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 |
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%
| 94.4
/ NA
| 26 | E259E (GAA→GAG) | fliM | flagellar motor switch protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/14); total (12/14) |
GGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAG > AM260480/635751‑636005
|
gggCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcg < 2:762242/134‑1 (MQ=255)
gCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcgcg < 1:445262/134‑1 (MQ=255)
cACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcgcgc < 1:497750/134‑1 (MQ=255)
aCCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGt > 2:703122/1‑134 (MQ=255)
aCCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGt < 1:703122/134‑1 (MQ=255)
gCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGa > 1:260354/1‑132 (MQ=255)
cTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGt < 2:260354/134‑1 (MQ=255)
cGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCGCGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcg < 2:887493/93‑1 (MQ=255)
cGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCGCGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcg > 1:887493/1‑93 (MQ=255)
aTCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGAc > 2:832180/1‑134 (MQ=255)
gcagcaCGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGActtcc > 2:661537/1‑134 (MQ=255)
ccAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATtcatc < 1:661537/134‑1 (MQ=255)
ccAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATtcatc < 1:832180/134‑1 (MQ=255)
cAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcgcg < 1:561630/64‑1 (MQ=255)
cAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCcgcg > 2:561630/1‑64 (MQ=255)
cGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGc > 1:588650/1‑134 (MQ=255)
aGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGAc < 2:521891/65‑1 (MQ=255)
aGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGAc > 1:521891/1‑65 (MQ=255)
gAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTg > 2:218397/1‑67 (MQ=255)
gAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTg < 1:218397/67‑1 (MQ=255)
aCTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACggc < 1:22648/134‑1 (MQ=255)
cTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTcc > 2:562858/1‑82 (MQ=255)
cTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTcc < 1:562858/82‑1 (MQ=255)
caccaGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGc < 2:247475/109‑1 (MQ=255)
caccaGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGc > 1:247475/1‑109 (MQ=255)
tCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAg > 2:897608/1‑134 (MQ=255)
|
GGGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAG > AM260480/635751‑636005
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ 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
GGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGCTGCCCGCCGACGGCGCC > AM260480/635752‑636023
|
acggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGAC < GWNJ‑0478:712:GW2002102894th:2:2105:14267:36318/94‑1 (MQ=60)
GGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGAC < GWNJ‑0478:712:GW2002102894th:2:1212:18356:9438/150‑1 (MQ=60)
GCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACA < GWNJ‑0478:712:GW2002102894th:2:1216:20432:2215/150‑1 (MQ=60)
CACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGAC > GWNJ‑0478:712:GW2002102894th:2:1201:6059:55722/1‑148 (MQ=60)
CACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGAC < GWNJ‑0478:712:GW2002102894th:2:2112:13783:23754/150‑1 (MQ=60)
CCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCGCGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2207:7792:88516/1‑123 (MQ=60)
gcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCG < GWNJ‑0478:712:GW2002102894th:2:1115:4449:85895/97‑1 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagacagCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATC < GWNJ‑0478:712:GW2002102894th:2:2105:16359:44282/112‑1 (MQ=60)
GCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGC < GWNJ‑0478:712:GW2002102894th:2:2111:18633:74776/150‑1 (MQ=60)
GCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGC < GWNJ‑0478:712:GW2002102894th:2:2205:8667:42827/150‑1 (MQ=60)
CCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCG > GWNJ‑0478:712:GW2002102894th:2:2107:11981:15616/1‑150 (MQ=60)
GCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccg > GWNJ‑0478:712:GW2002102894th:2:2101:6844:58241/1‑95 (MQ=60)
gtgtataagagacaGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCA < GWNJ‑0478:712:GW2002102894th:2:2102:17992:4708/135‑1 (MQ=60)
GTGCGCGAACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1116:14164:62447/1‑139 (MQ=60)
AACTCGGCCACCAGCTCCACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGC < GWNJ‑0478:712:GW2002102894th:2:1103:6369:58050/150‑1 (MQ=60)
CACCTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGCTGCCCGCCGACGGCGCC > GWNJ‑0478:712:GW2002102894th:2:1213:14388:34018/1‑150 (MQ=60)
|
GGCACGCCGTCCACCTTGCCGAACACCTTCTCCGGCAGCTCGATCGGCAGCACGTCGCCGGCGCGCATCGCCAGCACTTCGGCCACGGTGCTCTGCAGGTGCGCGAACTCGGCCACCAGCTCCACTTCGGCCGCGCGCAGCTGCGTGGACAGTTGCGTGACCCAGCCCTTGTCGACTTCCTTCTCGTCCTGCAGCGGATTCATCAGCAGGTCCTTGAGCGGCTCGATCATCGCGTACGGCAGGCACACGTGGAGCTGCCCGCCGACGGCGCC > AM260480/635752‑636023
|
| 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: ‑ |
