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 |
1,076,499 |
C→T |
P267L (CCG→CTG) |
cpaF3 → |
flp pilus assembly ATPase CpaF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,076,499 | 0 | C | T | 100.0%
| 107.9
/ NA
| 29 | P267L (CCG→CTG) | cpaF3 | flp pilus assembly ATPase CpaF |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (13/16); total (13/16) |
AGGACGAGCTATGCGAACTGGTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCCGGGTCCGCTCGAAGAGCCGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACGAC > AM260479/1076376‑1076623
|
aGGACGAGCTATGCGAACTGGTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTc < 2:838491/134‑1 (MQ=255)
aCTGGTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACg < 1:128714/134‑1 (MQ=255)
aCTGGTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCACGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGAc > 1:639525/1‑133 (MQ=255)
gTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt > 2:994891/1‑132 (MQ=255)
gTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt < 1:994891/132‑1 (MQ=255)
gTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCACGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGa < 2:639525/134‑1 (MQ=255)
tCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt > 2:635835/1‑131 (MQ=255)
tCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt < 1:635835/131‑1 (MQ=255)
gctgctCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGt < 1:226967/132‑1 (MQ=255)
agagCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTc > 1:843088/1‑83 (MQ=255)
agagCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTc < 2:843088/83‑1 (MQ=255)
tgtTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt > 1:638341/1‑95 (MQ=255)
tgtTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt < 2:638341/95‑1 (MQ=255)
tgtTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCAt < 1:411344/115‑1 (MQ=255)
tgtTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCAt > 2:411344/1‑115 (MQ=255)
tgtTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGAc > 1:413525/1‑131 (MQ=255)
ttCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt > 1:817409/1‑93 (MQ=255)
ttCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGAt < 2:817409/93‑1 (MQ=255)
ttCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGAc > 2:876505/1‑129 (MQ=255)
ccAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCa < 1:544845/117‑1 (MQ=255)
ccAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCa > 2:544845/1‑117 (MQ=255)
gaTCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAgcgcg > 1:507971/1‑134 (MQ=255)
gcgcTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGTTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGAc > 2:208638/1‑134 (MQ=255)
aaGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTc < 2:507971/134‑1 (MQ=255)
aGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCg < 1:758744/134‑1 (MQ=255)
aCGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTAcc > 1:252997/1‑134 (MQ=255)
aaGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACcgac < 1:103213/134‑1 (MQ=255)
tGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCgacgac < 2:252997/134‑1 (MQ=255)
tGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCgacgac < 1:876505/134‑1 (MQ=255)
|
AGGACGAGCTATGCGAACTGGTCGGCTCGCTGCTCGACGACATCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCCGGGTCCGCTCGAAGAGCCGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACGAC > AM260479/1076376‑1076623
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AACGTCGCGCGCATGGCCGAGGACGAGCTATGCGAACTGGTCGGCTCGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCCGGGTCCGCTCGAAGAGCCGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACGACCGCGCCGTGTTGGGCGCCATC > AM260479/1076357‑1076644
|
ttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTC < GWNJ‑0478:712:GW2002102894th:2:2104:7437:22810/77‑1 (MQ=60)
GGACGAGCTATGCGAACTGGTCGGCTCGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCACGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACG > GWNJ‑0478:712:GW2002102894th:2:2109:8750:44538/1‑149 (MQ=60)
AACTGGTCGGCTCGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGG < GWNJ‑0478:712:GW2002102894th:2:1109:5690:51177/150‑1 (MQ=60)
GGTCGGCTCGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAA < GWNJ‑0478:712:GW2002102894th:2:2109:17202:22072/148‑1 (MQ=60)
GGTCGGCTCGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAA < GWNJ‑0478:712:GW2002102894th:2:2215:8113:18056/148‑1 (MQ=60)
CGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGT < GWNJ‑0478:712:GW2002102894th:2:1114:18531:38188/148‑1 (MQ=60)
ACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACctgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:2209:18250:13980/1‑113 (MQ=60)
GACAGTCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGA < GWNJ‑0478:712:GW2002102894th:2:1210:20598:18328/150‑1 (MQ=60)
TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAActgtctcttatacacatctccgagc > GWNJ‑0478:712:GW2002102894th:2:2109:15986:37577/1‑125 (MQ=60)
TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACG > GWNJ‑0478:712:GW2002102894th:2:1210:5084:31093/1‑147 (MQ=60)
CTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAActgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2204:9345:46691/1‑123 (MQ=60)
cagGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGT < GWNJ‑0478:712:GW2002102894th:2:2102:4569:16049/147‑1 (MQ=60)
GTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGC > GWNJ‑0478:712:GW2002102894th:2:1216:4401:61498/1‑150 (MQ=60)
AAGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACC < GWNJ‑0478:712:GW2002102894th:2:2116:20317:52344/150‑1 (MQ=60)
AGCAGAGCGTCTTTGACGAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCG > GWNJ‑0478:712:GW2002102894th:2:1201:20091:4756/1‑150 (MQ=60)
atgtgtataagagacagGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACG < GWNJ‑0478:712:GW2002102894th:2:2215:15385:16828/133‑1 (MQ=60)
GAAGTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACGACCGCGCCGTGTTG < GWNJ‑0478:712:GW2002102894th:2:1106:13657:91395/150‑1 (MQ=60)
GTGATCGGGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACGACCGCGCCGTGTTGGGC < GWNJ‑0478:712:GW2002102894th:2:2207:10539:21275/150‑1 (MQ=60)
GGCTGGGTCCGCTCGAAGAGCTGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1113:7270:20827/1‑69 (MQ=60)
|
AACGTCGCGCGCATGGCCGAGGACGAGCTATGCGAACTGGTCGGCTCGCTGCTCGACGACA‑TCCTCAAGGAGAGCGTGTTCCGCAGCCAGGAGATCCCGCTGGACGCGCTCAAGCAGAGCGTCTTTGACGAAGTGATCGGGCCGGGTCCGCTCGAAGAGCCGCTGGACGATGACGCGGTCTCGGAAATCATGGTCAACTGCCATGACGAGATCTTTGTCGAGCGCGCCGGCAGGCTGACGCGTTCGCCGGTGATCTTTACCGACGACCGCGCCGTGTTGGGCGCCATC > AM260479/1076357‑1076644
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
