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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,571,225 |
A→T |
16.4% |
D377V (GAT→GTT) |
yibH → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,571,225 | 0 | A | T | 16.4%
| 132.2
/ 19.2
| 55 | D377V (GAT→GTT) | yibH | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (34/12); new base T (3/6); total (37/18) |
| Fisher's exact test for biased strand distribution p-value = 4.58e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
TTCAGCCATGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTATTTTTGCATAT > minE/2571155‑2571291
|
ttCAGCCATGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGa > 1:2111540/1‑71 (MQ=255)
tCAGCCATGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGAt > 1:2770059/1‑71 (MQ=255)
aGCCATGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCa < 1:999983/71‑1 (MQ=255)
aGCCATGTTT‑GGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCAt < 1:326249/71‑1 (MQ=255)
ccATGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCAtt < 1:3915486/71‑1 (MQ=255)
ccATGTCTCGGTGATGCGCAAAGTGCTATTACGCATGACCAGCTGGGTGCATTACCTTTATCTCGATCa < 1:1846212/69‑1 (MQ=255)
cATGTCTCGGTGATGCGCAAAGTGCTATTACGCATGACCAGCTGGGTGCATTACCTTTATCTCGATCAtt > 1:77267/1‑70 (MQ=255)
cATGTCTCGGTGATGCGCAAAGTGCTATTACGCATGACCAGCTGGGTGCATTACCTTTATCTCGATCAtt > 1:3698512/1‑70 (MQ=255)
aTGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGTTCATTga < 1:1162533/71‑1 (MQ=255)
aTGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCAtt > 1:1513791/1‑69 (MQ=255)
aTGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCAtt > 1:3023694/1‑69 (MQ=255)
tGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGTTCATTgag < 1:1721879/71‑1 (MQ=255)
tGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgag < 1:2476756/71‑1 (MQ=255)
gtctCGGTGATGCGCAAAGTGCTATTACGCATGACCAGCTGGGTGCATTACCTTTATCTCGATCAt > 1:2826972/4‑66 (MQ=255)
gTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagg > 1:1719969/1‑71 (MQ=255)
ttCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggg > 1:3113909/1‑71 (MQ=255)
tCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCAt > 1:2674656/1‑63 (MQ=255)
tCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggg > 1:1621007/1‑70 (MQ=255)
tCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggg > 1:1591226/1‑70 (MQ=255)
tCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggg < 1:2331410/70‑1 (MQ=255)
ggTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTTGATCATTgagggggag < 1:1659192/71‑1 (MQ=255)
ggTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggggag < 1:2609564/71‑1 (MQ=255)
ggTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgaggggga < 1:3515525/70‑1 (MQ=255)
tGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGagggggaggggg > 1:3676318/1‑70 (MQ=255)
tGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGagggggaggggg > 1:2541047/1‑70 (MQ=255)
gAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGTTCATTGAGGGGGAGGGGGGAGAt < 1:965757/71‑1 (MQ=255)
gAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagg < 1:3503709/57‑1 (MQ=255)
aaaGTGCTGCTAAGAATGACCAGCTTGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGAt > 1:3500077/1‑70 (MQ=255)
aaGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggg > 1:737039/1‑57 (MQ=255)
ctgctAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgaggggga > 1:71673/1‑54 (MQ=255)
ctgctAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgag > 1:2333096/1‑49 (MQ=255)
ctAAGAATGACCAGCTGGATGCATTATCTTTATTTGGTTCATTGAGGGGGAGGGGGGAGATTATGGAAc < 1:1342200/69‑1 (MQ=255)
ctAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATgg > 1:2710222/1‑66 (MQ=255)
ctAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACtt < 1:3279660/71‑1 (MQ=255)
aaGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTgagggggaggg > 1:1532508/1‑52 (MQ=255)
aaGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTg > 1:1522160/1‑71 (MQ=255)
gAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCt > 1:2036300/1‑71 (MQ=255)
aTGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTcc > 1:2325304/1‑71 (MQ=255)
tGACCAGCTGGATGCATTATCTTTATTTGGTTCATTga < 1:994093/38‑1 (MQ=255)
tGACCAGCTGGATGCATTATCTTTATTTGGTTCATTga < 1:98407/38‑1 (MQ=255)
tGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAgggggaggggggag > 1:232550/1‑52 (MQ=255)
tGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCt > 1:3083405/1‑71 (MQ=255)
aCCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTg > 1:1715649/1‑71 (MQ=255)
ggATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTg > 1:2817668/1‑57 (MQ=255)
gATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGAc > 1:1655067/1‑70 (MQ=255)
aTGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGAc > 1:1767080/1‑69 (MQ=255)
tGCATTATCTTTATTTGGTTCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGc > 1:1528940/1‑55 (MQ=255)
tGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGgaga > 1:340802/1‑41 (MQ=255)
tATCTTTATTTGGTTCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAattatt > 1:402068/1‑71 (MQ=255)
aTCTTTATTTGGTTCATTGAGGGGGAGGGGGGAGATTa > 1:1101065/1‑38 (MQ=255)
aTCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGaa < 1:502394/43‑1 (MQ=255)
aTCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTAttt > 1:2972643/1‑71 (MQ=255)
tCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTAtttt > 1:111600/1‑71 (MQ=255)
cTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTAttttt > 1:3908975/1‑71 (MQ=255)
cTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTAttttt > 1:2725510/1‑71 (MQ=255)
tGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTATTTTTGCatat > 1:2946507/1‑70 (MQ=255)
|
TTCAGCCATGTTTCGGTGATGCGGAAAGTGCTGCTAAGAATGACCAGCTGGATGCATTATCTTTATTTGGATCATTGAGGGGGAGGGGGGAGATTATGGAACTTTGCTCCTTGTAAGGACTAATTATTTTTGCATAT > minE/2571155‑2571291
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
