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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,139,938 |
C→T |
43.7% |
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 | 43.7%
| 41.0
/ 113.3
| 87 | R2H (CGT→CAT) | hybD | predicted maturation element for hydrogenase 2 |
| Reads supporting (aligned to +/- strand): ref base C (24/25); new base T (17/21); total (41/46) |
| Fisher's exact test for biased strand distribution p-value = 8.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01 |
CTTCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGC > W3110S.gb/3139870‑3140004
|
cTTCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACg > 1:1700250/1‑70 (MQ=255)
ttCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCa > 1:246736/1‑71 (MQ=255)
cAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTa > 1:1129046/1‑69 (MQ=255)
aaTCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAg < 1:3181229/71‑1 (MQ=255)
ccGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCAt < 1:2958149/63‑1 (MQ=255)
ccGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAAc > 1:4812949/1‑71 (MQ=255)
cGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGaa > 1:1906411/1‑69 (MQ=255)
cGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAAcc > 1:1052741/1‑71 (MQ=255)
cacaCCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCtt < 1:4536660/71‑1 (MQ=255)
cacaCCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACa > 1:830136/1‑64 (MQ=255)
cacaCCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACa > 1:4420595/1‑64 (MQ=255)
cacCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCTTAAGACTAAAATACGCATTACAGAACCTTCa > 1:2772014/1‑71 (MQ=255)
cacCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCTTAAGACTAAAATACGCATTACAGAACCTTCa > 1:2766006/1‑71 (MQ=255)
cacCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCa > 1:3004257/1‑71 (MQ=255)
ccGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCtt < 1:3783067/67‑1 (MQ=255)
ccGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACt < 1:1758464/71‑1 (MQ=255)
cGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACt > 1:1321390/1‑70 (MQ=255)
gATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGa < 1:4248945/71‑1 (MQ=255)
ggCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAAc > 1:1809202/1‑71 (MQ=255)
gCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAAc > 1:3659606/1‑58 (MQ=255)
gCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAAc > 1:5083360/1‑58 (MQ=255)
tCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCtt < 1:1111959/58‑1 (MQ=255)
tCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACt > 1:2377691/1‑71 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCAc < 1:3643531/69‑1 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCAc < 1:200492/69‑1 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCAc < 1:862453/69‑1 (MQ=255)
cATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACt < 1:4152441/70‑1 (MQ=255)
aTCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTc < 1:2093003/71‑1 (MQ=255)
aTCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc > 1:3840061/1‑71 (MQ=255)
aTCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc > 1:240454/1‑71 (MQ=255)
aTCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc < 1:4747608/71‑1 (MQ=255)
tCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTc < 1:3908461/56‑1 (MQ=255)
cGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc < 1:2498966/69‑1 (MQ=255)
ggTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCCtt < 1:1928884/71‑1 (MQ=255)
gTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGt > 1:1716431/1‑69 (MQ=255)
gTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTg < 1:4839980/71‑1 (MQ=255)
gTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTg < 1:1762156/71‑1 (MQ=255)
tCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTc < 1:1238806/66‑1 (MQ=255)
tCAGCAAAATATTGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGc > 1:4392688/1‑71 (MQ=255)
cAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTc < 1:1055248/48‑1 (MQ=255)
cAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTc < 1:4160151/71‑1 (MQ=255)
aaaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAg > 1:28548/1‑71 (MQ=255)
aaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGaa < 1:2708941/51‑1 (MQ=255)
aaTATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGc < 1:2737448/71‑1 (MQ=255)
ttGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATc < 1:5136027/70‑1 (MQ=255)
ttGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATc < 1:658631/70‑1 (MQ=255)
ttGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATc < 1:1308103/70‑1 (MQ=255)
tGCCGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCa > 1:1484968/1‑71 (MQ=255)
ccGACCCCTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCAc < 1:3971536/70‑1 (MQ=255)
cccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtg > 1:4211936/1‑71 (MQ=255)
cccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtg < 1:95582/71‑1 (MQ=255)
cccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtg < 1:3082259/71‑1 (MQ=255)
cccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtg < 1:3088000/71‑1 (MQ=255)
ccTAAGACTAAAATATGCATTAGAGAACCTTCACTGAAACCACtt < 1:1831543/45‑1 (MQ=255)
ccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACtt < 1:3461341/45‑1 (MQ=255)
ccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACtt < 1:3457451/45‑1 (MQ=255)
ccTAAGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtg > 1:1107687/1‑70 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCAc < 1:4528869/63‑1 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCAc < 1:2045754/63‑1 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCAc < 1:2250716/63‑1 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtgt > 1:4955275/1‑70 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTa > 1:2907734/1‑71 (MQ=255)
cTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTACGTTGCCGTCAGCATCCACTACGTGTa > 1:3716396/1‑71 (MQ=255)
tAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTc < 1:1304639/44‑1 (MQ=255)
tAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTAc > 1:350485/1‑71 (MQ=255)
tAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTAc > 1:1853715/1‑71 (MQ=255)
tAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTAc > 1:1285258/1‑71 (MQ=255)
aaGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCg > 1:2775337/1‑44 (MQ=255)
aaGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtgt < 1:4267195/68‑1 (MQ=255)
aaGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtgt < 1:1038247/68‑1 (MQ=255)
aaGACTAAAATATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACgtgt < 1:3240562/68‑1 (MQ=255)
aGACTAAAATATGCATTACAGAACCTTCACTGaaa > 1:4171258/1‑35 (MQ=255)
aGACTAAAATATGCATTACAGAACCTTCACTGaaa > 1:4769618/1‑35 (MQ=255)
aGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTa > 1:4555215/1‑68 (MQ=255)
aGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCg < 1:4271242/71‑1 (MQ=255)
aGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCg < 1:3272681/71‑1 (MQ=255)
gACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCg > 1:3749529/1‑70 (MQ=255)
aaaaTATGCATTACAGAACCTTCACTGAAACCACTTCGtt < 1:2659287/40‑1 (MQ=255)
aaaTATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTa > 1:2186374/1‑56 (MQ=255)
aaaTATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAgg > 1:4682143/1‑71 (MQ=255)
aaaTATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAgg > 1:1150492/1‑71 (MQ=255)
aaaTATGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCAACTa > 1:1861897/1‑56 (MQ=255)
aaaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCa > 1:3141086/1‑46 (MQ=255)
aaaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAgg > 1:1304772/1‑71 (MQ=255)
aaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGc < 1:2381343/71‑1 (MQ=255)
aaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGc < 1:468296/71‑1 (MQ=255)
aaTACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGc < 1:3338660/71‑1 (MQ=255)
|
CTTCGACAATCCGCACACCGATGGCTTCATCGGTCAGCAAAATATTGCCGACCCCTAAGACTAAAATACGCATTACAGAACCTTCACTGAAACCACTTCGTTGCCGTCAGCATCCACTACGTGTACCGCACAGGC > W3110S.gb/3139870‑3140004
|
| 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
