| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 351,493 | 0 | T | . | 50.0% | 35.7 / 52.0 | 30 | intergenic (‑6570/+60383) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base T (7/8); new base . (4/11); total (11/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.50e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GTGTCTAAACTTTATAAGATTCCTCATTCTCAAGTCATTTATTGGTTAAAAGCCTTTCGTGAAAGAGGGCTTGATGGCATAAAATCGCCTTATACTAAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCGATTTAAAAG > 1/351448‑351737 | gtggctaaaCTTCATCAGATTCCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgcc < 1:295425‑M1/245‑144 (MQ=255) ggctaAACTTCATCAGATTCCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagc < 1:313133‑M1/240‑139 (MQ=255) cTAAACTTCATCAGATTCCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcat < 1:85033‑M1/250‑149 (MQ=255) cTAAACTTCATCAGATTCCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcat < 1:327219‑M1/250‑149 (MQ=255) aaCTTCATCAGATTCCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcatcgca > 1:48938‑M1/1‑99 (MQ=255) tcatcagattcCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcatcgcattta > 1:124268‑M1/6‑95 (MQ=255) tcatcagattcCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataattt > 1:241022‑M1/6‑95 (MQ=255) ctaaatttctcgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCaaaaa > 1:660182/13‑251 (MQ=11) taaatttctcgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAAc < 1:500863/240‑1 (MQ=11) taaatttctcgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAAc < 1:10064/240‑1 (MQ=11) taaatttctcgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAAc < 1:777479/240‑1 (MQ=11) taaatttctcgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAAc < 1:749024/240‑1 (MQ=11) aaatttctcgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTgggg > 1:270846/11‑239 (MQ=11) tCCTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcatcgcatttaaattcaat > 1:381160‑M1/1‑86 (MQ=255) ccTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgatagatagagcttgccttcatcgcatttaaattcaatca > 1:377559‑M1/1‑85 (MQ=255) ccTCATTCTCAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagag < 1:263412‑M1/198‑114 (MQ=255) cgttCTCAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAAc < 1:349475/249‑1 (MQ=14) tctcAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCg > 1:687968/1‑251 (MQ=255) ctcAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAAc > 1:736955/1‑238 (MQ=14) ctcAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatag < 1:508647‑M1/213‑136 (MQ=255) tcAAGTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcatcgcatttaaattcaatcacatcggtg < 1:501201‑M1/251‑175 (MQ=255) cAAGTCATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTgggg < 1:647501/225‑1 (MQ=11) gTCATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatag < 1:714722‑M1/208‑136 (MQ=255) cATTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAAt < 1:621030/215‑1 (MQ=11) cATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcatcgcatttaaattcaatcacatcggtgacccat > 1:131326‑M1/1‑71 (MQ=255) cATTTATTGATTAAAAGCCTTTCGTGAAAGAGGACTTGATGGCGTAAAATCACCTTATACTAAACCTAAAAtacccaaaatgaaaaaaatgcagattgaagtgactgaaacaaccgacttttcaccacaagccttgaaaaaactcaaacgagaagtcataggcgataatttcgccattgaagagatctttaattggtgataaatagagcttgccttcatcgcatttaaattcaatcacatcggtgacccat > 1:26145‑M1/1‑71 (MQ=255) aTTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCGATTTAAAAg < 1:472045/251‑1 (MQ=255) aTTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCGATTTAAAAg < 1:240872/251‑1 (MQ=255) aTTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCGATTTAAAAg < 1:395212/251‑1 (MQ=255) aTTTATTGG‑‑AAAAGCCTTTCGTGAAAGAGGGCTTGATGGCGTAAAATCACCTTACAC‑AAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAAAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCGATTTAAAAg < 1:155611/251‑1 (MQ=17) | GTGTCTAAACTTTATAAGATTCCTCATTCTCAAGTCATTTATTGGTTAAAAGCCTTTCGTGAAAGAGGGCTTGATGGCATAAAATCGCCTTATACTAAACCTAAAACCTCCAAAATTCTGAAACCCAAAATGAAAAAAACGCAGATTGAAGTGGCTGAAACAACCGACTTTTCACCACAAGCCTTTAAAAAACTGAAACGAGAACCCGCCCTTGAAAAAGCGGAGATTGATTATCTAAAAAAGTTAGTGGAATTGGGGCGATCAAAAACAAATTAAACTCGATTTAAAAG > 1/351448‑351737 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |