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 |
|
A1 F999 I1 R1
|
225 |
156.4 |
11709729 |
83.8% |
9812752 |
75.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,958,877 |
2 bp→CG |
coding (586‑587/2022 nt) |
rep → |
rep helicase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,958,877 | 0 | G | C | 99.2%
| 361.3
/ NA
| 131 | A196R (GCC→CGC) | rep | rep helicase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base C (70/60); minor base A (1/0); total (71/60) |
| 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 |
| * | NC_000913 | 3,958,878 | 0 | C | G | 98.5%
| 354.2
/ NA
| 131 | A196R (GCC→CGC) | rep | rep helicase |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base G (69/59); total (71/60) |
| 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 |
Only 100 of 131 total aligned reads displayed.
TGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAGCCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACA > NC_000913/3958807‑3958946
||
tgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAAt > 2:555689/1‑76 (MQ=255)
acacCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaa < 2:4740164/76‑1 (MQ=255)
cacCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaag > 1:4166916/1‑76 (MQ=255)
acCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaaga < 1:2879843/76‑1 (MQ=255)
acCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaaga > 1:4840215/1‑76 (MQ=255)
acCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaaga < 2:1064641/76‑1 (MQ=255)
ccTGAAGGCCTGTAACGTTCTCGACTTCGATGATCTGATTTCATTGCCGACGTTGCTGCTGCAACGCAATgaagaa < 2:511903/76‑1 (MQ=255)
ccTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaagaa < 2:3302146/76‑1 (MQ=255)
cTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCTGACGTTGCTGCTGCAACGCAATGaagaag > 2:1025815/1‑76 (MQ=255)
cTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGaagaag < 2:4345515/76‑1 (MQ=255)
tGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGt < 1:4603966/76‑1 (MQ=255)
gAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTc < 1:661317/76‑1 (MQ=255)
aaaTCCTGTAGCGGTCTCGACTTCGAGGAGCTGATTTTATGGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTcc < 2:649350/76‑1 (MQ=255)
aaaGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTcc > 2:5043891/1‑76 (MQ=255)
aaaGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTcc < 2:606307/76‑1 (MQ=255)
gCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCa < 2:2578221/76‑1 (MQ=255)
gCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCa < 1:1178494/76‑1 (MQ=255)
ccTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCaa < 1:4439153/76‑1 (MQ=255)
ccTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCaa > 1:4744080/1‑76 (MQ=255)
ccTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCaa > 1:2546305/1‑76 (MQ=255)
cTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAg > 2:4536095/1‑76 (MQ=255)
tGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCGATGAAGAAGTCCGCAAgc < 1:2260972/76‑1 (MQ=255)
tGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgc < 1:3677107/76‑1 (MQ=255)
gTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcg > 2:2246369/1‑76 (MQ=255)
gTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcg > 1:1320802/1‑76 (MQ=255)
tAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcgc < 1:2144728/76‑1 (MQ=255)
tAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGGTGCTGCTGGAACGCAATGGAGAAGGCCGCAAgcgc > 1:2001662/1‑76 (MQ=255)
aaCGTGCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCt < 2:694560/76‑1 (MQ=255)
aCGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTg < 1:1302190/76‑1 (MQ=255)
aCGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTg > 2:2861530/1‑76 (MQ=255)
cGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTgg < 2:2100450/76‑1 (MQ=255)
gTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTGCGCAAGCGCTGGc < 2:1461143/76‑1 (MQ=255)
gTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGc < 2:3784085/76‑1 (MQ=255)
ttCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCa < 1:990094/76‑1 (MQ=255)
ttCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCa > 2:2747821/1‑76 (MQ=255)
ttCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCa < 2:5476728/76‑1 (MQ=255)
ttCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCa < 1:3178594/76‑1 (MQ=255)
ttCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCa > 2:5642091/1‑76 (MQ=255)
ctcGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGa < 1:2827043/76‑1 (MQ=255)
ctcGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGa > 1:4230346/1‑76 (MQ=255)
ctcGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGa > 1:4220805/1‑76 (MQ=255)
ctcGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGa > 1:282911/1‑76 (MQ=255)
cGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAAc > 1:4628761/1‑76 (MQ=255)
cGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAAc < 2:478220/76‑1 (MQ=255)
gACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACa > 1:4363908/1‑76 (MQ=255)
gACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACa > 2:5222527/1‑76 (MQ=255)
aCTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaa < 1:4680518/76‑1 (MQ=255)
aCTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaa > 2:3040553/1‑76 (MQ=255)
aCTTCGATGACCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaa > 2:4933831/1‑76 (MQ=255)
ttCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaaaa > 1:5308946/1‑76 (MQ=255)
ttCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaaaa < 1:3696229/76‑1 (MQ=255)
tgcGATGATCTGATTTTATTGCCGAAGTTGCTGCGGCAACGCAATGAAGAAGTCCGCAAGTGCTGGCAGAATaaaa > 1:4905594/3‑76 (MQ=255)
tCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAAt < 2:2996330/76‑1 (MQ=255)
cGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAAtt > 1:1836048/1‑76 (MQ=255)
gatgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTc > 1:5009524/1‑76 (MQ=255)
atgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTca > 1:1519624/1‑75 (MQ=255)
gatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCt < 1:3921281/76‑1 (MQ=255)
atCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTa < 2:1510014/76‑1 (MQ=255)
tCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTAt < 1:201972/76‑1 (MQ=255)
cTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATc < 1:3485172/76‑1 (MQ=255)
gATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctg > 1:1489387/1‑76 (MQ=255)
aTTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctgc < 1:5279249/76‑1 (MQ=255)
aTTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctgc < 1:5222528/76‑1 (MQ=255)
tttATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctgctg < 2:4590982/76‑1 (MQ=255)
aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggtg > 1:76705/1‑76 (MQ=255)
aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggtg < 2:412411/76‑1 (MQ=255)
ttGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggtgg > 1:1811947/1‑76 (MQ=255)
ttGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggtgg > 1:1580530/1‑76 (MQ=255)
tGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGa > 1:4798743/1‑76 (MQ=255)
gCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAt < 1:2269251/76‑1 (MQ=255)
gCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAt > 2:182350/1‑76 (MQ=255)
gCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAt > 1:889715/1‑76 (MQ=255)
cGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGa > 1:2013851/1‑76 (MQ=255)
taCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAg > 2:4921021/2‑76 (MQ=255)
gACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAg > 1:550741/1‑76 (MQ=255)
aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt < 2:4525533/76‑1 (MQ=255)
aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt > 2:1552257/1‑76 (MQ=255)
aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt > 1:3049644/1‑76 (MQ=255)
aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt < 2:1871979/76‑1 (MQ=255)
cGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTa < 1:3933180/76‑1 (MQ=255)
cGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTa > 1:174954/1‑76 (MQ=255)
gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAt > 1:1034299/1‑76 (MQ=255)
gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAt > 1:428815/1‑76 (MQ=255)
gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAt < 1:3040553/76‑1 (MQ=255)
gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAt > 2:1819418/1‑76 (MQ=255)
gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAt < 1:5294833/76‑1 (MQ=255)
gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGCAt > 2:3713093/1‑76 (MQ=255)
gTTGCTCCCGCAAACCAATGAACAAGTCCGCATGCGCCGGCAGTACAAAATTCGCTAGCTGCTGGTGGGTGAGCAt > 1:2342160/1‑76 (MQ=255)
ttGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATc < 1:5570388/76‑1 (MQ=255)
ttGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATc > 1:5542454/1‑76 (MQ=255)
gctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAg > 1:3843933/1‑76 (MQ=255)
ctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAgg > 1:2070692/1‑76 (MQ=255)
tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGa > 2:341656/1‑76 (MQ=255)
tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGa > 2:2226055/1‑76 (MQ=255)
tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGa > 1:4624513/1‑76 (MQ=255)
tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGa > 1:2106713/1‑76 (MQ=255)
tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGCGGATGAGTATCAgaa > 1:5785272/1‑74 (MQ=255)
gctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGac > 2:3870278/1‑76 (MQ=255)
gctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGac < 2:3533261/76‑1 (MQ=255)
ctgcAACCAATTGAAGAAGTGCGCAAGCGCTGGCAGAACAAAATTCGCAATCAGCTGGTGAATGAGTATCCGGaca < 1:334599/76‑1 (MQ=255)
||
TGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAGCCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACA > NC_000913/3958807‑3958946
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
