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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,671,661 |
G→A |
29.1% |
R204Q (CGG→CAG) |
rhlB → |
ATP‑dependent RNA helicase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,671,661 | 0 | G | A | 29.1%
| 84.4
/ 40.0
| 55 | R204Q (CGG→CAG) | rhlB | ATP‑dependent RNA helicase |
| Reads supporting (aligned to +/- strand): ref base G (25/14); new base A (9/7); total (34/21) |
| Fisher's exact test for biased strand distribution p-value = 7.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGAAAA > W3110S.gb/3671596‑3671729
|
gTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTAc > 1:1458007/1‑71 (MQ=255)
ttCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTAc < 1:3969709/70‑1 (MQ=255)
ccgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGt > 1:1544529/1‑70 (MQ=255)
cgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTg < 1:631305/70‑1 (MQ=255)
tATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTg < 1:2254440/70‑1 (MQ=255)
tATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTg < 1:2929413/70‑1 (MQ=255)
ccgccTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTa > 1:808671/1‑57 (MQ=255)
ccgccTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTa > 1:1613832/1‑57 (MQ=255)
ccgccTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTa > 1:2754994/1‑57 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa < 1:3618124/70‑1 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa < 1:1441179/70‑1 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAg > 1:4085141/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAg > 1:549788/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAg > 1:3632328/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAg > 1:3288307/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAg > 1:1739300/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCa < 1:1505287/70‑1 (MQ=255)
aCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTg < 1:2108654/51‑1 (MQ=255)
aCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTg < 1:1907075/51‑1 (MQ=255)
ccAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGaa > 1:1658277/1‑52 (MQ=255)
ccAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGaa > 1:3556278/1‑52 (MQ=255)
cAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGaa > 1:972566/1‑51 (MQ=255)
gcCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAAt < 1:110812/71‑1 (MQ=255)
gcCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAAt < 1:1778153/71‑1 (MQ=255)
tCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:25770/1‑67 (MQ=255)
tCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:1694087/1‑67 (MQ=255)
tCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:3675772/1‑67 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa > 1:337070/1‑56 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa > 1:869155/1‑56 (MQ=255)
tGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGaa > 1:503820/1‑38 (MQ=255)
tGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata > 1:1523245/1‑70 (MQ=255)
cTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAatatat > 1:1332914/1‑71 (MQ=255)
ttCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTg < 1:1986258/70‑1 (MQ=255)
ctcCGCGACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGATCa > 1:521316/1‑53 (MQ=255)
ctcCGCCACGCTTTCGTATCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:1296119/1‑54 (MQ=255)
ctcCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGa < 1:889354/69‑1 (MQ=255)
ctcCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAg > 1:3868121/1‑71 (MQ=255)
ctcCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAg > 1:1620213/1‑71 (MQ=255)
cGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGaa > 1:359536/1‑67 (MQ=255)
gcgaCGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTgg < 1:2140536/67‑1 (MQ=255)
gCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGa < 1:166163/71‑1 (MQ=255)
cACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACa > 1:3656107/1‑47 (MQ=255)
cACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACa > 1:998929/1‑47 (MQ=255)
aCGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAAcc > 1:105675/1‑71 (MQ=255)
gCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAAt < 1:2427545/46‑1 (MQ=255)
ttCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGa < 1:520690/57‑1 (MQ=255)
cGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAg > 1:3800381/1‑57 (MQ=255)
tACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaa < 1:423268/71‑1 (MQ=255)
tACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaa < 1:142412/71‑1 (MQ=255)
tACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaa < 1:1471425/71‑1 (MQ=255)
tACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaa < 1:2977498/71‑1 (MQ=255)
ccGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaaaa > 1:1222672/1‑71 (MQ=255)
ccGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaaaa > 1:3736708/1‑71 (MQ=255)
ccGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaaaa > 1:2941830/1‑71 (MQ=255)
ccGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaaaa > 1:2527463/1‑71 (MQ=255)
|
GTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGAAAA > W3110S.gb/3671596‑3671729
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
