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 F1 I0 R2
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,359,867 |
G→A |
45.3% |
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 | 45.3%
| 68.9
/ 122.6
| 95 | noncoding (1228/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base G (22/30); new base A (31/12); total (53/42) |
| Fisher's exact test for biased strand distribution p-value = 4.11e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
Only 100 of 108 total aligned reads displayed.
TTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCA > minE/2359821‑2359936
|
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:3593259/1‑71 (MQ=34)
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2972836/1‑71 (MQ=34)
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2879441/1‑71 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa > 1:476828/1‑68 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACa < 1:172415/70‑1 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1532954/71‑1 (MQ=34)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:1221893/1‑71 (MQ=255)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:2770200/1‑71 (MQ=255)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:5197373/1‑71 (MQ=255)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGa > 1:355594/1‑70 (MQ=255)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcac < 1:4116475/58‑1 (MQ=33)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcac < 1:3671486/58‑1 (MQ=33)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:3074979/70‑1 (MQ=35)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:2224595/70‑1 (MQ=35)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:4822703/62‑1 (MQ=35)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:2568997/62‑1 (MQ=35)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:3633800/62‑1 (MQ=35)
tGTCAGGATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:669856/1‑71 (MQ=21)
tGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:2942111/1‑71 (MQ=34)
tGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:2695897/1‑71 (MQ=34)
tGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:3058184/1‑71 (MQ=34)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:2449715/70‑1 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:3206644/70‑1 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:3989590/1‑71 (MQ=255)
cATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:967328/1‑71 (MQ=255)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCca < 1:502430/71‑1 (MQ=255)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:2962940/1‑70 (MQ=35)
cTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:661449/71‑1 (MQ=35)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:2943447/1‑70 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:3460941/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:8550/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:785345/1‑70 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:130031/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:440670/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:1654902/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:1759132/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:2063386/71‑2 (MQ=255)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCtt < 1:3720816/44‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCtt < 1:400776/44‑1 (MQ=11)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:743714/1‑70 (MQ=40)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3793280/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:549057/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3799094/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:5020869/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3614209/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3930489/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:4423917/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:88289/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1168903/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1129106/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1814784/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:2601325/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:277183/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:2875357/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:295439/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1632501/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3101587/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:126803/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:117889/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:3180386/1‑58 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:2324336/1‑58 (MQ=11)
tACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATa < 1:3050231/68‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1611612/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1649474/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:525227/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1215444/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:3843980/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:3850218/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:1492212/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:4220735/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:4974850/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:4226893/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:2368094/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:3372018/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:342063/39‑1 (MQ=40)
tCCAGCATGACTCACAGCACACCTTCACAGGCTTACAGa < 1:3443849/39‑1 (MQ=255)
ccAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:2796178/1‑57 (MQ=35)
ccAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:52195/1‑57 (MQ=35)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:4646475/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:2036929/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:727559/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:3492344/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:4988248/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:1953393/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:4032354/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa > 1:2959700/1‑37 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGc < 1:2456418/69‑1 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGcc > 1:3661244/1‑71 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3410515/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3277032/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:2001148/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3976395/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4096692/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:2479820/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4918407/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:214763/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4536685/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4429718/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:2244141/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3344076/64‑1 (MQ=255)
|
TTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCA > minE/2359821‑2359936
|
| 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
