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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,573,339 |
T→C |
28.8% |
intergenic (+29/‑66) |
ysaB → / → glyQ |
hypothetical protein/glycine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,573,339 | 0 | T | C | 28.8%
| 91.2
/ 47.5
| 66 | intergenic (+29/‑66) | ysaB/glyQ | hypothetical protein/glycine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (25/22); new base C (8/11); total (33/33) |
| Fisher's exact test for biased strand distribution p-value = 5.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
TGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAAT > minE/2573271‑2573404
|
tGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGtata < 1:1281872/70‑1 (MQ=255)
tGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGtata < 1:586279/70‑1 (MQ=255)
aCGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCt < 1:3199686/71‑1 (MQ=255)
cgGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGtat < 1:2002985/64‑1 (MQ=255)
gATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTtcca < 1:3121106/70‑1 (MQ=255)
tGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTtccatc > 1:3821690/1‑70 (MQ=255)
ggCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTtccatc > 1:3856533/1‑69 (MQ=255)
gCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:1282650/71‑1 (MQ=255)
ccATTTTTTGCATCTTTCCATGCGTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGc < 1:3545743/71‑1 (MQ=255)
cATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCg > 1:635819/1‑71 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTtccat > 1:3222381/1‑64 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCgg < 1:161784/71‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCggg < 1:2590114/71‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCggg < 1:23949/71‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCggg < 1:2362479/71‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCgg > 1:1774731/1‑70 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:2320038/1‑71 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:1418642/1‑71 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCggg > 1:3625832/1‑69 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:599776/70‑1 (MQ=255)
ttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGtat < 1:1988829/70‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:1627846/65‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtc < 1:2236741/52‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtc < 1:2168231/52‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtc < 1:492052/52‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGa < 1:32536/71‑1 (MQ=255)
tCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCt < 1:1540638/49‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATc > 1:2935690/1‑71 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATc > 1:3881590/1‑71 (MQ=255)
tttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCtt < 1:1466346/48‑1 (MQ=255)
ttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATcc > 1:1991702/1‑70 (MQ=255)
ccATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTATTGTATATCTTCCATCCAGCGGGTATACTGATCcct < 1:2096044/70‑1 (MQ=255)
ccATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCcctt > 1:375782/1‑71 (MQ=255)
cATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTtccatcc < 1:3199737/50‑1 (MQ=255)
cATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGTGTATACTGATCcctt < 1:3880849/70‑1 (MQ=255)
cATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCccttc > 1:1691747/1‑71 (MQ=255)
aTGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGtata > 1:2984662/1‑59 (MQ=255)
tGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCccttcct < 1:568359/71‑1 (MQ=255)
tGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCccttcct > 1:43537/1‑71 (MQ=255)
gCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCccttcctt > 1:3261944/1‑71 (MQ=255)
gCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCccttcctt > 1:1423844/1‑71 (MQ=255)
gTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa < 1:2204223/71‑1 (MQ=255)
ttAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCggg < 1:2783029/50‑1 (MQ=255)
ttAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa > 1:2930578/1‑70 (MQ=255)
ttAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa < 1:3241368/70‑1 (MQ=255)
ttAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa < 1:2981567/70‑1 (MQ=255)
tAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATcc > 1:349569/1‑60 (MQ=255)
tAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATcc > 1:745736/1‑60 (MQ=255)
tAAGCCATGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATc > 1:6196/1‑59 (MQ=255)
aGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATc < 1:3666062/71‑1 (MQ=255)
gCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATcc < 1:1479558/71‑1 (MQ=255)
ccTGCTTTTTCCCGTTTCGTACTGTATATCTtcca < 1:1497950/35‑1 (MQ=255)
ccTGCTTTTTCCCGTTTCGTACTGTATATCTtcca < 1:2617077/35‑1 (MQ=255)
tGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCacac > 1:1670708/1‑71 (MQ=255)
gCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACg > 1:111509/1‑71 (MQ=255)
ttCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATc < 1:1653431/70‑1 (MQ=255)
tCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATc > 1:3804492/1‑59 (MQ=255)
tCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATc > 1:2162060/1‑59 (MQ=255)
gTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCAc > 1:3254568/1‑71 (MQ=255)
tttCGTACTGTATATCTTCCATCCAGCGGGTATACTGAt > 1:2344292/1‑39 (MQ=255)
tttCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCAc > 1:257095/1‑70 (MQ=255)
tCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGa < 1:655384/70‑1 (MQ=255)
gTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAaat < 1:948701/71‑1 (MQ=255)
tACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAaat > 1:3096497/1‑70 (MQ=255)
cTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTa > 1:2059966/1‑55 (MQ=255)
cTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTa > 1:2920224/1‑55 (MQ=255)
cTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAaataa > 1:293267/1‑70 (MQ=255)
cTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAaataat < 1:1937055/71‑1 (MQ=255)
cTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAaataa > 1:796905/1‑70 (MQ=255)
|
TGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAAT > minE/2573271‑2573404
|
| 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
