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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,124,493 |
T→C |
47.6% |
intergenic (+95/‑12) |
damX → / → dam |
hypothetical protein/DNA adenine methylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,124,493 | 0 | T | C | 47.6%
| 2.2
/ 56.0
| 42 | intergenic (+95/‑12) | damX/dam | hypothetical protein/DNA adenine methylase |
| Reads supporting (aligned to +/- strand): ref base T (8/14); new base C (3/17); total (11/31) |
| Fisher's exact test for biased strand distribution p-value = 1.66e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCGGGAGTTGCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGTATCCCCTGC > W3110S.gb/4124429‑4124556
|
tGCGGGAGTTGCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAttagt < 1:3003051/68‑1 (MQ=255)
tGCGGGAGTTGCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAttagt < 1:2283000/68‑1 (MQ=255)
tGCGGGAGTTGCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt < 1:683055/68‑1 (MQ=255)
gCGGGAGTTGCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAttagt < 1:2673190/67‑1 (MQ=255)
tccTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGTAGAAGGTGTAAtcagt < 1:840385/57‑1 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCTGAGAAGGTGTAAtcagt < 1:1728201/58‑1 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt < 1:967978/58‑1 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt < 1:3719652/58‑1 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt > 1:124859/1‑58 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt < 1:320461/58‑1 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt < 1:2257564/58‑1 (MQ=255)
gCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCa > 1:3069635/1‑67 (MQ=255)
gcgcTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGaaaa < 1:843572/69‑1 (MQ=255)
gATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAAtcagt < 1:2568513/45‑1 (MQ=255)
tGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCt < 1:811527/69‑1 (MQ=255)
tGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCt < 1:2327480/69‑1 (MQ=255)
cGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATTGCGCttt < 1:2626417/65‑1 (MQ=255)
cGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCttt < 1:908727/65‑1 (MQ=255)
cGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCttt < 1:2775663/65‑1 (MQ=255)
tgAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:685203/67‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGACGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGa < 1:495391/69‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:2025143/68‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:87298/68‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:623568/68‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:3635947/68‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:3405984/68‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:2644966/68‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCTCTTTTTTGa < 1:1630233/69‑1 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCttttt > 1:399727/1‑66 (MQ=255)
ggAGCTTTCTCCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:3302632/68‑1 (MQ=255)
ttCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCt > 1:950212/1‑56 (MQ=255)
tctcCACAGCCGGAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGc > 1:3259147/1‑69 (MQ=255)
cacaGCCGGAGAAGGTGTAATCAGTTAGTCAGCAt < 1:3102101/35‑1 (MQ=255)
cacaGCCGGAGAAGGTGTAATCAGTTAGTCAGCAt < 1:250196/35‑1 (MQ=255)
caGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGaaaa < 1:1642623/41‑1 (MQ=255)
caGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGaaaa > 1:2204652/1‑41 (MQ=255)
aGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:833694/54‑1 (MQ=255)
aGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:852894/54‑1 (MQ=255)
aGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTg < 1:442717/54‑1 (MQ=255)
aGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGa > 1:267253/1‑55 (MQ=255)
aGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGa > 1:1263537/1‑55 (MQ=255)
cGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAg < 1:2243290/69‑1 (MQ=255)
ggAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAg < 1:1170551/68‑1 (MQ=255)
ggAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGt < 1:2619111/69‑1 (MQ=255)
ggAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGt < 1:1051764/69‑1 (MQ=255)
ggAGAAGGTGTAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGt < 1:876234/69‑1 (MQ=255)
aaGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGa > 1:1595168/1‑47 (MQ=255)
aaGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGa > 1:200191/1‑47 (MQ=255)
tgtAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGTATCCCCTg < 1:3596797/69‑1 (MQ=255)
gtAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGTATCCCCTGc > 1:1196325/1‑69 (MQ=255)
gtAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGTATCCCCTGc > 1:1422332/1‑69 (MQ=255)
gtAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGaa < 1:891304/43‑1 (MQ=255)
gtAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGaa < 1:1069115/43‑1 (MQ=255)
gtAATCAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGaa < 1:1148459/43‑1 (MQ=255)
ttagttagTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGc > 1:397650/1‑45 (MQ=255)
ttagttagTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGc > 1:3530330/1‑45 (MQ=255)
ttagttagTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGc > 1:3433964/1‑45 (MQ=255)
ttagttagTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGc > 1:246412/1‑45 (MQ=255)
|
TGCGGGAGTTGCCTGAAGCGCTGGATGCTGTCGGAGCTTTCTCCACAGCCGGAGAAGGTGTAATTAGTTAGTCAGCATGAAGAAAAATCGCGCTTTTTTGAAGTGGGCAGGGGGCAAGTATCCCCTGC > W3110S.gb/4124429‑4124556
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
