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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
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%
| 113.1
/ NA
| 29 | I358F (ATC→TTC) | phrB | deoxyribodipyrimidine photo‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (14/15); total (14/15) |
TGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGCC > NZ_CP009273/735946‑736120
|
tGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTc < 2:224908/91‑1 (MQ=255)
gCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACt < 2:995832/91‑1 (MQ=255)
gCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACt > 1:240840/1‑80 (MQ=255)
gCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACt < 2:240840/80‑1 (MQ=255)
aaCAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcgagc < 1:231972/91‑1 (MQ=255)
aaCAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcgagc < 2:293280/91‑1 (MQ=255)
aaCAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcgagc < 2:114456/91‑1 (MQ=255)
cAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcgagcga < 2:1033118/91‑1 (MQ=255)
ctggctggATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATAttt > 2:295135/1‑91 (MQ=255)
tggctggATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTc < 1:1020756/91‑1 (MQ=255)
tggctggATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTc < 2:400778/91‑1 (MQ=255)
ggctggATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCa > 1:777572/1‑91 (MQ=255)
gATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgc < 2:663766/73‑1 (MQ=255)
gATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgc > 1:663766/1‑73 (MQ=255)
cATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGc < 2:684494/91‑1 (MQ=255)
aTAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCt > 2:498699/1‑91 (MQ=255)
aGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCtgattg > 2:261360/1‑91 (MQ=255)
ggCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCtgattga > 1:297856/1‑91 (MQ=255)
cTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATg > 2:614648/1‑91 (MQ=255)
tACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATgg > 1:764127/1‑91 (MQ=255)
cGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTg > 1:1093469/1‑91 (MQ=255)
gatTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcg < 1:1041093/53‑1 (MQ=255)
gatTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGgcg > 2:1041093/1‑53 (MQ=255)
gatTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTg > 2:325931/1‑91 (MQ=255)
gatTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTg > 2:193525/1‑91 (MQ=255)
gatTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTg > 2:145009/1‑91 (MQ=255)
gTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGtggct < 2:809038/91‑1 (MQ=255)
aGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAg < 1:295135/91‑1 (MQ=255)
aTTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGcc < 2:64066/91‑1 (MQ=255)
|
TGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGCC > NZ_CP009273/735946‑736120
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ 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
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGCCGCTTCAACCGGAA > NZ_CP009273/735934‑736133
|
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTCCGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGT > SRR3722125.376505/1‑101 (MQ=60)
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGT > SRR3722125.1031820/1‑101 (MQ=60)
GATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCG < SRR3722125.883496/101‑1 (MQ=60)
CTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGC > SRR3722125.245671/1‑101 (MQ=60)
tgggctcggagatgtgtataagagacagGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTT < SRR3722125.1064433/73‑1 (MQ=60)
TAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCA > SRR3722125.794491/1‑101 (MQ=60)
AACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCAT < SRR3722125.236609/101‑1 (MQ=60)
GCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTctgtctct > SRR3722125.678072/1‑93 (MQ=60)
TGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGC < SRR3722125.1043623/101‑1 (MQ=60)
ATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGA > SRR3722125.303945/1‑101 (MQ=60)
CATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGG > SRR3722125.780684/1‑101 (MQ=60)
TAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTG > SRR3722125.1118075/1‑101 (MQ=60)
AGATTTATTGTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGCCGCTT < SRR3722125.301143/101‑1 (MQ=60)
GTTCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGCCGCTTCAACCGGAA > SRR3722125.412854/1‑101 (MQ=60)
|
CCCGATTGTTGATGCCGCTATGCGTCAGCTTAACAGCACTGGCTGGATGCATAACAGGCTACGGATGATTACAGCCAGTTTTCTGGTGAAAGATTTATTGATCGACTGGCGCGAAGGCGAGCGATATTTCATGTCGCAGCTGATTGATGGTGATTTGGCAGCCAATAACGGTGGCTGGCAGTGGGCCGCTTCAACCGGAA > NZ_CP009273/735934‑736133
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
