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 |
|
A9 F56 I0 R1
|
218 |
83.1 |
3292392 |
95.3% |
3137649 |
126.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
2,963,937 |
G→A |
67.3% |
intergenic (‑124/+156) |
U712_15285 ← / ← U712_15290 |
Manganese‑binding lipoprotein mntA/o‑succinylbenzoate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 2,963,937 | 0 | G | A | 67.3%
| 52.6
/ 47.0
| 52 | intergenic (‑124/+156) | U712_15285/U712_15290 | Manganese‑binding lipoprotein mntA/o‑succinylbenzoate synthase |
| Reads supporting (aligned to +/- strand): ref base G (15/2); new base A (30/5); total (45/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.13e-01 |
GCCCTTGTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCATTTA > CP006881/2963801‑2964067
|
gCCCGTGTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCa < 1:402571/139‑1 (MQ=255)
cccTTGTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGCCATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACa > 1:328394/1‑138 (MQ=255)
atatTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATcgcg > 3:74276/1‑139 (MQ=255)
atatTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATcgcg > 3:47596/1‑139 (MQ=255)
ctcctcctcTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTATTATACATTTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAATTTATCGCGTTTGGc > 8:163757/1‑139 (MQ=255)
ctcctcTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCAt < 7:48068/139‑1 (MQ=255)
tGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTc > 6:289060/1‑138 (MQ=255)
tGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTc > 6:294642/1‑138 (MQ=255)
tCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCTCGTTTGGCCATTTTTGTCAAGCt > 5:71478/1‑138 (MQ=255)
tCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCt > 4:238933/1‑138 (MQ=255)
tCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCt > 5:76417/1‑138 (MQ=255)
aTTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGTAAAATTATCGAGTTTGGCCATTTTTGTCAAGCTGATTTACTTa > 4:65284/1‑138 (MQ=255)
ttttATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATaaaaa < 7:281216/138‑1 (MQ=255)
tCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATg > 4:352087/1‑85 (MQ=255)
tCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATg < 3:352087/85‑1 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTa > 3:173961/1‑120 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTa < 4:173961/120‑1 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTggg > 1:68447/1‑139 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTggg > 7:224503/1‑139 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACAGGCTggg > 8:230232/1‑139 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATAATCGCGTTTGGCCATTTTTGTCAAGATGATTTACATAAAAAAACCGGCTggg > 1:367156/1‑139 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTcag > 5:40142/1‑138 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGCCTGGGTcag > 5:124103/1‑138 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTcag > 3:101046/1‑138 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTcag > 1:49480/1‑138 (MQ=255)
aGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTc > 7:322871/1‑138 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGTAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCTGTctctta > 5:37093/1‑133 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCa > 2:111428/1‑63 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCa < 1:111428/63‑1 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAAc > 4:53626/1‑138 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTAATTTACACAGGACAAAAAGTTACCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGACAGAAGCCGGTCCatcc > 3:70767/1‑135 (MQ=255)
aaTTAATTTACCAAAAAGTATTTTTTATTTACACAGTAAAAAAATTTACAATAATAAAAAATTATCGCGTTTGCCATTTTTTGAAAAGATTATTAAAAAAAAAAACCCGGCTGGGTCAGCAGCCGGTCCAAACGAGaa < 2:68447/137‑1 (MQ=255)
aTTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAgg > 2:255653/1‑139 (MQ=255)
gCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTAtt > 1:71133/1‑138 (MQ=255)
ccAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTc > 1:54843/1‑138 (MQ=255)
aaGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACg > 1:208216/1‑138 (MQ=255)
gTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAATTATCACGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACtt > 8:83596/1‑139 (MQ=255)
gTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACtt > 4:121845/1‑139 (MQ=255)
atttaCACAGGACAAAAAGTTCCCATCAAACAAATTTTTGGGGGTTGGCTATTTTTTTCATGCTTATTAAAAAAAAAACCCCGGCTGGGTCAGCTGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTAc < 2:328394/138‑1 (MQ=255)
taCACAGGACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCACACGAGAAGGGATGTATTCAACGAACACTTTTACTGt > 8:249382/1‑138 (MQ=255)
ggACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGca > 1:258696/1‑139 (MQ=255)
gACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCACACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGca > 7:364175/1‑138 (MQ=255)
gACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGcac > 4:71015/1‑139 (MQ=255)
gACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGca > 1:190187/1‑138 (MQ=255)
gACAAAAAGTTTCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGca > 1:363847/1‑138 (MQ=255)
ttCCCTCATGTAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 4:309735/1‑138 (MQ=255)
ttCCCTCATGCAAGATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 8:270537/1‑138 (MQ=255)
ttCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 5:46225/1‑138 (MQ=255)
ttCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 1:42909/1‑138 (MQ=255)
ttCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 3:32822/1‑138 (MQ=255)
ttCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTAAATAAAAAAACCGGCTGGTTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 3:131757/1‑138 (MQ=255)
ttCCCTCATACAAAATTATCGCGTTTGGCCATTTTTGTAAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCGGCCGGTCCAAACGAGAAGGGATGTAGTCAACGAACACTTTTAGTGTAACAGCACAGTTTCAtt > 5:287327/1‑138 (MQ=255)
ttCCCTCATACAAAATTATCGCGTTTGGCCATTTGTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 5:398203/1‑138 (MQ=255)
tCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCATTTa > 3:81308/1‑139 (MQ=255)
|
GCCCTTGTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAATTATCGCGTTTGGCCATTTTTGTCAAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCATTTA > CP006881/2963801‑2964067
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
