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 |
AM260480 |
635,877 |
T→C |
E259E (GAA→GAG) |
fliM ← |
flagellar motor switch protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 635,877 | 0 | T | C | 100.0%
| 115.8
/ NA
| 30 | E259E (GAA→GAG) | fliM | flagellar motor switch protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/14); total (16/14) |
ACGGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGG > AM260480/635749‑635990
|
aCGGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGc < 2:518810/134‑1 (MQ=255)
gggCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcg < 2:653653/134‑1 (MQ=255)
aCCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGt < 1:380390/134‑1 (MQ=255)
ttGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGa > 1:684084/1‑134 (MQ=255)
cGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGt < 2:58641/134‑1 (MQ=255)
aaCACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcg < 2:472116/112‑1 (MQ=255)
aaCACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcg > 1:472116/1‑112 (MQ=255)
ttCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGAc > 1:684612/1‑134 (MQ=255)
tcCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGAcc > 2:426013/1‑132 (MQ=255)
cGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGc > 2:701193/1‑134 (MQ=255)
cGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTc > 2:788824/1‑133 (MQ=255)
aTCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGt > 1:187344/1‑111 (MQ=255)
aTCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGt < 2:187344/111‑1 (MQ=255)
cGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCg > 1:78649/1‑134 (MQ=255)
cATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGAt > 1:658311/1‑134 (MQ=255)
gCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcgcgc < 2:81202/67‑1 (MQ=255)
gCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcgcgc > 1:81202/1‑67 (MQ=255)
gCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATtcat < 2:821781/134‑1 (MQ=255)
ccAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCAACAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATtcatc < 1:581679/134‑1 (MQ=255)
cACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCg > 1:874336/1‑103 (MQ=255)
cACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCg < 2:874336/103‑1 (MQ=255)
tctGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGc < 1:932794/128‑1 (MQ=255)
tctGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGc > 2:932794/1‑128 (MQ=255)
tGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCg < 1:115289/132‑1 (MQ=255)
tGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATcgc > 1:157242/1‑134 (MQ=255)
gcgAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTa > 1:699369/1‑134 (MQ=255)
gcgAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTa > 1:111219/1‑134 (MQ=255)
cgAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTAc < 2:699369/134‑1 (MQ=255)
aaCTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACgg < 2:658311/134‑1 (MQ=255)
aaCTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACgg > 2:972395/1‑134 (MQ=255)
|
ACGGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGG > AM260480/635749‑635990
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ 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
GCCGAAGCCGCATTGCATGACGGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGCTGCCCGCCGACGGCGCC > AM260480/635730‑636023
|
GCCGAAGCCGCATTGCATGACGGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCT < GWNJ‑0478:712:GW2002102894th:2:2105:19847:89278/149‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGC < GWNJ‑0478:712:GW2002102894th:2:1114:10097:5065/117‑1 (MQ=60)
GGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGAC > GWNJ‑0478:712:GW2002102894th:2:2110:18388:88646/1‑150 (MQ=60)
CCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGctgtctct > GWNJ‑0478:712:GW2002102894th:2:1215:13903:44822/1‑142 (MQ=60)
CACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGAC < GWNJ‑0478:712:GW2002102894th:2:1209:2941:28604/150‑1 (MQ=60)
ACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACC > GWNJ‑0478:712:GW2002102894th:2:2110:10289:91944/1‑150 (MQ=60)
TTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCctgtctctt > GWNJ‑0478:712:GW2002102894th:2:1112:16891:5429/1‑141 (MQ=60)
GCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGT > GWNJ‑0478:712:GW2002102894th:2:1107:16572:39588/1‑150 (MQ=60)
CACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATT > GWNJ‑0478:712:GW2002102894th:2:2111:14750:37134/1‑150 (MQ=60)
TCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACActgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgc > GWNJ‑0478:712:GW2002102894th:2:1107:14591:56415/1‑97 (MQ=60)
CGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCctgtctcttatacacat > GWNJ‑0478:712:GW2002102894th:2:2206:13861:73357/1‑133 (MQ=60)
GCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCAACAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGC < GWNJ‑0478:712:GW2002102894th:2:2104:19593:47505/150‑1 (MQ=60)
ACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCG > GWNJ‑0478:712:GW2002102894th:2:1110:5220:27833/1‑150 (MQ=60)
ACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCG < GWNJ‑0478:712:GW2002102894th:2:2210:14453:31283/150‑1 (MQ=60)
GTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTAC > GWNJ‑0478:712:GW2002102894th:2:1108:19621:49173/1‑150 (MQ=60)
GTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTAC > GWNJ‑0478:712:GW2002102894th:2:2113:14055:76439/1‑150 (MQ=60)
CTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGC < GWNJ‑0478:712:GW2002102894th:2:1108:12165:74251/148‑1 (MQ=60)
CACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGCTGCCCGCCGACGGCGCC > GWNJ‑0478:712:GW2002102894th:2:1204:18475:31468/1‑150 (MQ=60)
|
GCCGAAGCCGCATTGCATGACGGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGCTGCCCGCCGACGGCGCC > AM260480/635730‑636023
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
