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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
291,204 |
T→C |
50.0% |
I274T (ATC→ACC) |
ppiD → |
peptidyl‑prolyl cis‑trans isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 291,204 | 0 | T | C | 50.0%
| ‑5.7
/ 70.5
| 48 | I274T (ATC→ACC) | ppiD | peptidyl‑prolyl cis‑trans isomerase |
| Reads supporting (aligned to +/- strand): ref base T (10/14); new base C (12/12); total (22/26) |
| Fisher's exact test for biased strand distribution p-value = 7.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-01 |
ATCCAGAGCTACTACGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTTGCTG > minE/291137‑291272
|
atCCAGAGCTACTACGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCatcatc > 1:162115/1‑69 (MQ=255)
tCCAGAGCTACTACGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAg < 1:118701/71‑1 (MQ=255)
tCCAGAGCTACTACGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCa < 1:2971418/70‑1 (MQ=255)
ctacGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCAGa > 1:3122051/1‑62 (MQ=255)
ctacGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCAGa > 1:3140693/1‑62 (MQ=255)
ctacGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACt > 1:3104991/1‑70 (MQ=255)
tacGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGAcc > 1:1850973/1‑63 (MQ=255)
tacGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCaa > 1:1496661/1‑65 (MQ=255)
gACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTg > 1:1097170/1‑67 (MQ=255)
gACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTg < 1:1417619/67‑1 (MQ=255)
cAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCAccc < 1:3651419/52‑1 (MQ=255)
aGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAg < 1:1315739/53‑1 (MQ=255)
aGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAg < 1:724861/53‑1 (MQ=255)
aGCATCAGGATAAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATg > 1:1784397/1‑69 (MQ=255)
gCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAg > 1:2526810/1‑71 (MQ=255)
cATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGc > 1:905566/1‑71 (MQ=255)
gATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGc < 1:2493395/71‑1 (MQ=255)
gATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGc < 1:2657966/71‑1 (MQ=255)
gATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGc < 1:580998/71‑1 (MQ=255)
aTCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCg < 1:214953/71‑1 (MQ=255)
cAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCgg > 1:1580820/1‑70 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGt < 1:2688169/63‑1 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGt < 1:2113661/63‑1 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGt < 1:2311941/63‑1 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCgg > 1:3248652/1‑62 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCgg > 1:3355430/1‑62 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCgg > 1:2241791/1‑62 (MQ=255)
ccAGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCgg > 1:2247751/1‑62 (MQ=255)
cAGCCGCAGCGTACCCACTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGt < 1:264108/62‑1 (MQ=255)
aGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCg > 1:1510301/1‑59 (MQ=255)
aGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGa > 1:919965/1‑49 (MQ=255)
aGCCGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAg > 1:1306146/1‑71 (MQ=255)
ccGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCt < 1:465310/71‑1 (MQ=255)
ccGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGc < 1:3538670/70‑1 (MQ=255)
cGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTg < 1:704939/71‑1 (MQ=255)
cGCAGCGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTg < 1:1649511/71‑1 (MQ=255)
cAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGaa > 1:2163287/1‑71 (MQ=255)
cAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGaa > 1:3035796/1‑71 (MQ=255)
gCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAAt > 1:2370012/1‑70 (MQ=255)
cGTACCCGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATaa < 1:1716466/71‑1 (MQ=255)
tACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAg > 1:2005572/1‑71 (MQ=255)
cccGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAgg > 1:145010/1‑70 (MQ=255)
ccGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGt < 1:144999/48‑1 (MQ=255)
ccGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCg < 1:2110621/71‑1 (MQ=255)
ccGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCg < 1:3437545/71‑1 (MQ=255)
ccGCTACAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCg < 1:416443/71‑1 (MQ=255)
cAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCg < 1:3478859/65‑1 (MQ=255)
cAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGAtt < 1:1673759/71‑1 (MQ=255)
cAGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGAtt < 1:681586/71‑1 (MQ=255)
aGCATCACCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGAttt < 1:3653721/71‑1 (MQ=255)
catcatCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTtg < 1:3392292/71‑1 (MQ=255)
catcacCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGAtttt < 1:2119150/70‑1 (MQ=255)
catcacCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTtg < 1:1522133/71‑1 (MQ=255)
catcacCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTtg < 1:3120611/71‑1 (MQ=255)
tcaccCAGACCAAAACTGAAGCTGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTtgct > 1:1167343/1‑71 (MQ=255)
tcaccCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTtgct > 1:1705182/1‑71 (MQ=255)
atcCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTtgctg < 1:1871853/70‑1 (MQ=255)
|
ATCCAGAGCTACTACGACCAGCATCAGGATCAATTCACCCAGCCGCAGCGTACCCGCTACAGCATCATCCAGACCAAAACTGAAGATGAAGCGAAAGCGGTACTTGATGAGCTGAATAAAGGCGGTGATTTTGCTG > minE/291137‑291272
|
| 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
