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 F1 I1 R1
|
770 |
51.4 |
2439994 |
93.8% |
2288714 |
110.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,769,648 |
(C)6→5 |
intergenic (+162/‑55) |
yfjQ → / → yfjR |
CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, putative DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,769,643 | 0 | C | . | 96.2%
| 194.3
/ 2.3
| 52 | intergenic (+157/‑60) | yfjQ/yfjR | CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base . (26/24); minor base A (1/1); total (27/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.26e-01 |
GTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGCCCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGT > NC_000913/2769507‑2769777
|
gttAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGccc < 1:939708/139‑1 (MQ=255)
ttAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTAGATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCCGTCCGcccc < 2:773117/139‑1 (MQ=255)
ttAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc < 2:1041347/139‑1 (MQ=255)
caccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc < 1:113226/125‑1 (MQ=255)
caccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc > 2:113226/1‑125 (MQ=255)
caccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCttt < 2:293462/131‑1 (MQ=255)
caccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCttt > 1:293462/1‑131 (MQ=255)
cTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATcac > 1:1203916/1‑139 (MQ=255)
cATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAACAATAGTTTCTGCGTTGTCCATACCCTGTCCGccccctctt > 1:739196/1‑116 (MQ=255)
cATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGccccctctt < 2:739196/120‑5 (MQ=255)
cGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtcagtcag < 2:431420/133‑1 (MQ=255)
cGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtcagtcag > 1:431420/1‑133 (MQ=255)
tgCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCTTTTTCAGTCAGTTaa < 1:96182/133‑1 (MQ=255)
tgCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCTTTTTCAGTCAGTTaa > 2:96182/1‑133 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc < 2:391273/95‑1 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc > 1:391273/1‑95 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTaa < 2:1200253/103‑1 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTaa > 1:1200253/1‑103 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa < 1:968201/131‑1 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa > 2:968201/1‑131 (MQ=255)
tCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAt < 2:1203916/139‑1 (MQ=255)
ataGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGac < 2:511521/139‑1 (MQ=255)
aGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGacac < 2:206745/139‑1 (MQ=255)
aGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGacac > 2:359904/1‑139 (MQ=255)
ttAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa < 1:234706/108‑1 (MQ=255)
ttAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa < 2:693985/108‑1 (MQ=255)
ttAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa > 1:693985/1‑108 (MQ=255)
ttAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa > 2:234706/1‑108 (MQ=255)
ttAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCa > 1:535220/1‑139 (MQ=255)
tAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa > 2:597157/1‑107 (MQ=255)
tAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa < 1:597157/107‑1 (MQ=255)
aaCCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa > 2:400205/1‑106 (MQ=255)
aaCCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa < 1:400205/106‑1 (MQ=255)
cGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGaa < 1:688291/113‑1 (MQ=255)
cGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGaa > 2:688291/1‑113 (MQ=255)
tCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTACG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGAc < 2:771508/139‑1 (MQ=255)
ggCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc > 2:470058/1‑54 (MQ=255)
ggCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc < 1:470058/54‑1 (MQ=255)
ggCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa < 2:441890/90‑1 (MQ=255)
ggCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTaa > 1:441890/1‑90 (MQ=255)
gCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCggc > 1:835273/1‑139 (MQ=255)
gCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCggc < 2:835273/139‑1 (MQ=255)
gCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCC‑ACCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAAc > 2:115276/1‑124 (MQ=255)
gCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCC‑ACCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAAc < 1:115276/124‑1 (MQ=255)
cTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATc < 2:151911/67‑1 (MQ=255)
cTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATc > 1:151911/1‑67 (MQ=255)
aaaTAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGAcc > 1:643504/1‑126 (MQ=255)
aaaTAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGAcc < 2:643504/126‑1 (MQ=255)
aaTAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTggctgtcagg < 2:500498/139‑1 (MQ=255)
aaTAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTggctgtcagg < 2:535220/139‑1 (MQ=255)
aaaaaTAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAATCAGTTAACTTTCCTGGAGAATCTCTCATGACACACGCAGAACGCCGCCATGACCGGCTtgctgtcaggctgt < 1:816115/139‑1 (MQ=14)
aaaaaTAGTTTCTGCATTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTggctgtcaggctgt < 2:510552/139‑1 (MQ=255)
tAGTTTCTGCGTTGTCCATACCCTATCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTg > 2:1184476/1‑139 (MQ=255)
ttCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATaa > 2:973894/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGga > 2:530343/1‑55 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGga < 1:530343/55‑1 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 2:482658/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt < 2:127616/139‑1 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 1:56899/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 1:38857/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 1:127616/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 1:1149637/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGATGCggtt > 1:782367/1‑137 (MQ=255)
|
GTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGCCCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGT > NC_000913/2769507‑2769777
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
