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 |
|
A5 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,139,938 |
C→T |
6.4% |
R2H (CGT→CAT) |
hybD ← |
predicted maturation element for hydrogenase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,139,938 | 0 | C | T | 6.4%
| 253.4
/ 5.4
| 78 | R2H (CGT→CAT) | hybD | predicted maturation element for hydrogenase 2 |
| Reads supporting (aligned to +/- strand): ref base C (39/34); new base T (3/2); total (42/36) |
| 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 |
CGCTTCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGC > W3110S.gb/3139868‑3140004
|
cGCTTCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATAc < 1:2059020/71‑1 (MQ=255)
ttCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCa > 1:2433586/1‑71 (MQ=255)
cGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCAt > 1:1375701/1‑70 (MQ=255)
cGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCAt < 1:3211049/70‑1 (MQ=255)
cGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCAt > 1:1519188/1‑70 (MQ=255)
aCAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTa > 1:2465303/1‑70 (MQ=255)
aCAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTa > 1:2852940/1‑70 (MQ=255)
cAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTa > 1:643452/1‑69 (MQ=255)
cAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACa < 1:2861315/71‑1 (MQ=255)
ccGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAAc > 1:2212506/1‑71 (MQ=255)
ccGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAAc > 1:4237391/1‑71 (MQ=255)
cGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAAcc < 1:1796118/71‑1 (MQ=255)
gCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCt < 1:3253079/71‑1 (MQ=255)
gCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCt > 1:3599810/1‑71 (MQ=255)
cacaCCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCtt > 1:3486984/1‑71 (MQ=255)
acacCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCtt < 1:1745165/70‑1 (MQ=255)
acacCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCtt > 1:3458468/1‑70 (MQ=255)
acacCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTc < 1:380189/71‑1 (MQ=255)
gATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACt > 1:1834535/1‑69 (MQ=255)
aTGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGa > 1:334305/1‑70 (MQ=255)
gCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAAc > 1:346873/1‑70 (MQ=255)
tCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAAcc > 1:2473586/1‑68 (MQ=255)
tCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACt > 1:893563/1‑71 (MQ=255)
tCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACt > 1:1346510/1‑71 (MQ=255)
tCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACt > 1:4240217/1‑71 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACtt > 1:234819/1‑71 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACtt > 1:678589/1‑71 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACtt > 1:4065556/1‑71 (MQ=255)
aTCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACt < 1:4143233/69‑1 (MQ=255)
aTCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc < 1:3860026/71‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTg < 1:3263704/60‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGa < 1:2222414/61‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc < 1:3123489/70‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCg < 1:3971269/71‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCg < 1:3050577/71‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCg < 1:382943/71‑1 (MQ=255)
cGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGAATTACAGAACCTTCACTGAAACCACTTCGt > 1:2229295/1‑71 (MQ=255)
ggTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGtt < 1:3194515/71‑1 (MQ=255)
cAGCAAAATATTGCCGACGCCTAAGACTTAAATACGCTTTACAGAACCTTCACt < 1:1948799/54‑1 (MQ=255)
gCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGt < 1:2198066/71‑1 (MQ=255)
gCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGt > 1:2911837/1‑71 (MQ=255)
gCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGt < 1:1656013/71‑1 (MQ=255)
gCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGt < 1:2052435/71‑1 (MQ=255)
aaaaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTg > 1:4004382/1‑51 (MQ=255)
aaaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAg < 1:2666577/71‑1 (MQ=255)
aaaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACAGaa > 1:1536155/1‑52 (MQ=255)
aaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACt > 1:860468/1‑48 (MQ=255)
atatTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCa > 1:1733665/1‑71 (MQ=255)
atatTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTg > 1:2853659/1‑48 (MQ=255)
atatTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCa > 1:3394445/1‑71 (MQ=255)
tatTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCAt > 1:2571429/1‑71 (MQ=255)
ttGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATc < 1:2384215/70‑1 (MQ=255)
ttGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATc > 1:710780/1‑70 (MQ=255)
ttGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATc > 1:599265/1‑70 (MQ=255)
ccGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATcc < 1:3947834/68‑1 (MQ=255)
ccGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACt < 1:2484737/71‑1 (MQ=255)
aCCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACg > 1:1489158/1‑71 (MQ=255)
aCCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACg > 1:252603/1‑71 (MQ=255)
ccccTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgt > 1:759366/1‑71 (MQ=255)
ccccTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgt < 1:1556375/71‑1 (MQ=255)
ccccTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgt < 1:3040201/71‑1 (MQ=255)
cccTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtg < 1:3096759/71‑1 (MQ=255)
ccTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGt < 1:3093450/54‑1 (MQ=255)
cTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGc < 1:2605800/57‑1 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCa < 1:681808/55‑1 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCa < 1:2853003/58‑1 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCa > 1:2214797/1‑62 (MQ=255)
tAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATcc < 1:650315/60‑1 (MQ=255)
aaGACTAAAATACGCATTACAGAACCTTCACTTaa > 1:2287083/1‑35 (MQ=255)
aaGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTAcc > 1:1738895/1‑71 (MQ=255)
aaGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTAcc > 1:2215757/1‑71 (MQ=255)
aGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCg < 1:1942545/71‑1 (MQ=255)
aGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCg < 1:2318879/71‑1 (MQ=255)
aGACTAAAATACGCATTACAGAACCATCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTAccc < 1:3327086/71‑2 (MQ=255)
aCTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGtt > 1:2523409/1‑43 (MQ=255)
tAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCa < 1:3624154/48‑1 (MQ=255)
aaaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAgg > 1:3859863/1‑71 (MQ=255)
aaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTa > 1:3157648/1‑55 (MQ=255)
aaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGc < 1:607039/71‑1 (MQ=255)
|
CGCTTCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGC > W3110S.gb/3139868‑3140004
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
