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 |
|
A3 F2 I1 R1
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
2,359,876 |
C→T |
27.6% |
noncoding (1219/2905 nt) |
rrlA ← |
23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 2,359,876 | 0 | C | T | 27.6%
| 287.7
/ 111.7
| 156 | noncoding (1219/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base C (39/74); new base T (31/12); total (70/86) |
| Fisher's exact test for biased strand distribution p-value = 2.97e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
Only 100 of 156 total aligned reads displayed.
TTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCGGTG > Exported/2359821‑2359945
|
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2972836/1‑71 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa > 1:3754368/1‑68 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACa < 1:172415/70‑1 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1532954/71‑1 (MQ=34)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGa > 1:355594/1‑70 (MQ=255)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcac < 1:3671486/58‑1 (MQ=33)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcac < 1:5185380/58‑1 (MQ=33)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcac < 1:4116475/58‑1 (MQ=33)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:3074979/70‑1 (MQ=35)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:2224595/70‑1 (MQ=35)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:4223250/62‑1 (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)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:3206644/70‑1 (MQ=255)
cATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:967328/1‑71 (MQ=255)
cTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:661449/71‑1 (MQ=35)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:2943447/1‑70 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:2063386/71‑2 (MQ=255)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg < 1:8550/71‑2 (MQ=255)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCtt < 1:400776/44‑1 (MQ=11)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:743714/1‑70 (MQ=40)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:277183/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:2875357/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:295439/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1129106/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3614209/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:3930489/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:4423917/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:5020869/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:549057/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:88289/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:117889/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1632501/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:126803/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:2601325/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1814784/1‑35 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:3180386/1‑58 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:2324336/1‑58 (MQ=11)
tACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATa < 1:3050231/68‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1215444/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:525227/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:2448095/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:3843980/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1649474/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:3850218/38‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:4220735/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:3372018/39‑1 (MQ=40)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa < 1:2368094/39‑1 (MQ=40)
tCCAGCATGACTCACAGCACACCTTCACAGGCTTACAGa < 1:3443849/39‑1 (MQ=255)
ccAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:52195/1‑57 (MQ=35)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:4032354/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:2036929/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:3492344/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:4988248/1‑38 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGa > 1:2959700/1‑37 (MQ=40)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGc < 1:2456418/69‑1 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGcc > 1:3661244/1‑71 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:214763/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4429718/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3976395/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4536685/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:2001148/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3410515/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4096692/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3344076/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:3277032/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:4918407/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCt < 1:2479820/64‑1 (MQ=255)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCa > 1:1667763/1‑70 (MQ=255)
ccTCACAGCACACCTTCACAGGCTTACAGAACGCTcccc > 1:122959/1‑39 (MQ=40)
ccTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGc > 1:4754254/1‑71 (MQ=255)
ccTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGc > 1:5029986/1‑71 (MQ=255)
ccTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGc > 1:1404075/1‑71 (MQ=255)
cTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCt < 1:1010785/71‑1 (MQ=255)
cTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCt < 1:2878941/71‑1 (MQ=255)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:4291835/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:2750521/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:2717933/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:1483256/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:3798890/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:1816783/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:4149547/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:4925513/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:4158218/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:4606992/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:4406559/49‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca < 1:3989978/51‑1 (MQ=255)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca < 1:4583073/51‑1 (MQ=255)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca < 1:4552950/51‑1 (MQ=255)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:4670076/44‑1 (MQ=38)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:2231432/44‑1 (MQ=38)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:2654295/44‑1 (MQ=38)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:756965/44‑1 (MQ=38)
cacaGCACACCTTCAAAGGCTTACAGAACGCTCCCCTACCcaac < 1:4263152/44‑1 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:2119151/1‑49 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCg > 1:4796816/1‑71 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCg > 1:3753824/1‑71 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCg > 1:2598557/1‑71 (MQ=255)
|
TTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCGGTG > Exported/2359821‑2359945
|
| 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
