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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
628,642 |
Δ1 bp |
coding (756/1206 nt) |
h16_A0595 ← |
Uncharacterized Fe‑S protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 628,641 | 0 | A | . | 100.0%
| 67.3
/ NA
| 16 | coding (757/1206 nt) | h16_A0595 | Uncharacterized Fe‑S protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (7/9); total (7/9) |
GCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCG > AM260479/628511‑628741
|
gCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCagc < 2:276430/133‑3 (MQ=255)
cacaTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑Agcggc > 2:983980/1‑134 (MQ=255)
caTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGgcgc < 1:753608/134‑1 (MQ=255)
gCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGAt < 2:528908/134‑1 (MQ=255)
gCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGgcg < 1:554579/134‑1 (MQ=255)
cTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGgcgc > 1:844677/1‑134 (MQ=255)
gCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGgcgcg < 2:799461/132‑1 (MQ=255)
ggTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCgg < 2:844677/134‑1 (MQ=255)
gcgcgcGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTAc > 1:761250/1‑80 (MQ=255)
gcgcgcGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTAc < 2:761250/80‑1 (MQ=255)
gcgGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGgcgc > 2:223562/1‑61 (MQ=255)
gcgGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGgcgc < 1:223562/61‑1 (MQ=255)
gAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGc > 1:500463/1‑134 (MQ=255)
ggCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTcg > 1:708077/1‑134 (MQ=255)
ccTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGT‑c > 1:804656/1‑43 (MQ=38)
ccTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGT‑c < 2:804656/43‑1 (MQ=38)
cAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAg < 2:650020/76‑1 (MQ=255)
cAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAg > 1:650020/1‑76 (MQ=255)
|
GCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCG > AM260479/628511‑628741
|
| 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
ACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGGA > AM260479/628514‑628778
|
aagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTAC < GWNJ‑0478:712:GW2002102894th:2:1112:15344:78370/92‑1 (MQ=60)
ACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTAC < GWNJ‑0478:712:GW2002102894th:2:2110:19138:11251/150‑1 (MQ=60)
CCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCG > GWNJ‑0478:712:GW2002102894th:2:2114:15959:74080/1‑150 (MQ=60)
AGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATG < GWNJ‑0478:712:GW2002102894th:2:1214:9917:61896/150‑1 (MQ=60)
CGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCtgtctcttatacacatctccgagcccacgagacactcgc > GWNJ‑0478:712:GW2002102894th:2:2110:18338:51588/1‑111 (MQ=60)
GCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCC > GWNJ‑0478:712:GW2002102894th:2:1212:5145:3749/1‑150 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacagAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGG < GWNJ‑0478:712:GW2002102894th:2:2113:12284:41976/103‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacagAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGG < GWNJ‑0478:712:GW2002102894th:2:2204:5977:98170/103‑1 (MQ=60)
ACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGG > GWNJ‑0478:712:GW2002102894th:2:2108:5640:64403/1‑150 (MQ=60)
CCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2112:17369:77160/1‑74 (MQ=60)
CTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCtgtctcttatacacatctccgagcccacgagacactcgctaat > GWNJ‑0478:712:GW2002102894th:2:2104:6647:21975/1‑107 (MQ=60)
GGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCtgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:2106:11476:3001/1‑109 (MQ=60)
GGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGG > GWNJ‑0478:712:GW2002102894th:2:1112:2548:37417/1‑149 (MQ=60)
GGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGG > GWNJ‑0478:712:GW2002102894th:2:2105:14451:100423/1‑149 (MQ=60)
AGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGGA > GWNJ‑0478:712:GW2002102894th:2:2108:1791:51548/1‑147 (MQ=60)
|
ACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGGA > AM260479/628514‑628778
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
