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 |
|
A10 F1 I2 R1
|
757 |
38.1 |
1607544 |
96.5% |
1551279 |
117.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,510,188 |
A→G |
intergenic (+55/+502) |
yjhV → / ← fecE |
pseudogene, KpLE2 phage‑like element/ferric citrate ABC transporter ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,510,188 | 0 | A | G | 98.2%
| 188.5
/ ‑4.6
| 54 | intergenic (+55/+502) | yjhV/fecE | pseudogene, KpLE2 phage‑like element/ferric citrate ABC transporter ATPase |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (29/24); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 4.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.33e-01 |
ATGCCAGCTTCGGTAAGCTGGGTGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGA > NC_000913/4510051‑4510321
|
aTGCCAGCTTCGGTAAGCTGGGTGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCacac > 1:694878/1‑139 (MQ=255)
cGGTAAGCTGGGTGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGaaa > 1:306025/1‑139 (MQ=255)
ggTGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGt > 2:466095/1‑139 (MQ=255)
cGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTgg > 1:26431/1‑139 (MQ=255)
cGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTgg > 1:680149/1‑139 (MQ=255)
cGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTgg < 2:694878/139‑1 (MQ=255)
aTAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATgg < 1:466095/139‑1 (MQ=255)
tAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGAATTAGCAATTCCGTTCCATGGt > 2:294034/1‑139 (MQ=255)
cAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGTTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGc > 2:508573/1‑139 (MQ=255)
tCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGAt < 1:696215/139‑1 (MQ=255)
aTCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTa > 2:606788/1‑139 (MQ=255)
ggCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGc > 1:42580/1‑139 (MQ=255)
ggCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGc > 2:67279/1‑139 (MQ=255)
gCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCg > 1:276275/1‑139 (MQ=255)
ccTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt < 2:90999/139‑1 (MQ=255)
ccTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt < 1:294034/139‑1 (MQ=255)
cTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTc > 1:789234/1‑139 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCg > 1:378201/1‑76 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCg < 2:378201/76‑1 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCa > 2:658133/1‑83 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCa < 1:658133/83‑1 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTc < 1:434708/136‑1 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTc > 2:434708/1‑136 (MQ=255)
tataACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGa > 1:9870/1‑139 (MQ=255)
aaCGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTCTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCa < 1:508573/139‑1 (MQ=255)
cGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCATAAACTGGATTAGCAAGTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCGtt < 1:421331/139‑1 (MQ=255)
ggCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAt < 2:437774/139‑1 (MQ=255)
ggCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAt < 2:42580/139‑1 (MQ=255)
gCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTc > 2:86571/1‑90 (MQ=255)
gCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTc < 1:86571/90‑1 (MQ=255)
ccGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATc < 2:9870/139‑1 (MQ=255)
tGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCa < 2:680149/139‑1 (MQ=255)
gAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGccc < 1:606788/139‑1 (MQ=255)
cTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAGATCGATGGTCAGAAACTGGATTAGCAATTCCATTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAt < 2:537595/118‑1 (MQ=255)
cTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAt > 1:537595/1‑118 (MQ=255)
acctaAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt > 2:230318/1‑98 (MQ=255)
acctaAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt < 1:230318/98‑1 (MQ=255)
gtagtaGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAAc < 2:789234/139‑1 (MQ=255)
gtagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAg > 2:470778/1‑139 (MQ=255)
tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGtt < 2:34154/83‑1 (MQ=255)
tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGtt > 1:34154/1‑83 (MQ=255)
tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCa < 1:636985/117‑1 (MQ=255)
tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCa > 2:636985/1‑117 (MQ=255)
tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGATAATGAACCAg < 2:523326/138‑1 (MQ=255)
tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATCGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGATAATGAACCAg > 1:523326/1‑138 (MQ=255)
agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCAtt > 2:654417/1‑124 (MQ=255)
agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCAtt < 1:654417/124‑1 (MQ=255)
agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCt > 2:316818/1‑139 (MQ=255)
agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCt > 1:90522/1‑139 (MQ=255)
agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCt > 2:698606/1‑139 (MQ=255)
aaCGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCt > 2:635394/1‑85 (MQ=255)
aaCGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCt < 1:635394/85‑1 (MQ=255)
cGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCaa > 2:12752/1‑103 (MQ=255)
cGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCaa < 1:12752/103‑1 (MQ=255)
cGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATCTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATCGGTAATGAACCAGCTCCGTGa > 1:468588/1‑139 (MQ=255)
|
ATGCCAGCTTCGGTAAGCTGGGTGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGA > NC_000913/4510051‑4510321
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
