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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
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%
| 67.2
/ NA
| 16 | coding (2604/2652 nt) | glnE | glutamine synthetase adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (8/8); total (8/8) |
GGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCG > AM260479/1230983‑1231241
|
ggACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACgg < 1:458966/134‑1 (MQ=255)
ccgccgCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTg < 1:21466/134‑1 (MQ=255)
ccgccgCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTg > 2:21466/1‑134 (MQ=255)
cgaGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGcacagcc < 1:188284/134‑4 (MQ=255)
gagaTCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGcacagccg < 2:667234/134‑5 (MQ=255)
gCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCAcc > 2:354377/1‑134 (MQ=255)
gccgcAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCAccc < 1:586786/127‑1 (MQ=255)
gccgcAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCAccc > 2:586786/1‑127 (MQ=255)
gccgcAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCt > 1:227082/1‑133 (MQ=255)
ccgcAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGa > 1:754221/1‑134 (MQ=255)
cGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAg < 1:27932/40‑1 (MQ=38)
cGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAg > 2:27932/1‑40 (MQ=255)
cggcggCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGc > 2:774383/1‑115 (MQ=255)
cggcggCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGc < 1:774383/115‑1 (MQ=255)
ggcggcATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGc < 2:646285/134‑1 (MQ=255)
cggcATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGcca < 2:227082/134‑3 (MQ=255)
tCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCg > 1:97127/1‑134 (MQ=255)
|
GGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCG > AM260479/1230983‑1231241
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
TGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGC > AM260479/1230978‑1231268
|
ttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCT < GWNJ‑0478:712:GW2002102894th:2:2208:16654:80625/79‑1 (MQ=60)
gggggctgacagatctagttcacacccatctgttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGG < GWNJ‑0478:712:GW2002102894th:2:1112:18494:91889/42‑1 (MQ=60)
AGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGC < GWNJ‑0478:712:GW2002102894th:2:1212:5649:55141/150‑1 (MQ=60)
tttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTG < GWNJ‑0478:712:GW2002102894th:2:1103:9874:97050/70‑1 (MQ=60)
GCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCACAGC < GWNJ‑0478:712:GW2002102894th:2:1103:15322:54561/150‑1 (MQ=60)
ACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGC < GWNJ‑0478:712:GW2002102894th:2:1112:4084:6968/150‑1 (MQ=60)
AGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTG > GWNJ‑0478:712:GW2002102894th:2:1114:20487:21523/1‑149 (MQ=60)
GATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2211:6822:92304/1‑117 (MQ=60)
GATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGAC > GWNJ‑0478:712:GW2002102894th:2:2114:21222:61754/1‑150 (MQ=60)
ATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGtctcttatacacatctccgagcccacgagacggagc > GWNJ‑0478:712:GW2002102894th:2:1210:12098:61801/1‑114 (MQ=60)
GCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAA < GWNJ‑0478:712:GW2002102894th:2:2104:11505:55655/150‑1 (MQ=60)
ttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATAT < GWNJ‑0478:712:GW2002102894th:2:2203:5242:30570/80‑1 (MQ=60)
ATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1208:6837:40766/1‑80 (MQ=60)
gacagCCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATC < GWNJ‑0478:712:GW2002102894th:2:2116:2007:77140/145‑1 (MQ=60)
agatgtgtataagagacagGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCcacgc < GWNJ‑0478:712:GW2002102894th:2:1202:19285:96368/131‑6 (MQ=60)
GCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGG > GWNJ‑0478:712:GW2002102894th:2:1106:9037:61153/1‑150 (MQ=60)
acGGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTC < GWNJ‑0478:712:GW2002102894th:2:1206:20406:51894/148‑1 (MQ=60)
GTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGC > GWNJ‑0478:712:GW2002102894th:2:2101:6963:97154/1‑150 (MQ=60)
|
TGCCAGGACCGCGATGCCGCCGCGCTGCGCGACGAGATCATGCAGATGCGCCGCAAGGTCGCCGAAGGCCATCCCAACCCGACCGACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGC > AM260479/1230978‑1231268
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
