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 |
1,008,267 |
C→T |
21.4% |
C340C (TGC→TGT) |
ydgI → |
predicted arginine/ornithine antiporter transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,008,267 | 0 | C | T | 21.4%
| 171.3
/ 40.1
| 84 | C340C (TGC→TGT) | ydgI | predicted arginine/ornithine antiporter transporter |
| Reads supporting (aligned to +/- strand): ref base C (35/31); new base T (7/11); total (42/42) |
| Fisher's exact test for biased strand distribution p-value = 4.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
CCCGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCATCGCCTC > minE/1008198‑1008335
|
cccGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGc > 1:3079729/1‑70 (MQ=255)
cccGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGc < 1:2176824/70‑1 (MQ=255)
ccGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGt > 1:559644/1‑71 (MQ=255)
ccGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGt > 1:187861/1‑71 (MQ=255)
cgcgCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTg > 1:2449160/1‑71 (MQ=255)
cgcgCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTg < 1:1518920/71‑1 (MQ=255)
cgcgCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTT‑ACCAACATCTGCGTg > 1:1077372/1‑70 (MQ=255)
gcgcATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTg > 1:2487689/1‑70 (MQ=255)
aTTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAAt < 1:3356579/71‑1 (MQ=255)
tttttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAAtt > 1:3308891/1‑71 (MQ=255)
ttttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGc > 1:3760498/1‑61 (MQ=255)
tttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTg > 1:1313379/1‑71 (MQ=255)
tttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTg > 1:818012/1‑71 (MQ=255)
ttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTg < 1:3376247/70‑1 (MQ=255)
ttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTAACTGTGGTTGACCAACATCTGCGTGCAAAttt < 1:1941201/69‑1 (MQ=255)
gcgcgcCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGt < 1:2051594/69‑1 (MQ=255)
cgcCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTgg > 1:1133596/1‑70 (MQ=255)
cgcCAGAACGCACAAGCTGCGCCATCC‑CCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTa < 1:3148062/71‑1 (MQ=255)
gcCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTa > 1:3812258/1‑71 (MQ=255)
cAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACt > 1:2989902/1‑71 (MQ=255)
cAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACt > 1:64800/1‑71 (MQ=255)
cAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACt < 1:1348632/71‑1 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTc < 1:1430436/71‑1 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACt > 1:1148343/1‑70 (MQ=255)
gAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGt > 1:400869/1‑61 (MQ=255)
gAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCa < 1:1285880/71‑1 (MQ=255)
aaCGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCAt < 1:1282652/71‑1 (MQ=255)
aaCGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCAt < 1:1966787/71‑1 (MQ=255)
aCGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATc > 1:2033346/1‑71 (MQ=255)
aCGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATc < 1:601473/71‑1 (MQ=255)
cGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAt < 1:1488590/54‑1 (MQ=255)
cGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAt < 1:1515321/54‑1 (MQ=255)
caAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCt < 1:718124/71‑1 (MQ=255)
caAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCt < 1:3139009/71‑1 (MQ=255)
aaGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCt > 1:85101/1‑70 (MQ=255)
aGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTc > 1:679559/1‑53 (MQ=255)
aGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTc > 1:1195798/1‑53 (MQ=255)
gCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAttt < 1:3476296/49‑1 (MQ=255)
gCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGAc < 1:1140345/71‑1 (MQ=255)
cTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGAcc < 1:487810/71‑1 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCAt > 1:1726354/1‑58 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTgg > 1:574112/1‑62 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTgg > 1:2899465/1‑62 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGt < 1:2630288/47‑1 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCgg < 1:3420696/70‑1 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGt < 1:3329947/71‑1 (MQ=255)
cgcCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGt < 1:984744/71‑1 (MQ=255)
gcCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAAt < 1:1864404/42‑1 (MQ=255)
gcCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAt < 1:2138904/42‑1 (MQ=255)
ccATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTc > 1:1513929/1‑71 (MQ=255)
cGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAttt > 1:242499/1‑38 (MQ=255)
cGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCt > 1:2383425/1‑53 (MQ=255)
cGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGAt > 1:1170375/1‑70 (MQ=255)
gCCTCACTGTGGTTGACCAACATCTGTGTGCTAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGAt < 1:2672282/69‑1 (MQ=255)
gCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCt < 1:2182830/52‑1 (MQ=255)
ccTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTac < 1:3203136/71‑1 (MQ=255)
ccTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTc < 1:3015185/39‑1 (MQ=255)
cTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTaca < 1:2284491/71‑1 (MQ=255)
cTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCTTCTGGCTGACCGGTTCCGTTTaca < 1:730208/71‑1 (MQ=255)
tCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaa > 1:2380923/1‑71 (MQ=255)
tCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTac < 1:1988741/69‑1 (MQ=255)
aCTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaaca > 1:2291833/1‑71 (MQ=255)
aCTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaaca > 1:691343/1‑71 (MQ=255)
cTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAacac > 1:2160889/1‑71 (MQ=255)
tgtgGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGAtt < 1:3189464/63‑1 (MQ=255)
gtgGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGt > 1:1415594/1‑71 (MQ=255)
gtgGTTGACCAACATCTGCCTGCAAATTTGTCTGGTACTCATCTGGCTGa > 1:1776386/1‑50 (MQ=255)
tgGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTac > 1:2530322/1‑63 (MQ=255)
tgGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTac > 1:3776942/1‑63 (MQ=255)
tgGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGt < 1:2071198/70‑1 (MQ=255)
gTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGAtt < 1:2418195/59‑1 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTg > 1:1418606/1‑67 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTg > 1:2257301/1‑67 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGa > 1:2313872/1‑71 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGa > 1:483025/1‑71 (MQ=255)
aCCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCt > 1:1583152/1‑68 (MQ=255)
aCCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCt > 1:3058617/1‑68 (MQ=255)
aCCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCt > 1:3348670/1‑68 (MQ=255)
ccAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCgg < 1:1421614/46‑1 (MQ=255)
ccAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGAcc < 1:2599008/71‑1 (MQ=255)
aCATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCATc < 1:1503771/71‑1 (MQ=255)
aCATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCATc < 1:3256936/71‑1 (MQ=255)
cATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGa < 1:1509120/38‑1 (MQ=255)
aTCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTcc < 1:2720836/45‑1 (MQ=255)
tCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGAcc > 1:1568476/1‑38 (MQ=255)
cTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTaca < 1:3609812/50‑1 (MQ=255)
cTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTg > 1:1222454/1‑58 (MQ=255)
cGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCATCGCCTc < 1:2356283/69‑1 (MQ=255)
|
CCCGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCATCGCCTC > minE/1008198‑1008335
|
| 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
