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 F1 I0 R2
|
532 |
47.8 |
3863072 |
94.9% |
3666055 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,969,921 |
G→A |
22.7% |
L99L (CTG→TTG) |
cheB ← |
fused chemotaxis regulator and protein‑glutamate methylesterase in two‑component regulatory system with CheA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,969,921 | 0 | G | A | 22.7%
| 36.2
/ 7.0
| 22 | L99L (CTG→TTG) | cheB | fused chemotaxis regulator and protein‑glutamate methylesterase in two‑component regulatory system with CheA |
| Reads supporting (aligned to +/- strand): ref base G (7/10); new base A (3/2); total (10/12) |
| Fisher's exact test for biased strand distribution p-value = 6.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01 |
ATTTCGTTATACGCCAGCATACCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAACGGGCATTG > W3110S.gb/1969851‑1969989
|
aTTTCGTTATACGCCAGCATACCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAg > 1:3646087/1‑71 (MQ=255)
taCGCCAGCATACCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAgcg < 1:423672/70‑1 (MQ=255)
gCATTCCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAACTCCAgcgc < 1:3803452/64‑1 (MQ=255)
gCATTCCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAACTCCAgcgc < 1:2704345/64‑1 (MQ=255)
cATACCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGc < 1:1650734/70‑1 (MQ=255)
aTACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGAccc < 1:382020/71‑1 (MQ=255)
cAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGt < 1:1903780/54‑1 (MQ=255)
gTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTc < 1:2539898/37‑1 (MQ=255)
tGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGt > 1:2939815/1‑71 (MQ=255)
tGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGt > 1:1716371/1‑71 (MQ=255)
cGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGt > 1:1204002/1‑69 (MQ=255)
ttGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAggg < 1:834159/70‑1 (MQ=255)
tGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAggg > 1:2865034/1‑69 (MQ=255)
tGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAggg > 1:3452688/1‑69 (MQ=255)
tGGTGACAAAATCTATCGCCCCCAACTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAggg > 1:1834248/1‑69 (MQ=255)
aCAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGgaa > 1:396893/1‑66 (MQ=255)
aaTCTATCGCCCCCAACTCCAGCGCGCGCAGCGTGACTTCTg > 1:1967688/1‑42 (MQ=255)
aaTCTATCGCCCCCAACTCCAGCGCGCGCAGCGTGACTTCTg > 1:556579/1‑42 (MQ=255)
tCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAAc < 1:2737315/70‑1 (MQ=255)
ccAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAACGGGCAtt < 1:1446992/71‑1 (MQ=255)
ccAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAACGGGCAtt < 1:1298350/71‑1 (MQ=255)
cAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAACGGGCATTg > 1:2755072/1‑71 (MQ=255)
cAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAACGGGCATTg < 1:1451756/71‑1 (MQ=255)
|
ATTTCGTTATACGCCAGCATACCTTCGCGAATACCCAGTTGCGGTTTGGTGACAAAATCTATCGCCCCCAGCTCCAGCGCGCGCAGCGTGACTTCTGACCCTTTGCCGGTCAGGGAAGAAACCATCACAACGGGCATTG > W3110S.gb/1969851‑1969989
|
| 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
