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 F1 I1 R1
|
781 |
46.9 |
2231650 |
93.5% |
2086592 |
109.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,569,410 |
T→C |
D637G (GAT→GGT) |
glgX ← |
glycogen debranching enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,569,410 | 0 | T | C | 96.9%
| 101.4
/ ‑4.4
| 32 | D637G (GAT→GGT) | glgX | glycogen debranching enzyme |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (15/16); total (15/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.68e-01 |
TTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAATTTGCAGCTGTTTCGGC > NC_000913/3569298‑3569535
|
ttAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCCTCTCCAGCGAATGGGGGAATGGCg < 1:967423/139‑1 (MQ=255)
tGATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCa < 2:776398/139‑1 (MQ=255)
ctCGTCCTTCTCTAACCTAACCATGACTAACTCTTTTTTTATCACCTCTGGAACACACACAATCCGTGTGCAGGCCCCTGCCAGACACCCGTAATCACTCGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCAcg < 2:234547/138‑2 (MQ=255)
aTCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACt > 2:1108741/1‑139 (MQ=255)
aCTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCTGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATg < 2:703254/114‑1 (MQ=255)
aCTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATg > 1:703254/1‑114 (MQ=255)
aCCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATgg < 2:797903/111‑1 (MQ=255)
aCCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATgg > 1:797903/1‑111 (MQ=255)
tctcTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTa > 2:986007/1‑139 (MQ=255)
acacaATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCAc > 2:799321/1‑82 (MQ=255)
acacaATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCAc < 1:799321/82‑1 (MQ=255)
aTCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGGATGGCGTGCCACTCCCcagcag > 2:1087827/1‑87 (MQ=255)
aTCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGGATGGCGTGCCACTCCCcagcag < 1:1087827/87‑1 (MQ=255)
aTCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCcagc > 1:597039/1‑85 (MQ=255)
aTCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCcagc < 2:597039/85‑1 (MQ=255)
cGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGc < 1:1073081/71‑1 (MQ=255)
cGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGc > 2:1073081/1‑71 (MQ=255)
tgCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCca > 2:1039343/1‑76 (MQ=255)
tgCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCca < 1:1039343/76‑1 (MQ=255)
cTGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAAtt < 2:377082/139‑1 (MQ=255)
tGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAAttt > 2:254725/1‑139 (MQ=255)
tGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAAtt < 1:837127/138‑1 (MQ=255)
tGCCAGACAGCCGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAAtt > 2:837127/1‑138 (MQ=255)
ccGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGc > 2:573411/1‑47 (MQ=255)
ccGTAATCACTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGc < 1:573411/47‑1 (MQ=255)
ccgcccTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAATTTGCAGCTGTTTCGGc < 1:694441/134‑1 (MQ=255)
aCTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGt < 2:917372/85‑1 (MQ=255)
aCTGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGt > 1:917372/1‑85 (MQ=255)
tGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGc > 2:382874/1‑37 (MQ=255)
tGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGc < 1:382874/37‑1 (MQ=255)
tGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGt > 1:316688/1‑78 (MQ=255)
tGGGTTACCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGt < 2:316688/78‑1 (MQ=255)
|
TTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCCTCTCCAGCGAATGGGGGAATGGCGTGCCACTCCCCAGCAGGTAAAACAATCTCTGTTACCTCAAGCGTGGCGTTAATTGCGATCAAAAAGCGATCCGAGAGCAGAATTTGCAGCTGTTTCGGC > NC_000913/3569298‑3569535
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
