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 |
|
A17 F55 I0 R1
|
217 |
81.2 |
3243344 |
95.0% |
3081176 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,205:1 |
+T |
100% |
intergenic (‑37/‑492) |
U712_19205 ← / → U712_19210 |
Uncharacterized protein ywcI/Minor extracellular protease vpr |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 3,725,205 | 1 | . | T | 81.8%
| 76.0
/ 15.3
| 33 | intergenic (‑37/‑492) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base . (4/2); new base T (20/4); total (27/6) |
| Fisher's exact test for biased strand distribution p-value = 5.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. |
GAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATAT > CP006881/3725069‑3725337
|
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCCCCCAGTTCATCAAAAAGCCCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGGAGTTTTGGCCGGCAGc‑cgt > 1:181662/1‑137 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTTGCCGGAAGC‑C‑t‑t > 1:314649/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGGTCATCAAATAGCCAATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACACCCCTCCGCTTGTTTTTGGCCGGCAGC‑C‑t‑t > 5:399859/1‑139 (MQ=255)
aaTAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑t‑t‑tttagc < 2:103669/139‑5 (MQ=255)
accgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCAACCACACCCGTAAAGAGACACGCAACCGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑C‑T‑TGTTAGCAGccc > 3:160026/4‑139 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGCCCATCCACCCCCGTAAAGCTACAAGCAAACGTTTCATAGAAAAACATCACTCCGCTTCTGTTTGGCAGGCAGC‑CTT‑T‑TTAGGAGCCCgg > 5:230937/2‑138 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TGT‑TTAGCAGCCCGt > 7:42063/2‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGtttt > 7:29728/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGT‑T‑TTAGCCGCCCGttt > 5:117754/1‑138 (MQ=255)
tCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAACCGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGGAGC‑C‑TGT‑TTAGCCGCCCGTTTTCTCCGCCGCCGcccgc > 2:30452/1‑134 (MQ=255)
tCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGcccgc < 5:12609/136‑3 (MQ=255)
tCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGcccgc > 8:68005/1‑134 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACTGCCGAtt > 8:170490/1‑139 (MQ=255)
ttCATAAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGATTCATAGAAAAACATCCCACCCCGTCTATTTGGCAGGCAGC‑C‑TGT‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGcccagt > 8:400240/1‑135 (MQ=255)
tcatcaAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCTGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAttt > 7:160464/1‑139 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCACC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCAAGCaaa > 7:380341/1‑138 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCACGCAGC‑CAT‑T‑TTAGCACCCCGGTTTCTCAGCCGCAGCCCCCCAGAAAAGCCCGCCGCATTCTAATCTCGCaaa > 6:242390/1‑138 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGcc < 1:364049/92‑1 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGcc > 2:364049/1‑92 (MQ=255)
aaGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGAAGCCCGTTTTCTCAGCCGCAGCCCGCAACAAAAGACGGCCGATTTGTTTTCACGCAAACTAGCGGCTCTAg > 3:175736/1‑138 (MQ=255)
aGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCACCCCGTTTTCTCAGCCGCCCCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 3:337730/139‑1 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCCGCCCGTTTTCTCAGCCGCCGCCCGCCAGAAAAGACGGCCGCTTTCTTTTCTCGCAACCTAGCGGCGCTATCaa > 8:357591/1‑138 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaa > 4:361695/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 8:12548/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 1:277184/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 8:342772/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 3:288943/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTAGTTTTGGCAGGCAGC‑CAT‑T‑TTAGCAGCCCGGTTTATCAGCCGCAGCCCCCAAGAAAAGACGGCCGATGTATTTTATCGCAAAATAGCGCCACTAGCaaaa > 4:119252/1‑138 (MQ=255)
accAACCGTTTCATATAAAAACCTCCCTCCGTTTCTTTTTGGCAGCCCGC‑CTT‑T‑TTAGCCGCCCGTTTCCGCCGCCCCCCCCCTAAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCa < 8:29728/137‑1 (MQ=255)
ccAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCCGGCAGCTT‑T‑T‑TTAGCAGCCCGTTTTCTCCCCCGCAGCCCGCAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:14399/138‑1 (MQ=255)
aaaCGTTTCATACAAAAACTCCCCTCCGCTTCTTTTTGGCAGGCAGCTT‑T‑T‑TTAGCAGCCCGTTTTCTCAGCGGCAGCCCGAAAGAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 3:361695/139‑1 (MQ=255)
cATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGATTTGATTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGGCACTaag > 3:275637/1‑136 (MQ=255)
cATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGa > 2:14886/1‑139 (MQ=255)
cGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TTAGCAGCCCGTTTTATCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCCAACTACCGGCTCGAGCAAAACAACAGACACTATGATAGCCCCGGGAAAGAGaa > 6:400038/1‑139 (MQ=255)
ggcagC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCAAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCATTGTCACAata > 1:285662/1‑139 (MQ=255)
gcagC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATTACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatac > 7:323104/1‑138 (MQ=255)
gcagC‑CTT‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGAGGCTCTAGCAACACTCATGACTCGATTCTAGCCCGTGGAAAGCGAATTCTTTGTCACAatat > 6:102206/1‑139 (MQ=255)
|
GAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑T‑TTAGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATAT > CP006881/3725069‑3725337
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
