATTGGATTTACGTGTATGTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAat                                                                      <  1:5640265/100‑1 (MQ=255)                      atTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAatag                                                                    <  1:4557722/100‑2 (MQ=255)                          ataATCTCATTACAAACTGCATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATGATAGTTAACAAGCAATATGTTg                                                                <  1:466126/100‑1 (MQ=255)                           taATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTgg                                                               <  1:2036925/100‑2 (MQ=255)                              tctcATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATgg                                                            <  1:2709528/100‑1 (MQ=255)                                tcATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTc                                                          <  1:2467390/100‑1 (MQ=255)                                 cATTACAACCTACATTGGATTTACGTGTATTTAATCTACTAGCCTATACATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCt                                                         >  1:3670670/1‑100 (MQ=255)                                 cATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCt                                                         >  1:6024773/1‑100 (MQ=255)                                  aTTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTa                                                        <  1:5201183/100‑1 (MQ=255)                                  aTTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTa                                                        <  1:2378575/100‑1 (MQ=255)                                  aTTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTa                                                        <  1:6005287/100‑1 (MQ=255)                                  aTTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTa                                                        <  1:487308/100‑1 (MQ=255)                                    tACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTTAATAATAGTTAACAAGCAATATGTTGATGGTCTAac                                                      <  1:1298476/100‑1 (MQ=255)                                            aCATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCaaa                                              <  1:6574109/100‑1 (MQ=255)                                             cATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCACTAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAAc                                             <  1:5279851/100‑1 (MQ=255)                                             cATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTACCAAGCAATATGTTGATGGTCTAACACTCCAAAc                                             <  1:5889265/100‑1 (MQ=255)                                             cATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAAc                                             <  1:5688186/100‑1 (MQ=255)                                             cATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAAc                                             <  1:2975814/100‑1 (MQ=255)                                               ttGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTACAAACAg                                           <  1:6450130/100‑1 (MQ=255)                                                tGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGt                                          <  1:5107724/100‑1 (MQ=255)                                                tGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGt                                          <  1:5693107/100‑1 (MQ=255)                                                 ggATTTACGTGTAATTAATCTACTAGCATATAAATAGCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTa                                         <  1:3936743/100‑1 (MQ=255)                                                 cgATCTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTa                                         <  1:3650866/99‑1 (MQ=255)                                                  gATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTac                                        <  1:1281208/100‑2 (MQ=255)                                                  gATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTaa                                        <  1:2198376/100‑2 (MQ=255)                                                  gATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTAt                                        <  1:2125646/100‑1 (MQ=255)                                                   aTTTATGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAggcag                                       <  1:2373064/100‑5 (MQ=255)                                                   aTTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATc                                       <  1:5172803/100‑1 (MQ=255)                                                    tttACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCa                                      <  1:716233/100‑1 (MQ=255)                                                     ttACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCaa                                     <  1:2280172/100‑1 (MQ=255)                                                     ttACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCaa                                     <  1:5285923/100‑1 (MQ=255)                                                     ttACGTGTATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCaa                                     <  1:4725965/100‑1 (MQ=255)                                                        tgtgtATTTAATCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAAtta                                  <  1:4758183/99‑2 (MQ=255)                                                           tcttccgaTCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCag                               <  1:955807/93‑2 (MQ=255)                                                                  atctgttaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTcc                        <  1:351715/94‑1 (MQ=255)                                                                  aTCTGCTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTcc                        <  1:1737219/100‑1 (MQ=255)                                                                  aTCTGCTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTca                        <  1:2924596/100‑2 (MQ=255)                                                                  aTCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTcc                        <  1:4010285/100‑1 (MQ=255)                                                                  aTCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTcc                        <  1:4498073/100‑1 (MQ=255)                                                                  aTCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTcc                        <  1:6357747/100‑1 (MQ=255)                                                                  aTCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTcc                        <  1:2357097/100‑1 (MQ=255)                                                                   tCTACTAGTATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCa                       <  1:3584932/100‑1 (MQ=255)                                                                   tCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCa                       <  1:608760/100‑1 (MQ=255)                                                                   tCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCa                       <  1:1284704/100‑1 (MQ=255)                                                                   tCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCa                       <  1:3007924/100‑1 (MQ=255)                                                                   tCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCa                       <  1:4593163/100‑1 (MQ=255)                                                                   tCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCa                       <  1:3827784/100‑1 (MQ=255)                                                                   tCTACTAGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGCCCa                       <  1:2029724/100‑1 (MQ=255)                                                                    ctgctaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCaa                      <  1:5286754/97‑1 (MQ=255)                                                                    ctattaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCag                      <  1:1521745/100‑2 (MQ=255)                                                                    ctactaGTATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACCCGCCAAACAGTATCAATTTCATAATGTCCaa                      <  1:3513431/100‑1 (MQ=255)                                                                    ctactaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCaa                      <  1:3395256/100‑1 (MQ=255)                                                                    ctactaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCaa                      <  1:156032/100‑1 (MQ=255)                                                                     tactaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCaaa                     <  1:5698652/100‑1 (MQ=255)                                                                     ctacaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCaaa                     <  1:5266374/96‑1 (MQ=255)                                                                      actaGCATATGAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAAt                    >  1:2647158/1‑100 (MQ=255)                                                                      actaGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAAt                    >  1:3648967/1‑100 (MQ=255)                                                                         aGCATATAAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAAttct                 >  1:4083874/1‑100 (MQ=255)                                                                              ataAATATCTTGTTTTTCTTTCAATATTAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACg            <  1:1134323/100‑1 (MQ=255)                                                                              ataAATATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACg            <  1:241710/100‑1 (MQ=255)                                                                                aaaTATCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACGaa          <  1:2882619/100‑2 (MQ=255)                                                                                  atatCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACGattt        <  1:3803122/100‑2 (MQ=255)                                                                                    atCTTGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCagtggtgct      <  1:583344/100‑9 (MQ=255)                                                                                        tGTTTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACGATTATTAATa  >  1:6082606/1‑100 (MQ=255)                                                                                           |                                                                                                 GGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTGTCTTTCTTTCAATAATAGTTAACAAGCAATATGTTGATGGTCTAACACTCCAAACAGTATCAATTTCATAATGTCCAAATTCTTCACGATTATTAATA  >  NC_007793/1631278‑1631464

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑