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 |
619,859 |
G→T |
H108N (CAC→AAC) |
acrA1 ← |
Cation/multidrug efflux system, mebrane‑fusion component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 619,859 | 0 | G | T | 100.0%
| 117.6
/ NA
| 31 | H108N (CAC→AAC) | acrA1 | Cation/multidrug efflux system, mebrane‑fusion component |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (17/14); total (17/14) |
GAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTG > AM260479/619731‑619982
|
gAACTGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGcc < 2:414863/132‑1 (MQ=255)
gAACTGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGcc > 1:414863/1‑132 (MQ=255)
gAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGcc < 2:59241/132‑1 (MQ=255)
gAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGcc > 2:308045/1‑132 (MQ=255)
gcgcGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGt < 1:308045/134‑1 (MQ=255)
cgGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa < 1:999910/134‑1 (MQ=255)
gATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGcacca > 2:101815/1‑134 (MQ=255)
tCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa > 2:88716/1‑96 (MQ=255)
tCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa < 1:296788/96‑1 (MQ=255)
tCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa > 2:296788/1‑96 (MQ=255)
tCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa < 1:88716/96‑1 (MQ=255)
gCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGAccacca > 2:159131/1‑134 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCAc > 2:3667/1‑101 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCAc < 1:3667/101‑1 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGcc > 1:918731/1‑134 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGcc > 2:323870/1‑134 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGcc > 1:742167/1‑134 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGcc > 1:737112/1‑134 (MQ=255)
gcagcGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCgggg < 1:323870/134‑1 (MQ=255)
gcagcGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCgggg < 2:742167/134‑1 (MQ=255)
ccGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGgc > 1:655093/1‑134 (MQ=255)
cGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGgcg > 1:287601/1‑134 (MQ=255)
ttGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGgc < 1:101815/134‑1 (MQ=255)
ccGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCg > 1:732815/1‑75 (MQ=255)
ccGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCg < 2:732815/75‑1 (MQ=255)
ccGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCgcgcgc < 2:193748/114‑1 (MQ=255)
ccGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCgcgcgc > 1:193748/1‑114 (MQ=255)
cGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCt < 2:655093/134‑1 (MQ=255)
ggggTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTg > 1:216073/1‑134 (MQ=255)
tCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCgg < 1:33245/112‑1 (MQ=255)
tCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCgg > 2:33245/1‑112 (MQ=255)
|
GAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTG > AM260479/619731‑619982
|
| 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
GGTCCAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGCGCGCCTGCAGCCC > AM260479/619715‑619996
|
GGTCCAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCC < GWNJ‑0478:712:GW2002102894th:2:1206:5679:2318/148‑1 (MQ=60)
GTCCAGCGCCGCCTGGAACTGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCC > GWNJ‑0478:712:GW2002102894th:2:1210:18743:38385/1‑148 (MQ=60)
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCC < GWNJ‑0478:712:GW2002102894th:2:1216:19074:43312/102‑1 (MQ=60)
GGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCA < GWNJ‑0478:712:GW2002102894th:2:1205:20330:78340/150‑1 (MQ=60)
tacttggtgtttcttttattttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCA < GWNJ‑0478:712:GW2002102894th:2:1207:7220:90760/47‑1 (MQ=60)
GCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATAT < GWNJ‑0478:712:GW2002102894th:2:2215:10422:45529/150‑1 (MQ=60)
cggagatgtgtataagagacagCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATAT < GWNJ‑0478:712:GW2002102894th:2:1205:14024:6425/126‑1 (MQ=60)
cggagatgtgtataagagacagCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATAT < GWNJ‑0478:712:GW2002102894th:2:1107:8360:98179/126‑1 (MQ=60)
agatgtgtataagagacagTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCAC < GWNJ‑0478:712:GW2002102894th:2:1101:13150:27758/131‑1 (MQ=60)
TCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCG > GWNJ‑0478:712:GW2002102894th:2:2114:16762:23024/1‑150 (MQ=60)
TCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCG > GWNJ‑0478:712:GW2002102894th:2:2114:1840:52496/1‑150 (MQ=60)
TCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCG > GWNJ‑0478:712:GW2002102894th:2:2211:1429:79254/1‑150 (MQ=60)
ACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCG > GWNJ‑0478:712:GW2002102894th:2:2111:6753:37563/1‑150 (MQ=60)
CCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGC > GWNJ‑0478:712:GW2002102894th:2:1202:12896:45264/1‑150 (MQ=60)
AGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCC < GWNJ‑0478:712:GW2002102894th:2:1204:11365:81171/150‑1 (MQ=60)
agagacagCGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCtgcaggcgcgcag < GWNJ‑0478:712:GW2002102894th:2:1105:14707:29346/142‑14 (MQ=60)
CACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaacaaaaaaaga > GWNJ‑0478:712:GW2002102894th:2:1206:18493:19802/1‑60 (MQ=60)
CGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGatatggatgctgtctcttatacacatctccgagcccacgagacggagctacatc > GWNJ‑0478:712:GW2002102894th:2:2115:4798:97465/1‑96 (MQ=60)
CGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCtgtct > GWNJ‑0478:712:GW2002102894th:2:1112:10784:43699/1‑145 (MQ=60)
GTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGC > GWNJ‑0478:712:GW2002102894th:2:1115:12896:72160/1‑150 (MQ=60)
GTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGCGCGCC < GWNJ‑0478:712:GW2002102894th:2:1106:19084:82457/150‑1 (MQ=60)
gtataagagacaGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGCGCGCCTGCAGCCC < GWNJ‑0478:712:GW2002102894th:2:2113:10456:40575/138‑1 (MQ=60)
|
GGTCCAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGCGCGCCTGCAGCCC > AM260479/619715‑619996
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
