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 F8 I0 R1
|
22 |
59.8 |
3060272 |
94.8% |
2901137 |
61.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,359,867 |
G→A |
31.3% |
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 | 31.3%
| 139.1
/ 72.8
| 83 | noncoding (1228/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base G (28/29); new base A (9/17); total (37/46) |
| Fisher's exact test for biased strand distribution p-value = 2.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.64e-01 |
CCCGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCG > minE/2359815‑2359934
|
cccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1046526/1‑71 (MQ=9)
ccGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTcac < 1:1397621/71‑1 (MQ=255)
cTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca < 1:85245/67‑1 (MQ=31)
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2605350/1‑71 (MQ=34)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt < 1:2966414/70‑1 (MQ=35)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt < 1:2408087/70‑1 (MQ=35)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2470685/1‑70 (MQ=35)
tATCGTTACTTATGTCAGCACTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt < 1:2020251/70‑1 (MQ=25)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCtt < 1:326997/69‑1 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1996600/71‑1 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:2401469/71‑1 (MQ=34)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:2383137/70‑1 (MQ=35)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGa > 1:1432067/1‑69 (MQ=255)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAAc > 1:2504036/1‑71 (MQ=255)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAAc > 1:2676685/1‑71 (MQ=255)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAAc > 1:2766405/1‑71 (MQ=255)
cTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:998016/69‑1 (MQ=35)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGCACGCTc > 1:2641624/1‑71 (MQ=21)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTc > 1:1960025/1‑71 (MQ=34)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1509450/1‑61 (MQ=255)
gTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTccc > 1:214947/1‑71 (MQ=34)
gTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTccc > 1:3021575/1‑71 (MQ=34)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcccc < 1:2612728/71‑1 (MQ=34)
tCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:2958273/56‑1 (MQ=11)
tCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:1993999/56‑1 (MQ=11)
tCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:675534/56‑1 (MQ=11)
cAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTccc < 1:2523171/69‑1 (MQ=255)
cAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTccc < 1:1109508/69‑1 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCTTGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:375764/1‑71 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:1782706/1‑71 (MQ=34)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:992068/59‑1 (MQ=11)
cATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1229615/57‑1 (MQ=11)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTAc < 1:405087/53‑1 (MQ=11)
tCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:217311/1‑43 (MQ=32)
tCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:2771094/1‑43 (MQ=32)
tCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:1291736/1‑43 (MQ=32)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccaac < 1:2823863/70‑4 (MQ=25)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:806897/1‑70 (MQ=35)
cGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa < 1:1262444/70‑1 (MQ=255)
gCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:1624030/1‑41 (MQ=32)
gCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:1812725/70‑1 (MQ=35)
gCACTTCAGATAACTCCAGCATGACTCACAGCACACCTTca > 1:2447905/1‑41 (MQ=11)
cTTCTGATACCTCCAGCATGCCTCACAGGACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:1000026/71‑1 (MQ=25)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa < 1:1624995/46‑1 (MQ=11)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa < 1:130573/46‑1 (MQ=11)
ttCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca > 1:2643769/1‑70 (MQ=37)
ttCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca > 1:3022057/1‑70 (MQ=37)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:618617/43‑1 (MQ=14)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:420758/43‑1 (MQ=14)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:2591330/59‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:1122216/59‑1 (MQ=11)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca > 1:1759987/1‑68 (MQ=37)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAacac < 1:2321312/69‑1 (MQ=39)
tGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa < 1:2782922/47‑1 (MQ=11)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:1687080/54‑1 (MQ=35)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaac > 1:2231490/1‑64 (MQ=35)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACAt < 1:2348491/68‑1 (MQ=40)
aTACCTCCAGCATGCCCCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCca < 1:873169/59‑1 (MQ=255)
tACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgt > 1:424156/1‑70 (MQ=255)
aCCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:2738737/1‑59 (MQ=35)
aCCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:285310/1‑59 (MQ=35)
aCCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:3017903/1‑59 (MQ=35)
aCCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:1524632/1‑59 (MQ=35)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt < 1:2750759/70‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt < 1:2368637/70‑1 (MQ=255)
ccTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTc < 1:1577141/71‑1 (MQ=255)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAc > 1:369239/1‑51 (MQ=35)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca < 1:599108/62‑1 (MQ=40)
ccAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt > 1:264347/1‑71 (MQ=255)
ccAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:1844681/1‑52 (MQ=11)
ccAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:2283097/1‑52 (MQ=11)
ccAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:1803726/1‑52 (MQ=11)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:1517082/70‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:1438000/70‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:802483/70‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg < 1:1259936/71‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg < 1:2964402/71‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg < 1:1835315/71‑1 (MQ=255)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg < 1:1388361/71‑1 (MQ=255)
cATGCCTCACAGCACACCTTCACAGGCTTACAGAACGc > 1:2950088/1‑38 (MQ=40)
cATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCg < 1:44345/71‑1 (MQ=255)
cATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCg > 1:1735336/1‑71 (MQ=255)
tGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCg > 1:2606261/1‑69 (MQ=255)
|
CCCGCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCG > minE/2359815‑2359934
|
| 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
