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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
464,946 |
A→G |
34.1% |
F531L (TTC→CTC) |
ybaE ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 464,946 | 0 | A | G | 34.1%
| 38.1
/ 38.4
| 41 | F531L (TTC→CTC) | ybaE | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (12/15); new base G (8/6); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 5.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.22e-01 |
ACCAGCCGCGCGGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGTTTTCT > W3110S.gb/464877‑465016
|
aCCAGCCGCGCGGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGaa > 1:675115/1‑70 (MQ=255)
gCCGCGCGGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAgcg > 1:721285/1‑71 (MQ=255)
cgcgcgGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAgcggc > 1:1025417/1‑71 (MQ=255)
gcgGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTc < 1:3561936/71‑1 (MQ=255)
gcgGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGt > 1:160229/1‑70 (MQ=255)
gCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCt > 1:3681670/1‑71 (MQ=255)
ccGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCAt > 1:565963/1‑71 (MQ=255)
ccGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCAt > 1:1293347/1‑71 (MQ=255)
ttCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTaa > 1:4098264/1‑71 (MQ=255)
tCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTc < 1:186623/56‑1 (MQ=255)
cGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTc < 1:1804989/47‑1 (MQ=255)
gCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATc > 1:1566494/1‑57 (MQ=255)
gCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATc > 1:3159888/1‑57 (MQ=255)
gCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATc > 1:2663462/1‑57 (MQ=255)
cGGGAGTGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGTCTa < 1:4608075/71‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGc < 1:1271190/45‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGc < 1:3359580/45‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTTGCTaaa < 1:656068/71‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:1387529/71‑1 (MQ=255)
gAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAg > 1:1375460/1‑43 (MQ=255)
aGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaaaa > 1:1954426/1‑71 (MQ=255)
gggCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGc < 1:297255/46‑1 (MQ=255)
cTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCttt < 1:1532984/71‑1 (MQ=255)
cTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:1174603/62‑1 (MQ=255)
cTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:1197069/62‑1 (MQ=255)
cTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:4480148/62‑1 (MQ=255)
cTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:555259/62‑1 (MQ=255)
aaTGCGATAGTGATAGTTGCGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCttt > 1:1837782/1‑69 (MQ=255)
aaTGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCttt > 1:1877017/1‑69 (MQ=255)
aaTGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCttt > 1:4652901/1‑69 (MQ=255)
aaTGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCttt > 1:4776180/1‑69 (MQ=255)
aTGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTc < 1:3486390/69‑1 (MQ=255)
aTGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTc < 1:1432715/69‑1 (MQ=255)
aTGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCa < 1:2947177/70‑1 (MQ=255)
tGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaaa > 1:1128610/1‑59 (MQ=255)
tGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCAGTCATTAAc > 1:3860712/1‑50 (MQ=255)
cGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAggg > 1:2582775/1‑70 (MQ=255)
cGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAggg > 1:429785/1‑70 (MQ=255)
cGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAggg < 1:422225/70‑1 (MQ=255)
atagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATc < 1:112908/71‑1 (MQ=255)
gtTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCgg < 1:5056301/70‑1 (MQ=255)
gAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGttt < 1:4665469/70‑1 (MQ=255)
aCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAg > 1:1958167/1‑52 (MQ=255)
aCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGTTttct < 1:4533826/71‑1 (MQ=255)
|
ACCAGCCGCGCGGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGTTTTCT > W3110S.gb/464877‑465016
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
