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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
736,034 |
A→T |
I358F (ATC→TTC) |
phrB → |
deoxyribodipyrimidine photo‑lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 736,034 | 0 | A | T | 100.0%
| 116.2
/ NA
| 30 | I358F (ATC→TTC) | phrB | deoxyribodipyrimidine photo‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (18/12); total (18/12) |
CCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGG > NZ_CP009273/735948‑736118
|
ccGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGa > 1:695976/1‑91 (MQ=255)
cTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTg > 2:61945/1‑91 (MQ=255)
cTATGCGGCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTg > 1:809304/1‑91 (MQ=255)
cTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcg < 1:369128/91‑1 (MQ=255)
ttAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcga < 2:10361/91‑1 (MQ=255)
aaCAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcgagc < 2:567256/91‑1 (MQ=255)
aaCAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcgagc < 2:17548/91‑1 (MQ=255)
gCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGata > 1:487971/1‑91 (MQ=255)
gCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGata > 2:210551/1‑91 (MQ=255)
gATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcg > 2:825821/1‑74 (MQ=255)
gATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcg < 1:825821/74‑1 (MQ=255)
aTGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGc < 2:400377/91‑1 (MQ=255)
tGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCa < 2:442868/91‑1 (MQ=255)
cATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGc < 1:726441/91‑1 (MQ=255)
cATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGc < 2:176061/91‑1 (MQ=255)
aTAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCt > 2:319148/1‑91 (MQ=255)
aTAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCt > 2:864845/1‑91 (MQ=255)
ggCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCtgattga > 2:118170/1‑91 (MQ=255)
cTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATg > 2:309735/1‑91 (MQ=255)
cTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATg > 1:535671/1‑91 (MQ=255)
tACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTACTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATgg > 1:329897/1‑91 (MQ=255)
aCGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGt > 1:447554/1‑91 (MQ=255)
aCGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGt > 1:349493/1‑91 (MQ=255)
cGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTg > 1:482756/1‑91 (MQ=255)
ttACAGTCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGc < 1:748413/91‑1 (MQ=255)
aCAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAg < 1:745229/91‑1 (MQ=255)
gAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGtggctgg > 1:823999/1‑91 (MQ=255)
ttATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGt < 1:599640/57‑1 (MQ=255)
ttATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGt > 2:599640/1‑57 (MQ=255)
ttATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTggg > 1:501415/1‑91 (MQ=255)
|
CCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGG > NZ_CP009273/735948‑736118
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGG > NZ_CP009273/735934‑736118
|
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGT > SRR3722118.455767/1‑101 (MQ=60)
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGT > SRR3722118.204347/1‑101 (MQ=60)
ATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGA > SRR3722118.711148/1‑101 (MQ=60)
GTTGATGCCGCTATGCGGCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTG > SRR3722118.827095/1‑101 (MQ=60)
CAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATA > SRR3722118.498294/1‑101 (MQ=60)
gagacagGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTT < SRR3722118.844007/94‑1 (MQ=60)
CTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTT < SRR3722118.376825/101‑1 (MQ=60)
acgagataggagtccgtctcgtgggctcggagatgtgtataagagacagGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGA < SRR3722118.847507/52‑1 (MQ=60)
GCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATG > SRR3722118.547036/1‑101 (MQ=60)
CATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGG < SRR3722118.742400/101‑1 (MQ=60)
CATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTACTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGG > SRR3722118.336674/1‑101 (MQ=60)
ATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGT > SRR3722118.456994/1‑101 (MQ=60)
ATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGT > SRR3722118.356741/1‑101 (MQ=60)
TAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTG > SRR3722118.492972/1‑101 (MQ=60)
ctcggagatgtgtataagagacagGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAG < SRR3722118.612429/77‑1 (MQ=60)
TTACAGTCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAAC < SRR3722118.764843/101‑1 (MQ=60)
ACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGG < SRR3722118.761605/101‑1 (MQ=60)
GTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGG > SRR3722118.842152/1‑101 (MQ=60)
GGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGG > SRR3722118.512052/1‑101 (MQ=60)
|
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGG > NZ_CP009273/735934‑736118
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
