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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
656,044 |
T→C |
15.7% |
F44L (TTC→CTC) |
ycbS → |
predicted outer membrane usher protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 656,044 | 0 | T | C | 15.7%
| 172.9
/ 23.8
| 70 | F44L (TTC→CTC) | ycbS | predicted outer membrane usher protein |
| Reads supporting (aligned to +/- strand): ref base T (32/27); new base C (6/5); total (38/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGTGGGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAAC > minE/655974‑656105
|
tggtggGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCttttt > 1:452138/1‑71 (MQ=255)
ggtggGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCtttttt > 1:1394455/1‑71 (MQ=255)
ggCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaaa < 1:2635972/71‑1 (MQ=255)
ggCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaaa < 1:1232245/71‑1 (MQ=255)
gCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAg < 1:1010234/71‑1 (MQ=255)
gtggtgTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTCTCAAAgatga < 1:3987055/71‑1 (MQ=255)
tggtgTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTCTCAAAgatga < 1:3991792/70‑1 (MQ=255)
tgtgTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTAAAAgatga > 1:1611878/1‑63 (MQ=255)
tgtgTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCaa > 1:3732593/1‑71 (MQ=255)
tgtCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgat > 1:2662511/1‑59 (MQ=255)
aGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCg < 1:3450474/71‑1 (MQ=255)
aGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCg < 1:1808359/71‑1 (MQ=255)
gCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGa < 1:147080/71‑1 (MQ=255)
gCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGa < 1:353456/71‑1 (MQ=255)
gTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatgat > 1:2642447/1‑52 (MQ=255)
gTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatgat > 1:766648/1‑52 (MQ=255)
gTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTAAAAg > 1:658869/1‑47 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatga < 1:758641/50‑1 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatga < 1:2601405/50‑1 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatga < 1:2547434/50‑1 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt > 1:199915/1‑71 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt > 1:531077/1‑71 (MQ=255)
tCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTg > 1:3112677/1‑71 (MQ=255)
tCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTg > 1:1079429/1‑71 (MQ=255)
tCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTg > 1:555768/1‑71 (MQ=255)
cAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaaaca > 1:381690/1‑43 (MQ=255)
tGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg < 1:3907903/55‑1 (MQ=255)
tGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg < 1:2720167/55‑1 (MQ=255)
tGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg < 1:1781869/55‑1 (MQ=255)
tGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg < 1:3325283/55‑1 (MQ=255)
tGCACAAGCTGAAACCTGGTTAGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg < 1:2464392/55‑1 (MQ=255)
gCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCg > 1:1785644/1‑71 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCaa > 1:3853179/1‑51 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGt > 1:4076341/1‑71 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGt > 1:3211061/1‑71 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGt > 1:2629271/1‑71 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGt > 1:2492239/1‑71 (MQ=255)
caAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatg < 1:3357854/40‑1 (MQ=255)
caAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAga > 1:3248628/1‑38 (MQ=255)
caAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAga > 1:2900254/1‑38 (MQ=255)
caAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAga > 1:359211/1‑38 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCg > 1:2618825/1‑51 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCg > 1:319940/1‑51 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCg > 1:3017924/1‑51 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCg > 1:2096777/1‑51 (MQ=255)
aCCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAg > 1:2667469/1‑70 (MQ=255)
aCCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAg > 1:641802/1‑70 (MQ=255)
gTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaa < 1:3138061/71‑1 (MQ=255)
gTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaa < 1:1164064/71‑1 (MQ=255)
ttCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaa > 1:1172683/1‑70 (MQ=255)
ttCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaa > 1:583104/1‑69 (MQ=255)
gATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:2566370/71‑1 (MQ=255)
gATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:985610/71‑1 (MQ=255)
gATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:3244796/71‑1 (MQ=255)
gATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:43502/71‑1 (MQ=255)
gATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:86235/71‑1 (MQ=255)
aTCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:3369900/70‑1 (MQ=255)
tCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATaa > 1:4011646/1‑71 (MQ=255)
tCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATaa > 1:2915307/1‑71 (MQ=255)
ccTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAtt > 1:1863833/1‑40 (MQ=255)
ccTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaaa > 1:2358198/1‑67 (MQ=255)
ccTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaaa > 1:1633171/1‑67 (MQ=255)
cTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt < 1:3643278/40‑1 (MQ=255)
cTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt < 1:841986/40‑1 (MQ=255)
cTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt < 1:834533/40‑1 (MQ=255)
cTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt < 1:629587/40‑1 (MQ=255)
cTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAAc < 1:3247018/70‑1 (MQ=255)
cTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAAc < 1:2997128/70‑1 (MQ=255)
cTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaa > 1:1178994/1‑62 (MQ=255)
cTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaa > 1:3436785/1‑62 (MQ=255)
cTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaa > 1:521555/1‑62 (MQ=255)
cTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaa > 1:3869410/1‑62 (MQ=255)
|
TGGTGGGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAAC > minE/655974‑656105
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
