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 |
1,807,377 |
T→C |
25.2% |
intergenic (+58/+6) |
emrB → / ← luxS |
multidrug efflux system protein/S‑ribosylhomocysteinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,807,377 | 0 | T | C | 25.2%
| 177.2
/ 67.2
| 99 | intergenic (+58/+6) | emrB/luxS | multidrug efflux system protein/S‑ribosylhomocysteinase |
| Reads supporting (aligned to +/- strand): ref base T (32/42); new base C (7/18); total (39/60) |
| Fisher's exact test for biased strand distribution p-value = 2.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 104 total aligned reads displayed.
TGCGCACTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGCG > minE/1807310‑1807445
|
tGCGCACTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACt < 1:302199/71‑1 (MQ=255)
gcgcACTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACt > 1:3311785/1‑70 (MQ=255)
aCTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTa < 1:4074257/71‑1 (MQ=255)
cTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGAc > 1:3372775/1‑68 (MQ=255)
cTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGAc > 1:3707541/1‑68 (MQ=255)
aaGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTa > 1:4090686/1‑61 (MQ=255)
aaGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTa > 1:3922716/1‑61 (MQ=255)
aaGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAt > 1:2152591/1‑71 (MQ=255)
aGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAtg > 1:2457938/1‑71 (MQ=255)
tACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTa < 1:2073249/65‑1 (MQ=255)
aCAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAt > 1:928801/1‑67 (MQ=255)
aCAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAt > 1:2413393/1‑67 (MQ=255)
aCAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAt > 1:2222813/1‑67 (MQ=255)
aCAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAt > 1:118882/1‑67 (MQ=255)
aCAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGCTTACTGACTAGAt > 1:303842/1‑67 (MQ=255)
cAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGc < 1:2450463/70‑1 (MQ=255)
cAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGc < 1:2160350/70‑1 (MQ=255)
cAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGc < 1:3280643/70‑1 (MQ=255)
aCTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGt < 1:2123136/71‑1 (MQ=255)
ccAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGc < 1:2720713/71‑1 (MQ=255)
ccAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGc < 1:1510228/71‑1 (MQ=255)
cAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGc < 1:3546465/70‑1 (MQ=255)
aGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCaa > 1:1529015/1‑71 (MQ=255)
aGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCaa > 1:358252/1‑71 (MQ=255)
aGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCaa > 1:807199/1‑71 (MQ=255)
gTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAtgtg < 1:2993018/58‑1 (MQ=255)
gTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGAtgtg < 1:429526/58‑1 (MQ=255)
ttCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACt < 1:1517368/71‑1 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTa > 1:2852111/1‑43 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTa > 1:3731951/1‑43 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTa > 1:1117152/1‑43 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTa > 1:1797104/1‑43 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCa < 1:1130188/58‑1 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCa < 1:1198723/58‑1 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCa < 1:609597/58‑1 (MQ=255)
tCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGCGCa > 1:1488340/1‑58 (MQ=255)
cATTTGAAGTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCaa > 1:2565937/1‑67 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:1772486/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:3387678/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:291938/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:1182642/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:2331305/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:2926109/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:783695/1‑71 (MQ=255)
cATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTtc > 1:712745/1‑71 (MQ=255)
tttGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCa < 1:523508/55‑1 (MQ=255)
tttGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCa < 1:310935/55‑1 (MQ=255)
tttGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCa < 1:276699/55‑1 (MQ=255)
tttGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtctc < 1:1188760/71‑1 (MQ=255)
tttGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTtctc < 1:129797/71‑1 (MQ=255)
tGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCtt > 1:2229973/1‑71 (MQ=255)
gAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTTCTCtt < 1:1091760/70‑1 (MQ=255)
aCTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCg > 1:1544082/1‑71 (MQ=255)
cTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAg < 1:163367/42‑1 (MQ=255)
cTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAg < 1:3735591/42‑1 (MQ=255)
cTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAg < 1:1952386/42‑1 (MQ=255)
cTGGCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAg < 1:3000402/42‑1 (MQ=255)
ggCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCgg > 1:1806525/1‑69 (MQ=255)
gCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGc < 1:1527406/69‑1 (MQ=255)
gCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGc < 1:4055965/69‑1 (MQ=255)
gCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGc < 1:3096161/69‑1 (MQ=255)
gCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGc < 1:1693412/69‑1 (MQ=255)
gCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAg > 1:2137279/1‑71 (MQ=255)
gCTTTTTTCAATTAATTGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAg > 1:2096926/1‑71 (MQ=255)
tttCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGcc < 1:3756337/70‑1 (MQ=255)
tttCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGcc < 1:2822192/70‑1 (MQ=255)
tttCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGcc < 1:2869375/70‑1 (MQ=255)
ttCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAg > 1:2403418/1‑71 (MQ=255)
ttCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAg > 1:656504/1‑71 (MQ=255)
cAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGt < 1:646741/70‑1 (MQ=255)
tattaattGTGAAGATAGTTTACTGACTAGATGTGCa < 1:1833321/36‑1 (MQ=255)
attaattGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTctct < 1:2154667/53‑1 (MQ=255)
attaattGTGAAGATAGTTCACTGACTAGATGTGCAGTTCCTGc < 1:3102505/44‑1 (MQ=255)
ttaattGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTG‑AACTTCTCTTTCGGCAGTGCCAGttcttc < 1:2481084/71‑1 (MQ=255)
aattGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGttcttc < 1:3260968/70‑1 (MQ=255)
aattGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGttcttc < 1:1396952/70‑1 (MQ=255)
aattGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCACttcttc < 1:3366788/70‑1 (MQ=255)
attGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGttcttc < 1:1318322/69‑1 (MQ=255)
attGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGttcttc < 1:1659450/69‑1 (MQ=255)
attGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCACttcttc < 1:3371565/69‑1 (MQ=255)
gAAGATAGTTTACTGACTAGATGTGCAGTTCCTGc < 1:2625602/35‑1 (MQ=255)
gAAGATAGTTTACTGACTAGATGTGCAGTTCCTGc < 1:636801/35‑1 (MQ=255)
gAAGATAGTTTACTGACTAGATGTGCAGTTCCTGc < 1:290636/35‑1 (MQ=255)
gAAGATAGTTTACTGACTAGATGTGCAGTTCCTGc < 1:3846460/35‑1 (MQ=255)
gAAGATAGTTTACTGACTAGATGTGCAGTTCCTGc < 1:1297490/35‑1 (MQ=255)
gAAGATAGTTTACTGACTAGATGTGCAGTTCCTGc < 1:1901661/35‑1 (MQ=255)
aaGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTg < 1:3822649/70‑1 (MQ=255)
aaGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTg < 1:892506/70‑1 (MQ=255)
aaGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTg < 1:2555205/70‑1 (MQ=255)
aGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGtt < 1:1811646/71‑1 (MQ=255)
aGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGtt < 1:2583622/71‑1 (MQ=255)
aGATAGTTCACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGtt < 1:2030352/71‑1 (MQ=255)
tAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGAt < 1:2895173/71‑1 (MQ=255)
aGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATg > 1:921258/1‑71 (MQ=255)
gTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGc > 1:479090/1‑71 (MQ=255)
gTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGc > 1:2763003/1‑71 (MQ=255)
tttACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGCg < 1:1945608/71‑1 (MQ=255)
tttACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGCg < 1:3199350/71‑1 (MQ=255)
tttACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGCg < 1:2989850/71‑1 (MQ=255)
ttACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGCg > 1:2664645/1‑70 (MQ=255)
|
TGCGCACTAAGTACAACTAAGCCAGTTCATTTGAACTGGCTTTTTTCAATTAATTGTGAAGATAGTTTACTGACTAGATGTGCAGTTCCTGCAACTTCTCTTTCGGCAGTGCCAGTTCTTCGTTGCTGTTGATGCG > minE/1807310‑1807445
|
| 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
