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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
344,381 |
G→A |
100% |
intergenic (+166/‑247) |
yahL → / → yahM |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 344,381 | 0 | G | A | 94.4%
| 150.2
/ 1.0
| 53 | intergenic (+166/‑247) | yahL/yahM | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (3/0); new base A (30/20); total (33/20) |
| Fisher's exact test for biased strand distribution p-value = 2.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACAT > W3110S.gb/344314‑344448
|
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt > 1:3531827/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt > 1:2050509/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt > 1:1583224/1‑71 (MQ=255)
cATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt < 1:1889255/70‑1 (MQ=255)
cATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt < 1:3088437/70‑1 (MQ=255)
cATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt < 1:536142/70‑1 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAg > 1:2737029/1‑71 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAg > 1:2721928/1‑71 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAg > 1:1185780/1‑71 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAg > 1:491988/1‑71 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAg > 1:1204740/1‑71 (MQ=255)
ttttCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCAt > 1:2874927/1‑71 (MQ=255)
ttttCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCAt > 1:1733899/1‑71 (MQ=255)
tCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGc < 1:3556457/70‑1 (MQ=255)
tCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGc < 1:2807673/70‑1 (MQ=255)
gCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCATTAGTGATTTCGCAGCCATGCgg < 1:1758145/70‑1 (MQ=255)
ttgttgTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaa < 1:3070586/70‑1 (MQ=255)
ttgttgTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaa > 1:1473774/1‑70 (MQ=255)
ttgttgTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaa < 1:1771853/70‑1 (MQ=255)
tgttgtGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGGAGCCATGCGGTGTATaaaaa < 1:3667125/70‑1 (MQ=255)
tgttgtGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaaaa > 1:1618931/1‑71 (MQ=255)
tgttgtGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaaa < 1:347167/70‑1 (MQ=255)
tgttgtGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaaa < 1:1064234/70‑1 (MQ=255)
ggCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTTTATAAAAAATGATCTCAt < 1:3176510/70‑1 (MQ=255)
ggCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCAt < 1:361600/70‑1 (MQ=255)
ggCGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCAt < 1:3628710/70‑1 (MQ=255)
cGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCa < 1:3401057/71‑1 (MQ=255)
cGACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCa < 1:91143/71‑1 (MQ=255)
gACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAg < 1:2663945/71‑1 (MQ=255)
cTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATg < 1:722818/56‑1 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAg < 1:3140916/65‑1 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:3191698/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:401398/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:2687533/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1139418/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:2542739/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1244021/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:2356621/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1657003/1‑71 (MQ=255)
cGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGAt > 1:1494214/1‑55 (MQ=255)
aaaaaaGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:1836613/1‑63 (MQ=255)
aaaaaaGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:722448/1‑63 (MQ=255)
aaaaaaGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:2567014/1‑63 (MQ=255)
aaaaaaGCACCAGTAGTGATTTCGCAGCCATGCGCTGTATAAAAAATGATCTCATGCAGATGTTTTGTGaa > 1:1300592/1‑71 (MQ=255)
aaaGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAAtgt < 1:470648/71‑1 (MQ=255)
cACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTgttg > 1:2969513/1‑71 (MQ=255)
cACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTgttg > 1:2084346/1‑71 (MQ=255)
cACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTgttg > 1:2478786/1‑71 (MQ=255)
cACCAGTAGTGATTTCGCAGACATGCGGTGTATAAAAAATGAtctc > 1:1849809/1‑46 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGAt > 1:1399795/1‑35 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGAt > 1:2373016/1‑35 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACAt > 1:3534386/1‑71 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACAt > 1:422620/1‑71 (MQ=255)
|
CCATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACAT > W3110S.gb/344314‑344448
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
