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 |
1,231,226 |
2 bp→CA |
intergenic (+63/‑151) |
glnE → / → h16_A1128 |
glutamine synthetase adenylyltransferase/Membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,231,226 | 0 | A | C | 100.0%
| 82.5
/ NA
| 22 | intergenic (+63/‑152) | glnE/h16_A1128 | glutamine synthetase adenylyltransferase/Membrane protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (11/11); total (11/11) |
| * | AM260479 | 1,231,227 | 0 | C | A | 100.0%
| 79.3
/ NA
| 22 | intergenic (+64/‑151) | glnE/h16_A1128 | glutamine synthetase adenylyltransferase/Membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (11/11); total (11/11) |
TGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTC > AM260479/1231118‑1231327
||
tGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGc < 1:233370/115‑1 (MQ=255)
tGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGc > 2:233370/1‑115 (MQ=255)
cAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTa > 1:651452/1‑134 (MQ=255)
tgctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTc < 2:651452/134‑1 (MQ=255)
ctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCcg > 2:1092670/1‑134 (MQ=255)
gcacagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCcgcgcgc > 2:1049924/7‑134 (MQ=255)
acagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTc < 2:277866/121‑1 (MQ=255)
acagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTc > 1:277866/5‑125 (MQ=255)
acagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCcgcg > 2:897927/5‑129 (MQ=255)
acagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCcgcg < 1:897927/125‑1 (MQ=255)
gcgcACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGAt > 2:145930/1‑102 (MQ=255)
gcgcACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGAt < 1:145930/102‑1 (MQ=255)
cACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCt < 1:1049924/134‑1 (MQ=255)
gggCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATg > 2:432295/1‑134 (MQ=255)
atatCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCa > 1:340441/1‑127 (MQ=255)
atatCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCa < 2:340441/127‑1 (MQ=255)
gcgcTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTcg < 1:432295/133‑1 (MQ=255)
gcgcTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTcg < 1:1092670/133‑1 (MQ=255)
gctgcGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGccc > 2:649324/1‑133 (MQ=255)
cgcgcAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTc < 1:649324/134‑1 (MQ=255)
gcgcAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGAt < 1:335925/56‑1 (MQ=38)
gcgcAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGAt > 2:335925/1‑56 (MQ=39)
||
TGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTC > AM260479/1231118‑1231327
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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
CATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTCGGTGGCGCAGCAGACCGGACAGGTGCGCG > AM260479/1231094‑1231356
|
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)
ttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagacgcGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGC < GWNJ‑0478:712:GW2002102894th:2:1215:11791:15386/73‑1 (MQ=60)
ATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTAC > GWNJ‑0478:712:GW2002102894th:2:2104:13746:96412/1‑150 (MQ=60)
agagacagGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTC < GWNJ‑0478:712:GW2002102894th:2:2210:18075:63329/142‑1 (MQ=60)
gatgtgtataagagacagctgctgcacagCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTC < GWNJ‑0478:712:GW2002102894th:2:1109:8068:83530/121‑1 (MQ=60)
agcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTC < GWNJ‑0478:712:GW2002102894th:2:1205:9028:38937/86‑1 (MQ=60)
ACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCC > GWNJ‑0478:712:GW2002102894th:2:1116:12914:71010/1‑150 (MQ=60)
GCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGC < GWNJ‑0478:712:GW2002102894th:2:2202:4800:75937/149‑1 (MQ=60)
GCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCA < GWNJ‑0478:712:GW2002102894th:2:2212:12635:42932/150‑1 (MQ=60)
CGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCG > GWNJ‑0478:712:GW2002102894th:2:1205:14877:65667/1‑150 (MQ=60)
GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGccagtgccagcgtggcgtcgatccggcccagctcgccctctctcctcaacacctctcccagcccac > GWNJ‑0478:712:GW2002102894th:2:1213:15515:6043/1‑84 (MQ=60)
CGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTCGGTGG < GWNJ‑0478:712:GW2002102894th:2:1209:12795:89445/149‑1 (MQ=60)
CGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTCGGTGG < GWNJ‑0478:712:GW2002102894th:2:2214:10583:58828/149‑1 (MQ=60)
GCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTCGGTGGCGCAGCAGAC < GWNJ‑0478:712:GW2002102894th:2:2104:9751:83446/150‑1 (MQ=60)
AGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgctt > GWNJ‑0478:712:GW2002102894th:2:1214:4452:38259/1‑86 (MQ=60)
|
CATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGGCAGGCGCATGCGCGCGTCGCGCCCGAGTCGGTGGCGCAGCAGACCGGACAGGTGCGCG > AM260479/1231094‑1231356
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
