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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,517,378 |
T→G |
P77A (CCA→GCC) |
zntA ← |
putative heavy metal transporting P‑type ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,517,378 | 0 | T | G | 100.0%
| 58.0
/ NA
| 16 | P77A (CCA→GCC) | zntA | putative heavy metal transporting P‑type ATPase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (8/8); total (8/8) |
CAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCTGGCGCATAGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGGCCAG > AM260479/2517270‑2517503
|
cAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCa > 1:297405/1‑115 (MQ=255)
cAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATg > 1:249647/1‑134 (MQ=255)
tgtCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAAccg < 1:44691/134‑1 (MQ=255)
aGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACAcc < 2:249647/134‑1 (MQ=255)
gtcgATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGc < 2:331680/133‑1 (MQ=255)
gAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGa > 2:914730/1‑134 (MQ=255)
ggCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCa < 1:914730/134‑1 (MQ=255)
cATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGcc < 2:43434/133‑1 (MQ=255)
ccGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAAcc > 1:347328/1‑56 (MQ=255)
ccGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAAcc < 2:347328/56‑1 (MQ=255)
ggTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGAc > 1:719540/1‑112 (MQ=255)
ggTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGAc < 2:719540/112‑1 (MQ=255)
ggTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAg > 1:958295/1‑134 (MQ=255)
gcAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTcgg < 1:962182/82‑1 (MQ=255)
gcAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTcgg > 2:962182/1‑82 (MQ=255)
gcAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGGCCAg > 2:869396/1‑134 (MQ=255)
|
CAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCTGGCGCATAGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGGCCAG > AM260479/2517270‑2517503
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
CGGCGCGGCCGCTGTCCAGCGGGCGGACAAACTGGGCGCGCAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCTGGCGCATAGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGGCCAGCCGCGCACCGGC > AM260479/2517230‑2517515
|
CGGCGCGGCCGCTGTCCAGCGGGCGGACAAACTGGGCGCGCAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGG < GWNJ‑0478:712:GW2002102894th:2:1105:3123:81409/150‑1 (MQ=60)
CGGCGCGGCCGCTGTCCAGCGGGCGGACAAACTGGGCGCGCAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGG > GWNJ‑0478:712:GW2002102894th:2:2103:17400:19736/1‑150 (MQ=60)
cgggGGGCGGACAAACTGGGCGCGCAACGCGGGGGTGTCGTAGGCGGCCCAGGTCGGTGCGGCCTCGCGGCGGG‑‑‑CGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGC < GWNJ‑0478:712:GW2002102894th:2:2212:3070:40425/146‑1 (MQ=60)
GACAAACTGGGCGCGCAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCctgtc > GWNJ‑0478:712:GW2002102894th:2:1205:14546:10241/1‑145 (MQ=60)
GACAAACTGGGCGCGCAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGC > GWNJ‑0478:712:GW2002102894th:2:1116:16627:78675/1‑150 (MQ=60)
GTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACC < GWNJ‑0478:712:GW2002102894th:2:1102:18215:4776/150‑1 (MQ=60)
GTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCtgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:1212:6890:39677/1‑115 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagacagTCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGG < GWNJ‑0478:712:GW2002102894th:2:2213:12579:34926/112‑1 (MQ=60)
AAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgct > GWNJ‑0478:712:GW2002102894th:2:1206:10398:31582/1‑87 (MQ=60)
GGGCTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGC < GWNJ‑0478:712:GW2002102894th:2:2211:21080:56079/150‑1 (MQ=60)
CTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGctgtctct > GWNJ‑0478:712:GW2002102894th:2:2115:2658:22386/1‑142 (MQ=60)
CTTCATCCCCGTACAGGTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGG > GWNJ‑0478:712:GW2002102894th:2:2213:9866:12309/1‑150 (MQ=60)
GTGCGCAAAGCCGGCCGCATGGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGGCCAGCCGCGCACCGGC > GWNJ‑0478:712:GW2002102894th:2:2206:14163:32177/1‑150 (MQ=60)
|
CGGCGCGGCCGCTGTCCAGCGGGCGGACAAACTGGGCGCGCAACTCAGGGGTGTCGTAGGCGGCCCAGATCGGTTCGGCCTCGCGACGGGCGTCGTCGTCGATGGGGCGGGCGAAGCGGGCTTCATCCCCGTACAGGTGCGCAAAGCCTGGCGCATAGAGGGTCTGCGCCAATGCCTGGCAACCGCCGCAGCAGAACACCCGGCGGCTGCCGTCCAGCTCGGCGGCAAGCGGCTCGGTGTCCGTGACGGGCAGGCCGCAATGGAAGCAGGCCAGCCGCGCACCGGC > AM260479/2517230‑2517515
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
