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 |
|
A2 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,418,334 |
G→A |
23.8% |
V95I (GTC→ATC) |
narP → |
DNA‑binding response regulator in two‑component regulatory system with NarQ or NarX |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,418,334 | 0 | G | A | 23.8%
| 81.1
/ 22.6
| 42 | V95I (GTC→ATC) | narP | DNA‑binding response regulator in two‑component regulatory system with NarQ or NarX |
| Reads supporting (aligned to +/- strand): ref base G (15/17); new base A (2/8); total (17/25) |
| Fisher's exact test for biased strand distribution p-value = 1.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.85e-01 |
ATGCCTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGACCCGGAAGTATTGCTGG > minE/1418266‑1418403
|
aTGCCTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTc > 1:360774/1‑71 (MQ=255)
aTGCCTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTc > 1:929314/1‑71 (MQ=255)
tGCCTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATATCt < 1:114017/71‑1 (MQ=255)
ccTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCTATGCCTCCAGCGATGTCtt > 1:510995/1‑70 (MQ=255)
ccTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCtt < 1:1963660/70‑1 (MQ=255)
ccTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCtt > 1:1602486/1‑70 (MQ=255)
ccTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATATCtt < 1:1544162/70‑1 (MQ=255)
tGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCttt > 1:2142081/1‑68 (MQ=255)
cgcAGGTATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCt < 1:998006/71‑1 (MQ=255)
cgcAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCt < 1:1085541/71‑1 (MQ=255)
gggATGGCGTTACCTCGCAAATTATTATCATGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTgt > 1:383472/1‑68 (MQ=255)
gggATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGa > 1:890314/1‑69 (MQ=255)
gggATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATa < 1:1652041/71‑1 (MQ=255)
gATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATg > 1:353256/1‑55 (MQ=255)
gATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGAGATg > 1:622624/1‑55 (MQ=255)
ttACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGt < 1:386505/49‑1 (MQ=255)
tACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGt < 1:1203313/48‑1 (MQ=255)
tACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATATCTTTGCGCTGATAGACGCAGgc < 1:292461/70‑1 (MQ=255)
aCCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGgcg > 1:1074081/1‑70 (MQ=255)
ccGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCa < 1:435796/71‑1 (MQ=255)
ccGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCa < 1:1562304/71‑1 (MQ=255)
ccGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCa < 1:505867/71‑1 (MQ=255)
ccGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCa < 1:810108/71‑1 (MQ=255)
ccGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATATCTTTGCGCTGATAGACGCAGGCGCa < 1:2070515/71‑1 (MQ=255)
attattATCCTGACCGTATCCGATGCCTCCAGCGATATCTTTGCGCTGATAGACGCAGGCGCAGACGGt > 1:445529/1‑69 (MQ=255)
tattatCCTGACCGTATCCGATGCCTCCAGCGATGt < 1:481336/36‑1 (MQ=255)
tattatCCTGACCGTATCCGATGCCTCCAGCGATGt < 1:2098322/36‑1 (MQ=255)
tattatCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATa < 1:1603150/49‑1 (MQ=255)
atCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGt > 1:881412/1‑70 (MQ=255)
cTGACCGTATACGATGCCTCCAGCGATGTCTTTGCGCTGATAGaa > 1:1962298/1‑44 (MQ=255)
aCCGTATCCGATGCCTCCAGCGATATCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGaaa < 1:1936281/69‑1 (MQ=255)
aCCGTATCCGATGCCTCCAGCGATATCTTTGCGCTGATAGACGCAG‑‑GCAGACGGTTATCTGTTGAAAGAc < 1:1981095/70‑1 (MQ=255)
ccGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGAc < 1:916907/71‑1 (MQ=255)
cGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGAcc > 1:1996174/1‑71 (MQ=255)
cGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGAcc > 1:870251/1‑71 (MQ=255)
cGATGCCTCCAGCGATATCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGAcc > 1:1401534/1‑71 (MQ=255)
cTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGaaa < 1:2049019/55‑1 (MQ=255)
cTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGaaa < 1:1764144/55‑1 (MQ=255)
cAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGa > 1:950455/1‑54 (MQ=255)
cAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGa > 1:1661268/1‑54 (MQ=255)
cAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCg < 1:1292934/59‑1 (MQ=255)
gCGATATCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGACCCGGAAGTATTg < 1:1943164/71‑1 (MQ=255)
gCGATATCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGACCCGGAAGTATTg < 1:335887/71‑1 (MQ=255)
aTGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTg > 1:179943/1‑44 (MQ=255)
gTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGaa > 1:356574/1‑44 (MQ=255)
gTCTTTGCGCTGATAGAAGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGACCCGGAAGTATTGCTgg > 1:1075004/1‑70 (MQ=255)
|
ATGCCTTGCGCAGGGATGGCGTTACCGCGCAAATTATTATCCTGACCGTATCCGATGCCTCCAGCGATGTCTTTGCGCTGATAGACGCAGGCGCAGACGGTTATCTGTTGAAAGACAGCGACCCGGAAGTATTGCTGG > minE/1418266‑1418403
|
| 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
