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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,017,703 |
T→C |
12.9% |
N1175D (AAC→GAC) |
rhsB ← |
rhsB element core protein RshB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,017,703 | 0 | T | C | 12.9%
| 158.8
/ 14.3
| 62 | N1175D (AAC→GAC) | rhsB | rhsB element core protein RshB |
| Reads supporting (aligned to +/- strand): ref base T (32/22); new base C (3/5); total (35/27) |
| Fisher's exact test for biased strand distribution p-value = 2.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CATCATACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAGCGC > W3110S.gb/4017634‑4017760
|
catcatACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTg > 1:4319726/1‑71 (MQ=34)
atcatACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGtt < 1:3480034/69‑1 (MQ=35)
atcatACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGc > 1:3627337/1‑71 (MQ=34)
atcatACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGc < 1:1752779/71‑1 (MQ=34)
atcatACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGc < 1:4405417/71‑1 (MQ=34)
atACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGccc > 1:4517920/1‑70 (MQ=35)
tACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCa > 1:2578004/1‑71 (MQ=34)
ctgcCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGccc > 1:3718923/1‑64 (MQ=35)
ctgcCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtcat > 1:3985109/1‑71 (MQ=34)
ctgcCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtca < 1:4087639/70‑1 (MQ=35)
ctgcCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCACtc < 1:2328411/69‑1 (MQ=25)
tgcCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtcat > 1:3631792/1‑70 (MQ=35)
gcCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtcatca > 1:678614/1‑71 (MQ=35)
ccccGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtcatca > 1:870433/1‑70 (MQ=37)
ccccGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtca < 1:3976256/67‑1 (MQ=35)
cccGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCata < 1:4454545/71‑1 (MQ=39)
ccGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTCGCCCCATTCATCata > 1:1092352/1‑70 (MQ=255)
gCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTCGcccc < 1:2886092/57‑1 (MQ=255)
ccGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTgcg > 1:3466368/1‑70 (MQ=37)
tAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGcaccac > 1:1792733/1‑71 (MQ=35)
tAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGcaccac > 1:4471175/1‑71 (MQ=35)
tAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGcaccac > 1:7008/1‑71 (MQ=35)
aaGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACg > 1:1515996/1‑71 (MQ=38)
gctgctGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCt > 1:1029605/1‑71 (MQ=40)
gctgctGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCt < 1:3989112/71‑1 (MQ=40)
gctgctGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTCGCCCCATTCATCATATTCTGCGCACCACGCt < 1:1847099/71‑1 (MQ=255)
ctgcttCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTg < 1:2567677/71‑1 (MQ=255)
tgctgcAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGcacca > 1:786884/1‑65 (MQ=35)
gctgcAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGtt > 1:195973/1‑71 (MQ=255)
ctgcAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCTTCATATTCTGCGCACCACGCTGt < 1:42191/69‑1 (MQ=255)
tgcAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGc > 1:3718220/1‑71 (MQ=255)
gcAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCt > 1:1176722/1‑53 (MQ=35)
gcAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGcaccac < 1:455822/62‑1 (MQ=37)
cTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCt < 1:4036418/61‑1 (MQ=255)
cTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCtt > 1:3893048/1‑71 (MQ=40)
tGATGCGGGTTCTCTTCATTCAGCAGGTTG‑‑CCATTCATCATATTc > 1:2079367/1‑45 (MQ=11)
gATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATtcatca > 1:4422842/1‑41 (MQ=32)
gATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTcc > 1:3352164/1‑71 (MQ=39)
aTGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCg < 1:1778066/71‑1 (MQ=39)
tGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTcc < 1:704746/69‑1 (MQ=40)
tGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGt < 1:1970642/71‑1 (MQ=39)
gCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGccc < 1:1983706/63‑1 (MQ=40)
cGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGc > 1:1585624/1‑71 (MQ=39)
gggTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCt > 1:1924373/1‑42 (MQ=38)
ggTTCTCTTCATTCAGCAGGTCGCCCCATTCATCata < 1:3801000/37‑1 (MQ=255)
ggTTCTCTTCATTCAGCAGGTCGCCCCATTCATCata < 1:1766175/37‑1 (MQ=255)
gTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATAtt < 1:609393/38‑1 (MQ=40)
gTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGt > 1:210751/1‑54 (MQ=255)
gTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGt > 1:205019/1‑54 (MQ=255)
ttCTCTTCATTCAGCAGGTTGCCCCATTCATCata < 1:3240154/35‑1 (MQ=40)
ttCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGcacca < 1:3888224/47‑1 (MQ=38)
tctcTTCATTCAGCAGGTTGCCCCATTCATCATATTCTg > 1:3102495/1‑39 (MQ=40)
tctcTTCATTCAGCAGGTTGCCCCATTCATCATATTCTg > 1:2718997/1‑39 (MQ=40)
ctctTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCtgatg < 1:3704978/70‑1 (MQ=40)
ctctTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCtgat > 1:252781/1‑69 (MQ=40)
ttcattcaGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCtgatga < 1:563/68‑1 (MQ=37)
ttcattcaGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAgcg > 1:1505312/1‑71 (MQ=35)
tcattcaGCAGGTCGCCCCATTCATCATATTCTGCGCACCACGc > 1:1334903/1‑44 (MQ=255)
cattcaGCAGGTTGCCCCATTCCTCATATTCTGCGca > 1:1014866/1‑37 (MQ=255)
cattcaGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAgcg < 1:3246588/69‑1 (MQ=35)
cattcaGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAgc < 1:2265494/68‑1 (MQ=35)
cattcaGCAGGTCGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAgcgc > 1:157131/1‑70 (MQ=25)
cattcaGCAGGTCGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAgcgc < 1:1142593/70‑1 (MQ=25)
|
CATCATACTGCTGCCCCGGCAGCCGGATAAGCTGCTGCAGCTGATGCGGGTTCTCTTCATTCAGCAGGTTGCCCCATTCATCATATTCTGCGCACCACGCTGTTGCCCCTTCCGTGCTGATGAGCGC > W3110S.gb/4017634‑4017760
|
| 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
