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 |
|
A0 F0 I1 R1
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,231,117 |
Δ1 bp |
coding (2606/2652 nt) |
glnE → |
glutamine synthetase adenylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,231,115 | 0 | G | . | 100.0%
| 63.5
/ NA
| 15 | coding (2604/2652 nt) | glnE | glutamine synthetase adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (7/8); total (7/8) |
TGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCT > AM260479/1230992‑1231231
|
tGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAcc > 1:781304/1‑134 (MQ=255)
cgcgCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACg < 2:700700/118‑1 (MQ=255)
cgcgCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACg > 1:700700/1‑118 (MQ=255)
gagaTCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGcacagccg > 2:1051912/1‑130 (MQ=255)
tGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCAc < 1:1051912/134‑1 (MQ=255)
gCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAc > 2:828418/1‑106 (MQ=255)
gCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAc < 1:828418/106‑1 (MQ=255)
gccgcAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCt > 2:1091126/1‑133 (MQ=255)
aaGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGAcgcg < 2:781304/134‑1 (MQ=255)
aGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGAcgcg > 2:413150/1‑123 (MQ=255)
aGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGAcgcg < 1:413150/123‑1 (MQ=255)
aaCCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCgct > 2:78648/1‑134 (MQ=255)
ttCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCggg < 1:1091126/134‑1 (MQ=255)
cGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGc < 2:697977/133‑1 (MQ=255)
cgcgGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGCgggc < 1:482399/90‑2 (MQ=255)
cgcgGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGCgggc > 2:482399/1‑89 (MQ=255)
aTGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGccacgct < 1:78648/134‑7 (MQ=255)
|
TGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCT > AM260479/1230992‑1231231
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ 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
CTGTGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTAC > AM260479/1230975‑1231256
|
agagacagGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:2110:15116:79241/142‑1 (MQ=60)
ttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:1204:16610:37211/73‑1 (MQ=60)
tttttgtttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:1209:20942:58548/67‑1 (MQ=60)
GTGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCT > GWNJ‑0478:712:GW2002102894th:2:2112:16219:25006/1‑150 (MQ=60)
GTGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCT > GWNJ‑0478:712:GW2002102894th:2:2110:18919:36853/1‑150 (MQ=60)
GTGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:1111:21174:62644/148‑1 (MQ=60)
GTGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:1212:18319:45795/148‑1 (MQ=60)
GGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCT > GWNJ‑0478:712:GW2002102894th:2:2108:11842:89104/1‑150 (MQ=60)
gtataagagacagGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC < GWNJ‑0478:712:GW2002102894th:2:2114:4999:62477/136‑1 (MQ=60)
GCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCG > GWNJ‑0478:712:GW2002102894th:2:2108:13091:73653/1‑150 (MQ=60)
ATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGC < GWNJ‑0478:712:GW2002102894th:2:2212:11948:53084/150‑1 (MQ=60)
CAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATAT < GWNJ‑0478:712:GW2002102894th:2:1208:7064:85604/150‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTG < GWNJ‑0478:712:GW2002102894th:2:1213:16627:47444/120‑1 (MQ=60)
atacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGC‑‑‑GCTGCGCGCAGC < GWNJ‑0478:712:GW2002102894th:2:2208:4854:33592/99‑1 (MQ=60)
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGC < GWNJ‑0478:712:GW2002102894th:2:2110:17115:50062/84‑1 (MQ=60)
CGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2102:8432:88864/1‑71 (MQ=60)
GTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGAT < GWNJ‑0478:712:GW2002102894th:2:2214:7479:51351/150‑1 (MQ=60)
CGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCA < GWNJ‑0478:712:GW2002102894th:2:2114:6305:85261/82‑1 (MQ=60)
CATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGG < GWNJ‑0478:712:GW2002102894th:2:1104:2833:95044/150‑1 (MQ=60)
gacaGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTaggcat < GWNJ‑0478:712:GW2002102894th:2:1115:3797:42425/146‑7 (MQ=60)
ATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGcaactgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2114:8099:19232/1‑73 (MQ=60)
ATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTAC > GWNJ‑0478:712:GW2002102894th:2:2104:13746:96412/1‑150 (MQ=60)
|
CTGTGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTAC > AM260479/1230975‑1231256
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
