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 |
|
A3 F50 I2 R1
|
257 |
49.9 |
1554294 |
99.0% |
1538751 |
150.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,465,739 |
T→C |
pseudogene (348/2513 nt) |
ydbA → |
pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,465,739 | 0 | T | C | 98.0%
| 169.5
/ ‑4.4
| 50 | pseudogene (348/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (14/35); total (14/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
TGCCATGGCTTTCCACAGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTTCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTCGCGATTCAGTTTTTACTTATAC > NC_000913/1465597‑1465885
|
tGCCATGGCTTTCCACAGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAAc > 2:148212/1‑151 (MQ=255)
aTGGCTTTCCACAGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCt < 2:427684/151‑1 (MQ=255)
ttCCACAGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCgg > 2:1207/1‑150 (MQ=255)
ccACAGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGgaga < 1:260652/151‑1 (MQ=255)
cacaGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGgagat < 1:526096/151‑1 (MQ=255)
gctgcGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGataata < 2:402886/150‑1 (MQ=255)
gctgcGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGataat < 1:205052/149‑1 (MQ=255)
gcGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCgg < 2:529626/151‑1 (MQ=255)
aaTCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGAt > 2:634950/1‑151 (MQ=255)
aGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACg < 1:106403/151‑1 (MQ=255)
gTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTacac < 2:723666/151‑1 (MQ=255)
aaCGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAAc < 1:747038/151‑1 (MQ=255)
acgacgATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAAcc < 1:738769/151‑1 (MQ=255)
cgacgaTGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCg < 1:342447/151‑1 (MQ=255)
cgacgaTGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCg < 1:8880/151‑1 (MQ=255)
acgaTGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGt > 1:301368/1‑151 (MQ=255)
tgatgatCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCg > 1:704695/1‑151 (MQ=255)
gatgatCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCg < 1:261132/150‑1 (MQ=255)
gatgatCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGt < 1:473802/151‑1 (MQ=255)
gatCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGttt < 2:184650/150‑1 (MQ=255)
catcatcatcGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTtaat < 1:732629/150‑1 (MQ=255)
cGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGtt < 1:283076/150‑1 (MQ=255)
cGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCAAAACCGGTTTCGTTTAATAATGACGTTa < 2:5455/151‑1 (MQ=255)
gCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTAt > 1:655899/1‑151 (MQ=255)
gCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTAt > 1:608113/1‑151 (MQ=255)
gCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTAt < 2:386396/151‑1 (MQ=255)
caacaaTTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTAtt < 2:643910/151‑1 (MQ=255)
aacaaTTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATtc < 2:63368/151‑1 (MQ=255)
aaTTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCg < 2:457616/151‑1 (MQ=255)
aTTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCg < 2:598950/150‑1 (MQ=255)
tctcCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGAt > 1:766888/1‑150 (MQ=255)
ccACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATaaaa < 2:129051/151‑1 (MQ=255)
tCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAAc > 1:230296/1‑148 (MQ=255)
cccACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAg < 1:109983/149‑1 (MQ=255)
cccACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaa < 2:450226/151‑1 (MQ=255)
cccACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaa < 1:416657/151‑1 (MQ=255)
ccACCTACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaaa < 1:7963/151‑1 (MQ=255)
ccACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaaa < 1:597693/151‑1 (MQ=255)
ccACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaaa < 1:420980/151‑1 (MQ=255)
cACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaaa > 2:176921/1‑150 (MQ=255)
aCCGACACCCCCTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGaaaa > 1:135629/1‑150 (MQ=255)
acacCCCCTGATGATGAATCAGACCACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCCAACCGGTTTCGTTTCATAATGACGTTATTATCGATAAACCAGAAAAAACGt > 2:313226/1‑151 (MQ=255)
cccccTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTaa < 1:371498/151‑1 (MQ=255)
ccccTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTaa < 1:719466/150‑1 (MQ=255)
cccTGATGATGAATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACt > 2:734378/1‑151 (MQ=255)
gatgatgaATCAGACGACACTCCAGTTCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTc < 2:702083/151‑1 (MQ=255)
gatgaATCAGACGACACTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTcgcg < 1:240674/151‑1 (MQ=255)
cacTCCAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTCGCGATTCAGTTTTTACt < 1:216408/151‑1 (MQ=255)
cAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTCGCGATTCAGTTTTTACTTATAc > 1:162463/1‑151 (MQ=255)
cAGTCCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTCGCGATTCAGTTTTTACTTATAc < 2:693994/151‑1 (MQ=255)
|
TGCCATGGCTTTCCACAGGCGCTGCTGCGTTAATCACGGCCTTAGCCGTAGTGGAACTAAACGACGATGATGATCATCATCATCGCAACAATTCTCCACTCCCACCGACACCCCCTGATGATGAATCAGACGACACTCCAGTTCCCCCAACTCCTGGCGGAGATGAGATAATACCGGACGATCCGGATGATACGCCTACACCTCCCAAACCGGTTTCGTTTAATAATGACGTTATTCTCGATAAAACAGAAAAAACGTTAACTATTCGCGATTCAGTTTTTACTTATAC > NC_000913/1465597‑1465885
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
