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 |
|
A27 F74 I0 R1
|
29 |
16.5 |
643684 |
90.6% |
583177 |
142.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,371,456 |
G→C |
22.2% |
S414T (AGT→ACT) |
ycjM → |
glucosylglycerate phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,371,456 | 0 | G | C | 22.2%
| 29.6
/ 3.6
| 18 | S414T (AGT→ACT) | ycjM | glucosylglycerate phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (6/8); new base C (2/2); total (8/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01 |
TATGAAATAAATGTGACCTATATGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGATATAACCGTGCGATTAACCGTAAAAAATATCACAGTAAAGAGATAACCCGAGAACTGA > NC_000913/1371356‑1371593
|
tATGAAATAAATGTGACCTATATGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCCATATACATTCAAAGTAGTATTga > 2:263083/1‑142 (MQ=255)
tGAAATAAATGTGACCTATATGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCt > 1:301320/1‑143 (MQ=255)
aaataaatGTGACCTATATGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAACTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTcg > 2:6580/1‑143 (MQ=255)
aaataaatGTGACCTATATGGATGCGTTAAGCCGACGAGAGAGTAGCGATGAAGAACGTTGCGCCAGGTGGATCCTTGCCCATGGGGTTTGGGTATCGGTCCCCGGTGTGCCAGCGATATATAGCCACAGTATTCTTGGCTcg > 2:156890/1‑143 (MQ=255)
cTATATGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACg > 1:23638/1‑143 (MQ=255)
tataTGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGc > 1:125829/1‑143 (MQ=255)
tGGGTGCGGTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGgt < 1:157264/143‑1 (MQ=255)
ttAAGCCGCCGTGAGCGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTATCTTTCCCCGGTGTTCCAGCGATATATATTCAATGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGaaaa < 1:156890/143‑1 (MQ=255)
ttAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAACTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGaaaa < 1:6580/143‑1 (MQ=255)
cgTGAGAGTAGCGATGAAGAACGTTGTGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGGCAGCGATATATATTCAAAGTAGTCTGGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGata < 2:52908/143‑1 (MQ=255)
gTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAAATCGGatat > 2:27140/1‑143 (MQ=255)
tggctaTGGAGAGCGTCGCGCCAGGTTTATCCGTGGCCGTGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGGTGTATATGCAGAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGATATAACCGTg < 2:264240/138‑1 (MQ=255)
gtcgcgcCGCGTTTATCCTTCCCCGTGCGGTTTCGTTACGTTTCCCCGGCGTGCCAGCGATATCTATTCCAAGTATTCTTCGCTCGCGTAATGATCACCCAGGTGTCGAACACCCCGGATATAACCGTGCGATTAACCGCaaa < 2:194781/140‑1 (MQ=255)
cTTGCGCATGCGATTTTGTTGAGGTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGATATAACCGTGCGATTAACCGTAAAAAATATCACAGTAAaga < 1:296031/143‑1 (MQ=255)
cTTCCCCATCCGATTTTGTTAAGCTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATTATTACGCACGTGTCGAAAAACTCGGATATAACCGTGCGATTAACCGTAAAAAATATCACAGTAAaga < 2:74130/143‑1 (MQ=255)
aTGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGATATAACCGTGCGATTAACCGTAAAAAATATCACAGTAAAGAGATAAcc < 2:301320/143‑1 (MQ=255)
tGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTGCGCAGGCGTCGAAAAACTCGGATATAACCGTGGGAATAACCGTCAAGAAAATCACAGTCAGGTGATAGccc > 2:93116/1‑143 (MQ=255)
gTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGATATAACCGTGCGATTAACCGTAAAAAATATCACAGTAAAGAGATAACCCGAGAACTGa < 2:125829/143‑1 (MQ=255)
|
TATGAAATAAATGTGACCTATATGGATGCGTTAAGCCGCCGTGAGAGTAGCGATGAAGAACGTTGCGCCAGGTTTATCCTTGCCCATGCGATTTTGTTAAGTTTCCCCGGTGTGCCAGCGATATATATTCAAAGTATTCTTGGCTCGCGTAATGATTACGCAGGTGTCGAAAAACTCGGATATAACCGTGCGATTAACCGTAAAAAATATCACAGTAAAGAGATAACCCGAGAACTGA > NC_000913/1371356‑1371593
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
