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 |
|
A94 F1 I1 R1
|
15 |
48.6 |
3202402 |
95.4% |
3055091 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,414,644 |
A→G |
Y207C (TAC→TGC) |
crp → |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,414,644 | 0 | A | G | 97.6%
| 165.1
/ ‑4.3
| 42 | Y207C (TAC→TGC) | crp | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (27/14); total (27/15) |
| Fisher's exact test for biased strand distribution p-value = 3.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
CCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCCCCCGATGTGGC > REL606/3414572‑3414714
|
ccGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCgg > 2:1469687/1‑76 (MQ=255)
gTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCa > 1:51281/1‑76 (MQ=255)
tGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCAc > 1:855302/1‑76 (MQ=255)
ggACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTc < 1:111675/76‑1 (MQ=255)
aTTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAAt > 1:259/1‑76 (MQ=255)
aTTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAAt > 2:455004/1‑76 (MQ=255)
aTTCTGAAGATGCTGGAAGATCAGAACCTGATCTCAGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAAt > 2:1422041/1‑76 (MQ=255)
tCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATcc < 1:94050/76‑1 (MQ=255)
tCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGGAAAACCATCGTCGTTTGCGGCACTCGTTAATcc > 1:148708/1‑76 (MQ=255)
tGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCg > 2:1358369/1‑76 (MQ=255)
aaGGTGCTGGAAGATCAGATCCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTc < 2:310480/76‑1 (MQ=255)
aGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAGCCATCGTCGTTTACGGCACTCGTTAATCCCGTCg < 2:1295173/76‑1 (MQ=255)
aGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCg > 1:303558/1‑76 (MQ=255)
ggAAGATCAGAACNTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGgc > 1:1080771/1‑76 (MQ=255)
ggAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGgc > 2:1527961/1‑76 (MQ=255)
aaGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGgcgc > 2:566072/1‑76 (MQ=255)
aaGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGgcgc > 2:130159/1‑76 (MQ=255)
gATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGt < 1:1447105/76‑1 (MQ=255)
cAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTAc > 1:1323562/1‑76 (MQ=255)
cAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTAc < 2:565055/76‑1 (MQ=255)
aaCCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTg < 2:303558/76‑1 (MQ=255)
aaCCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTg < 2:543058/76‑1 (MQ=255)
aaCCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTg < 2:1355766/76‑1 (MQ=255)
aaCCTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTg < 1:1259106/76‑1 (MQ=255)
ccTGATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGt < 1:1572335/76‑1 (MQ=255)
gATCTCCGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCCCTACCTGGTAgc > 1:1297125/1‑76 (MQ=255)
ccGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGcc > 2:1503202/1‑76 (MQ=255)
ccGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGcc > 2:1550407/1‑76 (MQ=255)
ccGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGGAGCGCGcc > 2:987443/1‑76 (MQ=255)
cGCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCa > 2:422367/1‑76 (MQ=255)
gCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAt > 1:252124/1‑76 (MQ=255)
gCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAt > 2:1528429/1‑76 (MQ=255)
gCACACGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAt > 2:643545/1‑76 (MQ=255)
cacaCGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAtt < 1:668911/76‑1 (MQ=255)
cacaCGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCCCGCCCtt > 1:669488/1‑76 (MQ=255)
acacGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAttt > 2:459480/1‑76 (MQ=255)
cacGGTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAtttt < 1:1065443/76‑1 (MQ=255)
ggTAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGtt < 2:1158505/76‑1 (MQ=255)
tAAAACCATCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGGGGGGCCTTTTGTTTc > 2:518397/1‑76 (MQ=255)
aTCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCCCCCGAt < 2:1529197/76‑1 (MQ=255)
aTCGTCGTTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCCCCCGAt > 2:507621/1‑76 (MQ=255)
cgtTTGCGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGCAGCGCGCCCTTTTGTTTCCCCCGATGGGgc > 1:1263395/1‑76 (MQ=255)
|
CCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCCCCCGATGTGGC > REL606/3414572‑3414714
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
