| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | pSIJ663_pHT315_araE_xy | 5,612 | T→A | 71.5% | intergenic (+881/–) | ampR → / – | –/– |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | pSIJ663_pHT315_araE_xy | 5,612 | 0 | T | A | 71.5% | 29.5 / 9.5 | 21 | intergenic (+881/–) | ampR/– | –/– |
| Reads supporting (aligned to +/- strand): ref base T (3/3); new base A (9/6); total (12/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 | |||||||||||
CGGAGCCTATGGAAAAACGCCAGCAACGCGGCCTTTTTACGGTTCCTGGCCTTTTGCTGGCCTTTTGCTCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGTTATGACACAAAAAAGCGCAGCTATTTCAGCTGCGCTTTTTTCGAAACAAACGCATTTGACCAAACAAGCAGACAAAAAAGGCGATGGGATAGATCACCATTTCATAAGTATTGATAGGTGCGTTTAAAACACC > pSIJ663_pHT315_araE_xy/5476‑5745 | cgaagccTATGGAAAAACGCCAGCAACGCGGCCTTTTTACGGTTCCTGGCCTTTTGCTGGCCTTTTGCTCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGTTA > 2:263830‑M1/4‑139 (MQ=255)cgaagccTATGGAAAAACGCCAGCAACGCGGCCTTTTTACGGTTCCTGGCCTTTTGCTGGCCTTTTGCTCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGTTA < 6:93295‑M1/136‑1 (MQ=255) aaaaAGCCAGGAAGGCTGACTTTTTAGTGTTAGTTGCCTTTTGATGGCCTTTTGCTCACATGTTGTTTCCTGCGTTTTCGCATGATTCTGTGGATAAAGGTTTTACCGCATTTGATTGATCTGTTATGACACaataatg < 8:132058/139‑3 (MQ=255) cGCCAGCAACGCGGCCTTTTTACGGTTCCTGGCCTTTTGCTGGCCTTTTGCTCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGTTATGACACAAAAAAgcg > 4:401897/1‑137 (MQ=255) tACGGTTCCTGGCCTTTTGCTGGCCTTTTGCTCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagt < 6:223250‑M1/138‑37 (MQ=255) ggcttttgctggccttttgctcaCATGTTCTTTCCTGCGTTATCCCCTTATTATGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgcctcagccgaacgaccgagcgcagcgagtcagtgagcgagg < 2:31225‑M1/137‑49 (MQ=255) ttgctCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaccgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcc > 2:235153‑M1/1‑75 (MQ=255) aTGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgca < 4:413644‑M1/139‑73 (MQ=255) cTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGTTATGACACAAAAAAGCGCAGCTATTTCAGCTGCGCTTTTTTCGAAACAAACGCATTTGACCAAACAAGCAGACAAAAAAGGCGa < 1:263830/139‑1 (MQ=255) cTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgcccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaacccgcctct > 8:140298‑M1/1‑57 (MQ=255) cTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccga < 5:186671‑M1/138‑100 (MQ=255) tgtgGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgagg > 5:314254‑M1/1‑38 (MQ=255) tgtgGATAACCGTATTACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgagg < 6:314254‑M1/86‑49 (MQ=255) tgGATAACCGTATTACCGCCTTTGAGTGAGCTGTTATGACACAAAAAAGCGCAGCTATTTCAGCTGCGCTTTTTTCGAAACAAACGCATTTGACCAAACAAGCAGACAAAAAAGGCGATGGGATAGATCACCATTTCa > 1:110992/1‑138 (MQ=255) ttACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgccca > 8:21184‑M1/1‑24 (MQ=255) ttACCGCCTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgccca < 7:21184‑M1/89‑66 (MQ=255) ccTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacga > 6:178218‑M1/1‑18 (MQ=255) ccTTTGAGTGAGCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacga > 1:107955‑M1/1‑18 (MQ=255) tttGAGTGAGCTGATAccgctcgccgcagccgaacgaccgcgcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacgaca > 4:247448‑M1/1‑16 (MQ=255) agCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacgacaggtttccc > 5:258800‑M1/1‑8 (MQ=255) agCTGATAccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacgacaggtttcac > 7:147542‑M1/1‑8 (MQ=255) | CGGAGCCTATGGAAAAACGCCAGCAACGCGGCCTTTTTACGGTTCCTGGCCTTTTGCTGGCCTTTTGCTCACATGTTCTTTCCTGCGTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGTTATGACACAAAAAAGCGCAGCTATTTCAGCTGCGCTTTTTTCGAAACAAACGCATTTGACCAAACAAGCAGACAAAAAAGGCGATGGGATAGATCACCATTTCATAAGTATTGATAGGTGCGTTTAAAACACC > pSIJ663_pHT315_araE_xy/5476‑5745 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |