Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F1 I1 R1
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
160,050 |
+C |
coding (314/939 nt) |
h16_A0146 → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 160,048 | 1 | . | C | 100.0%
| 68.9
/ NA
| 20 | R104R (CGA→CGC) | h16_A0146 | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (11/9); total (11/9) |
GCGCGACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGGGGTACGA‑CCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCG > AM260479/159937‑160166
|
gcgcGACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATg > 1:405978/1‑134 (MQ=255)
ggaaGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGcgacga < 2:117045/109‑1 (MQ=255)
ggCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGcgacga > 1:117045/1‑112 (MQ=255)
ggCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCaa > 2:108627/1‑134 (MQ=255)
gCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAAcc < 1:228014/132‑1 (MQ=255)
gCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAAcc > 2:228014/1‑132 (MQ=255)
gcgcGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTc > 2:730734/1‑113 (MQ=255)
gcgcGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTc < 1:730734/113‑1 (MQ=255)
ccgcTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAAc < 2:918703/110‑1 (MQ=255)
ccgcTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAAc > 1:918703/1‑110 (MQ=255)
gcggGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTAc > 2:358254/1‑134 (MQ=255)
gggCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCg < 2:395365/74‑1 (MQ=255)
gggCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCg > 1:395365/1‑74 (MQ=255)
gggCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATc < 1:75931/97‑1 (MQ=255)
gggCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATc > 2:75931/1‑97 (MQ=255)
gcggcgTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTc < 1:269868/134‑1 (MQ=255)
gATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCcg > 2:1012217/1‑134 (MQ=255)
tGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCcgcg < 1:154591/134‑1 (MQ=255)
gctACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACgg > 2:313325/3‑52 (MQ=38)
gctACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACgg < 1:313325/50‑1 (MQ=38)
|
GCGCGACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGGGGTACGA‑CCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCG > AM260479/159937‑160166
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCACCAGCCCGCAGGGCGCGACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGGGGTACGA‑CCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCGTGCTGTGGTTCCGCTTTGCCTTCCAGAGC > AM260479/159922‑160195
|
CCACCAGCCCGCAGGGCGCGACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGC > GWNJ‑0478:712:GW2002102894th:2:1211:12837:75634/1‑150 (MQ=60)
ACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTctgtctct > GWNJ‑0478:712:GW2002102894th:2:1108:1879:85630/1‑142 (MQ=60)
gagacagGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAAC < GWNJ‑0478:712:GW2002102894th:2:2115:18666:59223/143‑1 (MQ=60)
tcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGA < GWNJ‑0478:712:GW2002102894th:2:1205:18261:100133/83‑1 (MQ=60)
gtcgtagcgcacgccatcgacGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCctgtctcttatacacatctccgagcccacgagacggagc > GWNJ‑0478:712:GW2002102894th:2:2113:8523:93500/22‑111 (MQ=60)
gcGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCC < GWNJ‑0478:712:GW2002102894th:2:1114:15014:37592/148‑1 (MQ=60)
CGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCtgtctctt > GWNJ‑0478:712:GW2002102894th:2:2211:3342:49309/1‑141 (MQ=60)
cggagatgtgtataagagacagGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGAC < GWNJ‑0478:712:GW2002102894th:2:1107:5342:22557/127‑1 (MQ=60)
GTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGctgtctcttatacacatctccgagcccacgagacggagctacatct > GWNJ‑0478:712:GW2002102894th:2:1211:9885:16044/1‑104 (MQ=60)
GGCGGCGTCGATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCGTGCTG < GWNJ‑0478:712:GW2002102894th:2:1203:13697:3890/150‑1 (MQ=60)
ATGGCGTGCGCTACGACCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCGTGCTGTGGTTCCGCT < GWNJ‑0478:712:GW2002102894th:2:1110:12116:11743/150‑1 (MQ=60)
gacCCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCGTGCTGTGGTTCCGCTTTGCCTTCCAGAGC < GWNJ‑0478:712:GW2002102894th:2:1206:11202:90265/147‑1 (MQ=60)
|
CCACCAGCCCGCAGGGCGCGACCGAGATGGCGTCGGGCAGTGGCGGCGAGGGCAGCGCGGCCAGGCCTGCCGCCGCTGCCGCGCCGTCCGGCGGGCCGCAGGGCGGCGTCGATGGCGTGGGGTACGA‑CCGCCGCCGTCGGCGACGATGCACTACGCCAGCTTCGTCAACGGCGTGCAGAACCCCGACGGCCTGATCCGCTGGGAGCAGGACGGCAGCCGCTACCGGCTGGCGGTCGAAACCCGCGTGCTGTGGTTCCGCTTTGCCTTCCAGAGC > AM260479/159922‑160195
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
