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 |
|
A20 F53 I6 R4
|
121 |
75.7 |
2723416 |
94.9% |
2584521 |
126.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,209 |
+T |
intergenic (‑41/‑488) |
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 | 77.3%
| 100.7
/ 31.2
| 47 | intergenic (‑37/‑492) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base . (2/8); new base T (22/12); total (27/20) |
| Fisher's exact test for biased strand distribution p-value = 2.70e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.07e-01 |
TGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑C‑T‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCG > CP006881/3725068‑3725310
|
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGG‑CAG‑C‑C‑t > 2:316627/1‑139 (MQ=255)
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGAAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCATTTTGGCAGG‑CAG‑C‑C‑t > 7:17917/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑C‑t‑t > 1:216473/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTGGTTTTGGCAGG‑CGC‑C‑C‑t‑t > 5:53244/1‑139 (MQ=255)
aaTAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑C‑t‑ttttagc > 2:19999/1‑135 (MQ=255)
accgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGccc > 8:206937/4‑139 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCCCACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGt > 5:103454/2‑139 (MQ=255)
ggCCGCCGCAGTTTTTCTGTCCGGCGTCCCCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTGGTTTTGGCCGG‑CCG‑C‑CGT‑TTGT‑GCAGGCCGtttt > 5:206156/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAACCGACCATCCACACCCGTAAAGATACAAGCCAACGTTTCATAGATAACCAGCCCTCCGCGTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCTGCCCGtttt > 8:130959/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCCCACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGtttt > 3:290724/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTa‑gcag < 5:264334/131‑1 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTa‑gcag > 6:264334/1‑131 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGtttt > 3:284000/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑C‑TGTTTA‑GCAGCCCGttt > 6:291930/1‑138 (MQ=255)
gCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTTGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTtctaa > 4:157817/1‑137 (MQ=255)
ccGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAg > 4:183646/1‑139 (MQ=255)
cTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGcccg < 7:42691/138‑2 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAACCATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑C‑T‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAttt > 5:94324/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAgttcttt > 7:155857/1‑139 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTAGCaaa > 7:140267/1‑138 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGctg > 5:157389/1‑136 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCGTTTCTCGCAAACTAGCGGctc > 1:276090/1‑137 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCGTTTCTCGCAAACTAGCGGctc > 7:274320/1‑137 (MQ=255)
tAAAGATACAACCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTATGGCAGG‑CTG‑C‑CTT‑TTTA‑GCAGCCCGATATCTCCGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCGAACTAGCGGCTCTa > 6:234321/1‑139 (MQ=255)
acaTACAACAAAACGTTTAATATAAAAACATCCCTCCGTTTTTTTTGGGCCGT‑CTG‑CTT‑T‑TTTC‑GACGCCGTTTTTTTCCGCCCCCGCCCCAAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 4:220454/137‑1 (MQ=255)
aGATACAAGCAAAGTTTTCATTGAAAAACTGCCCACCGCTTCTTTTGGCCTGG‑CAG‑C‑CTT‑TTTA‑GCTGCGGTTTTTCACAGCCGCCGCCCGCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 8:54389/139‑1 (MQ=255)
gaaaaaaGCACACGTTTAATACAAAAACAGCCCTCCGCTTCTTTTTGCCCGC‑CTG‑C‑CTT‑TTTC‑GCCGCCGTTTTTCTCCGCCCCACCCCCCAAGAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaa < 6:117983/134‑1 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGcc < 1:99620/85‑1 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTGGCAAACTAGCGTCTCTAGCAAAAc > 5:54903/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGGGCTAGCaaaa > 2:290331/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAACAAAAGACGGCCGATTTCTTTTCTCGCAAACTATCGGCTCAAGCaaaa > 3:220454/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGGTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCATTTCTCGCAAACTAGCGGCGCTAGCaaaa > 5:318709/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CGT‑TTTA‑GCAGCCCGTGTTCTCAGCCGCAGcc > 2:99620/1‑85 (MQ=255)
aGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCCGCCGCAGCCCCAAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCa < 4:284000/139‑1 (MQ=255)
gCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCACCCCGCATGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:59620/139‑1 (MQ=255)
ccAAACGTTTAATATAAAAACATCCCTCCGCTTATTTTTGGCCGG‑AAGAC‑T‑T‑TTTC‑GCAGCCCGTTTTCTACGCCGCAGCCCCAAATAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 6:157389/138‑1 (MQ=255)
aaaGGTTTAATACAAAAACAGCCCCCCGCTTCTTTTGGGCCGG‑CCC‑C‑CTT‑TTTA‑CCCCCCGGTTTTCTCCGCCCCCCCCCGAAACAACCCACGGCCGATTTCTTTTCTCGCAAACTCGCGGCTCTAGCAAAACTCATGa < 1:316627/139‑1 (MQ=255)
aaaCGTTTCATCTAAAAACAACCCTCGGTTTCTTTTTGGCCGC‑CTG‑CTT‑T‑TTTA‑GCCGCCCGTTTTCTCTGCCGCTGCCCGCAAGAATCGACGGCCGTTTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 4:153597/139‑1 (MQ=255)
aaaCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCCGCCCCCAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 7:206937/139‑1 (MQ=255)
aaaCGTTTAATATAAAAACATCCCACCGATGCTTTTTGGCCGC‑CAG‑C‑CTT‑TTTA‑GCACCCCGTTTGCTCCGCCCCCCCCCCCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 3:157817/139‑1 (MQ=255)
aaaCGTTCAATATAAAAACAACCCTCCGATTTTTTTGGGCTGC‑CAG‑CAT‑T‑TTTC‑CCAGCCGGTTTACACCGCCGCCGCCCGAAATAAAACACGGCCTATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 5:291930/139‑1 (MQ=255)
ccGTTTAAAAAAAAAACATCCCTCCGTTTCTTTTGGGCTGC‑CCG‑CAT‑T‑TTTA‑GACGCCGTTTTTACCACCCGCCGCCCCAAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 6:195497/138‑1 (MQ=255)
ccGTTACAAACAAAAACATCCCCCGGGTGCTTTTGGGCGGG‑CAG‑CGT‑T‑TTTC‑GCCGCCCGTTTGCCCCGCCGCCCCCCCAAAAAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 1:226990/138‑1 (MQ=255)
acttttCATACAAAACCACCCCGCCGCTTATTTTGGCCCGG‑CCG‑C‑CTT‑TTTC‑GCCGCCGGTTTCCCCCGCCGCCCCCCGCAAAAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 1:42571/136‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCTTTTCTCGCAAACTAGCGGCGCGAGCCAAACTCATGAc > 7:123259/1‑138 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCTTTTCTCGCAAACTAGCCGCGCAAGCAAAACACATgcc > 5:177339/1‑136 (MQ=255)
aCGTTTCATACAAAAACATCCCTCCGATTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCCGCCCCAGCCCGAACTAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 8:257323/139‑1 (MQ=255)
caatccaaaacCATCCGCCCGATTATTTTTGCCAGC‑CCT‑C‑T‑T‑TTTACGCAGCCCTTTTGCTCCGCCGACCCCCCCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATg < 4:290724/133‑1 (MQ=255)
cATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CCG‑C‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTATCGCAAACTAGCCGCGCTAGCAAAACTCATGACGCTATGa > 4:122532/1‑139 (MQ=255)
atatAAAAAAATCCGTCCGTTTTTTTTTGGATGGACGA‑T‑T‑T‑TTTA‑GCCCCCGTTTTTCTCACCCCCAGCCCCAAAAAAACCAGGGCCGATTTCTTTTCTCTCAAAGTAGCGGCTATAGCAAAACTCATGACTCTATGAt < 8:140267/139‑1 (MQ=255)
aaaaCATCCCTCCGCTTATTTTTGGCCGG‑CAG‑C‑CGT‑TTTA‑GCATCCCGTTTTCTCAGCCCCACCCCGCAACAAAAGCCCGCCGATTTCTTATCGCCCAAACTAGCGGCGCTACCAAAAACCATCACACCATTATAGAcc > 4:183984/1‑139 (MQ=255)
aaaCATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑CTT‑TTTA‑GCACCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAATTCAAGTCTCGCAAACTACCGGCTCTAGCAAAACTCATGACTCTATGATAGACCg > 5:130828/1‑139 (MQ=255)
|
TGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAG‑C‑C‑T‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCG > CP006881/3725068‑3725310
|
| 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
