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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
621,170 |
C→T |
41.0% |
A51V (GCG→GTG) |
ycaI → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 621,170 | 0 | C | T | 41.0%
| 41.3
/ 66.3
| 95 | A51V (GCG→GTG) | ycaI | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (41/15); new base T (8/31); total (49/46) |
| Fisher's exact test for biased strand distribution p-value = 4.02e-07 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.45e-01 |
TGCGTTTCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGGAGAAA > minE/621105‑621235
|
tGCGTTTCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCt > 1:2540422/1‑69 (MQ=255)
tGCGTTTCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCt > 1:2389319/1‑69 (MQ=255)
tGCGTTTCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCt > 1:1838668/1‑69 (MQ=255)
tCTGACTCTCTTCTCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:3022729/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:3048533/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:2662812/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:2600189/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:782987/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:668677/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:1982816/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:1976398/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:1951368/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:916286/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:544071/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:1774373/1‑69 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:1099592/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt < 1:1715458/69‑1 (MQ=255)
tCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGtt > 1:995989/1‑69 (MQ=255)
ggCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCAtatt < 1:317643/69‑1 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:2496062/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:3123505/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:519209/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:3158563/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:3067077/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:927663/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:2757115/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCag > 1:1416615/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCa > 1:2845236/1‑67 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATAag > 1:2425583/1‑68 (MQ=255)
tATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTCTTTTTCGTTTGGGGCATATTATCag > 1:313855/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:801494/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:2802747/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:2908160/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:2078721/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:2963504/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:158448/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:1803480/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaaa > 1:1666281/1‑68 (MQ=255)
ccTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCagcaa > 1:2843152/1‑67 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTTACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:408283/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:3218887/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:3180989/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:631276/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:3254395/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:37185/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:3324679/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:669172/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:3417434/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:795180/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1012951/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1126306/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:997671/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1471838/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1495769/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:95382/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1715845/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:947785/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:931501/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1862643/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1911870/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1946462/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:826356/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:2051552/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:2139479/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:2209974/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:227752/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:2359183/62‑1 (MQ=255)
ttAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:2448296/62‑1 (MQ=255)
tAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1149840/61‑1 (MQ=255)
tAAAACCGTCCGTTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAgcagca < 1:1141688/61‑1 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:899778/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:998316/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:1066897/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:1216772/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:337101/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:1805683/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:1824501/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAtt > 1:2489609/1‑69 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAt > 1:394140/1‑68 (MQ=255)
aaaaCCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAAt > 1:2010576/1‑68 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCagcaaagc > 1:1908807/1‑56 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:2714586/1‑69 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:2675930/1‑69 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:2229861/1‑69 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:1932597/1‑69 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:1918785/1‑69 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:335184/1‑69 (MQ=255)
ccgtTATATCGTGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTAGCAGCAAAGCAAATTTTGTGGGc > 1:1285982/1‑69 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:2720329/68‑1 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:2426488/68‑1 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:796984/68‑1 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:553332/68‑1 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:3104213/68‑1 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:1225350/68‑1 (MQ=255)
atCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGgaga < 1:345790/68‑1 (MQ=255)
cgcgCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGGAGaaa < 1:1513147/68‑1 (MQ=255)
|
TGCGTTTCTGACTCTCTTCGCCTGCGTACTGGCATTTATCCCTGTTAAAACCGTCCGTTATATCGCGCTGACGTTGCTGTTTTTCGTTTGGGGCATATTATCAGCAAAGCAAATTTTGTGGGCAGGAGAAA > minE/621105‑621235
|
| 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
