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 F17 I0 R1
|
67 |
74.8 |
3863507 |
93.7% |
3620106 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,359,867 |
G→A |
42.9% |
noncoding (1228/2905 nt) |
rrlA ← |
23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,359,867 | 0 | G | A | 42.9%
| 126.9
/ 144.0
| 112 | noncoding (1228/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base G (26/38); new base A (32/16); total (58/54) |
| Fisher's exact test for biased strand distribution p-value = 7.72e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
Only 100 of 113 total aligned reads displayed.
CCCGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAG > minE/2359815‑2359937
|
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:982880/1‑71 (MQ=31)
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca < 1:212637/71‑1 (MQ=31)
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:1733050/1‑71 (MQ=31)
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca < 1:2382342/71‑1 (MQ=31)
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca < 1:2979157/71‑1 (MQ=31)
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:1395476/1‑71 (MQ=31)
ccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:2238087/1‑70 (MQ=31)
gCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTACACAg < 1:3194566/71‑1 (MQ=21)
cTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAgg > 1:272478/1‑71 (MQ=255)
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:1158943/1‑71 (MQ=34)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:1982838/1‑70 (MQ=35)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACTTCACAGTACACCTTCACAGGCt > 1:3237563/1‑70 (MQ=11)
aTCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGttt < 1:1648548/70‑1 (MQ=11)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1076025/71‑1 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:3050425/71‑1 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1968080/71‑1 (MQ=255)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:2018014/71‑1 (MQ=255)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1474561/70‑1 (MQ=35)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:3828601/70‑1 (MQ=35)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1103909/70‑1 (MQ=35)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:3583028/1‑71 (MQ=255)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTc > 1:1625299/1‑71 (MQ=34)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTcac > 1:3135225/1‑54 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:580225/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3166627/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:2779957/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3500572/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1068439/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3739743/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:551030/1‑53 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTc > 1:925775/1‑71 (MQ=255)
aTGTCAGCATTCGAACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGc < 1:1031413/69‑1 (MQ=25)
tGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTc < 1:3102318/70‑1 (MQ=35)
gTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTccc > 1:3398049/1‑71 (MQ=34)
gTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTccc > 1:1723789/1‑71 (MQ=34)
cAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACa > 1:3513471/1‑59 (MQ=35)
cAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACa > 1:249889/1‑59 (MQ=35)
cAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcccc > 1:2916741/1‑70 (MQ=35)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCACTa > 1:822378/1‑71 (MQ=11)
gCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAc < 1:2800807/71‑1 (MQ=34)
gCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAc > 1:1601524/1‑71 (MQ=255)
cATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:2833997/1‑71 (MQ=34)
aTTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:1478719/1‑70 (MQ=255)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa < 1:3282223/52‑1 (MQ=11)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa < 1:2955148/52‑1 (MQ=11)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:3585397/55‑1 (MQ=11)
tCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1344490/1‑51 (MQ=11)
tCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1317250/1‑51 (MQ=11)
tCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1764836/1‑51 (MQ=11)
cGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:317859/1‑70 (MQ=255)
cGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:3675565/1‑70 (MQ=255)
cGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACAcaa > 1:1305419/1‑70 (MQ=11)
gCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:797339/1‑70 (MQ=35)
gCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:827773/1‑70 (MQ=35)
aCTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaac < 1:2952889/71‑1 (MQ=34)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:1334627/1‑70 (MQ=255)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:3809034/43‑1 (MQ=14)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:551332/48‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:3484645/48‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1826415/48‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:673706/48‑1 (MQ=11)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa > 1:2673193/1‑43 (MQ=38)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAacac < 1:189995/69‑1 (MQ=39)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAacac < 1:1691921/69‑1 (MQ=39)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:854926/1‑70 (MQ=40)
gATACCTCCAGCATACCTCACAGTACACCTTCACAGGc > 1:1772659/1‑38 (MQ=14)
gATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1752956/1‑41 (MQ=14)
gATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:1010879/1‑46 (MQ=11)
gATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:657911/1‑46 (MQ=11)
gATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:1961719/1‑46 (MQ=11)
gATACCTCCAGCATACCTCACAGTACAACTTCACAGGCTTACAGaa > 1:3446275/1‑46 (MQ=11)
aCCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:3725823/1‑71 (MQ=255)
aCCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTccc > 1:1091262/1‑50 (MQ=11)
aCCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTccc > 1:3076725/1‑50 (MQ=11)
ccTCCATCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1896869/71‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1920107/71‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1110712/71‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1189670/71‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1418103/71‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1839285/71‑1 (MQ=255)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa < 1:2894417/58‑1 (MQ=35)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa < 1:2375323/58‑1 (MQ=35)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATa < 1:1032138/64‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATa < 1:644766/64‑1 (MQ=40)
tCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1284265/38‑1 (MQ=14)
tCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:2878327/38‑1 (MQ=14)
tCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1371655/38‑1 (MQ=14)
ccAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACTCAACAACACATAGTGTCGCt > 1:942745/1‑71 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3858871/70‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt > 1:3147321/1‑70 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg > 1:1693216/1‑71 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg > 1:2152503/1‑71 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg > 1:3285568/1‑71 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg > 1:3704924/1‑71 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGcc < 1:551823/71‑1 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGcc < 1:2041832/71‑1 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGcc < 1:3625279/71‑1 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGcc < 1:1479399/71‑1 (MQ=255)
aTGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGc < 1:758109/71‑1 (MQ=255)
aTGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGc < 1:31929/71‑1 (MQ=255)
|
CCCGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAG > minE/2359815‑2359937
|
| 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
