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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,374,409 |
A→G |
56.3% |
intergenic (‑65/‑315) |
nanR ← / → dcuD |
DNA‑binding transcriptional dual regulator/predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,374,409 | 0 | A | G | 56.3%
| 20.2
/ 59.7
| 48 | intergenic (‑65/‑315) | nanR/dcuD | DNA‑binding transcriptional dual regulator/predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (10/11); new base G (11/16); total (21/27) |
| Fisher's exact test for biased strand distribution p-value = 7.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.68e-01 |
ATTCTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACTATTGCGAAA > W3110S.gb/3374343‑3374475
|
aTTCTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATgg < 1:1498540/71‑1 (MQ=255)
tCTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATgg > 1:556425/1‑69 (MQ=255)
tCTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATgg > 1:1237365/1‑69 (MQ=255)
cTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAg > 1:1704970/1‑71 (MQ=255)
cTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAg > 1:1821627/1‑71 (MQ=255)
cTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAg > 1:1881078/1‑71 (MQ=255)
aaGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGAt < 1:1720058/62‑1 (MQ=255)
gTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGtttt < 1:1104222/70‑1 (MQ=255)
gTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGtttt < 1:1154284/70‑1 (MQ=255)
gTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGtttt < 1:525477/70‑1 (MQ=255)
gtgATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGTTTTctct > 1:2236887/1‑68 (MQ=255)
tgATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGtt < 1:646372/61‑1 (MQ=255)
tgATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGtt < 1:1854863/61‑1 (MQ=255)
tgATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTtg < 1:133391/70‑1 (MQ=255)
aTTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGtttt > 1:2406736/1‑61 (MQ=255)
ttAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAg > 1:2409197/1‑54 (MQ=255)
catcatCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCtcat < 1:12440/71‑1 (MQ=255)
atcatcAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCtcatc < 1:1034964/71‑1 (MQ=255)
atcatcAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCtcatc < 1:1232951/71‑1 (MQ=255)
atcatcAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCtcatc < 1:100919/71‑1 (MQ=255)
atcaGTGACATCCTATCACAGGATTGAAAGTA‑GGGGaaaa > 1:1175607/1‑40 (MQ=255)
atcaGTGACATCCTATCACAGGATTGAAAGTA‑GGGGaaaa > 1:2089032/1‑40 (MQ=255)
atcaGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAg > 1:13723/1‑46 (MQ=255)
atcaGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTcatcat > 1:1276450/1‑70 (MQ=255)
aGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTAc < 1:236946/70‑1 (MQ=255)
aGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTtc > 1:351038/1‑50 (MQ=255)
aCATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTa > 1:2043874/1‑65 (MQ=255)
aTCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAAtt < 1:1461985/71‑1 (MQ=255)
tCCTATCACAGGATTGAAAGTAGGGGGAAGATGGCAGGGTTTTCTCTTTGAGCCTCATCATTACCAt < 1:1549240/67‑1 (MQ=255)
tCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGTTTtctc < 1:1674874/45‑1 (MQ=255)
tCCTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGTTTtctc < 1:2085925/45‑1 (MQ=255)
tCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCtcatc < 1:567380/58‑1 (MQ=255)
cTATCACAGGATTGAAAGTA‑GGGGAAGATGGCAGGGTTTTCTCtt > 1:653180/1‑45 (MQ=255)
cTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAAc > 1:745702/1‑71 (MQ=255)
cTATCACAGGAGTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTaa > 1:1536560/1‑70 (MQ=255)
tCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACgg > 1:1634926/1‑70 (MQ=255)
acaGGATTGAAAGTA‑GGGGAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGaa > 1:1736161/1‑70 (MQ=255)
acaGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGaa > 1:807123/1‑70 (MQ=255)
gATTGAAAGTA‑GGGGAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAAtt < 1:672081/71‑1 (MQ=255)
gATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAAt < 1:2104527/58‑1 (MQ=255)
aTTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAAtt > 1:726846/1‑70 (MQ=255)
ttGAAAGTA‑GGGGAAGATGGCAGGGTTTTCTCTTtg > 1:856558/1‑36 (MQ=255)
gAAAGTA‑GGGGAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAAc < 1:2581800/70‑1 (MQ=255)
gAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAAc < 1:1474011/70‑1 (MQ=255)
aaaGTA‑GGGGAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACt < 1:256140/70‑1 (MQ=255)
gTA‑GGGGAAGATGGCAGGGTTTTCTCTTTGTGCCtcatc < 1:1602351/39‑1 (MQ=255)
ggAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACTATTGCGaaa < 1:508328/71‑1 (MQ=255)
ggAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACTATTGCGaaa < 1:2581163/71‑1 (MQ=255)
ggAAGATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACTATTGCGaaa < 1:2044254/71‑1 (MQ=255)
gAAGATTGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACTATTGCGaaa > 1:2257253/1‑70 (MQ=255)
aaTGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAAtt < 1:1683250/54‑1 (MQ=255)
|
ATTCTGTAAGGTCAGTGTGATTAACATCATCAGTGACATCCTATCACAGGATTGAAAGTA‑GGGGAAAATGGCAGGGTTTTCTCTTTGTGCCTCATCATTACCATAATTAACGGAATAATTAACTATTGCGAAA > W3110S.gb/3374343‑3374475
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
