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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,303,559 |
A→C |
S217R (AGT→AGG) |
h16_A2116 ← |
Putative DNA polymerase bacteriophage‑type,uracil‑DNA glycosylase superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,303,559 | 0 | A | C | 100.0%
| 82.5
/ NA
| 22 | S217R (AGT→AGG) | h16_A2116 | Putative DNA polymerase bacteriophage‑type,uracil‑DNA glycosylase superfamily |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (12/10); total (12/10) |
TAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGC > AM260479/2303443‑2303686
|
tAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAgcgc > 2:266919/1‑134 (MQ=255)
caccacGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTggc < 2:776250/134‑1 (MQ=255)
cATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGAt < 2:872672/112‑1 (MQ=255)
cATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGAt > 1:872672/1‑112 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 2:844631/103‑1 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc > 1:844631/1‑103 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCgg > 2:527300/1‑134 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCgg > 1:833406/1‑134 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 1:178442/98‑1 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc > 2:178442/1‑98 (MQ=255)
gctgcGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcgggcg > 1:125486/1‑134 (MQ=255)
ctgcGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcgggcgg < 1:527300/134‑1 (MQ=255)
gACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAg > 1:778547/1‑134 (MQ=255)
gACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAg > 2:966466/1‑134 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 2:386057/61‑1 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc > 1:386057/1‑61 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGt < 1:793956/134‑1 (MQ=255)
cAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcg > 2:524725/1‑107 (MQ=255)
cAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcg < 1:524725/107‑1 (MQ=255)
aaaGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGa < 2:778547/134‑1 (MQ=255)
gCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTg > 2:60093/1‑134 (MQ=255)
gATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCcgc < 1:60093/134‑1 (MQ=255)
|
TAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGC > AM260479/2303443‑2303686
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
AGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCG > AM260479/2303416‑2303701
|
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGC < GWNJ‑0478:712:GW2002102894th:2:1106:13504:27618/101‑1 (MQ=60)
acagGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTACCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACC < GWNJ‑0478:712:GW2002102894th:2:1111:7713:45587/146‑1 (MQ=60)
CCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACtgtctct > GWNJ‑0478:712:GW2002102894th:2:2206:5994:62751/1‑143 (MQ=60)
cggagatgtgtataagagacagGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCAC < GWNJ‑0478:712:GW2002102894th:2:1113:18523:52571/128‑1 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACctgtctcttatacacat > GWNJ‑0478:712:GW2002102894th:2:2205:5613:86142/1‑133 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGG > GWNJ‑0478:712:GW2002102894th:2:2205:14862:13300/1‑150 (MQ=60)
GCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGG > GWNJ‑0478:712:GW2002102894th:2:1109:2936:39231/1‑150 (MQ=60)
gtataagagacagGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTG < GWNJ‑0478:712:GW2002102894th:2:2101:17730:44041/137‑1 (MQ=60)
GTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGC > GWNJ‑0478:712:GW2002102894th:2:2201:20233:38958/1‑150 (MQ=60)
GCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCAC < GWNJ‑0478:712:GW2002102894th:2:2101:9476:62322/150‑1 (MQ=60)
GCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACctttcgcttatacacatatccgaacctacgagaccggggtccacctcgtatgccgtctt > GWNJ‑0478:712:GW2002102894th:2:1209:15542:61833/1‑91 (MQ=60)
GCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACAT < GWNJ‑0478:712:GW2002102894th:2:2203:19057:46117/150‑1 (MQ=60)
CCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCG > GWNJ‑0478:712:GW2002102894th:2:1110:4024:72203/1‑149 (MQ=60)
CGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCG < GWNJ‑0478:712:GW2002102894th:2:1104:16003:16211/150‑1 (MQ=60)
|
AGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCG > AM260479/2303416‑2303701
|
| 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: ‑ |
