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 |
|
A27 F53 I1 R1
|
117 |
75.6 |
2693952 |
95.6% |
2575418 |
126.9 |
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 | 87.8%
| 118.2
/ 11.4
| 41 | intergenic (‑37/‑492) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base . (0/5); new base T (29/7); total (29/12) |
| Fisher's exact test for biased strand distribution p-value = 1.06e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.92e-01 |
GAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTG > CP006881/3725069‑3725328
|
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCACACGTTTCATAGAAAAACATCCCTCCGCTGCTTTTTGGCAGGCCGC‑C‑t‑t > 8:140912/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGGTTTTCGGTCCGGCGTCACCCAGTTCATCAAACAGACCATCCCCCCCCGTAAAGCTACAAGCACCCGGTTCCCCTCAAATCCTCCCTCCGCGTCTGTGTGGCCGGCCCC‑C‑t‑t > 6:31496/1‑139 (MQ=255)
aaTAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑C‑t‑ttttagc > 3:291314/1‑135 (MQ=255)
gACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTagcagc < 5:46065/138‑1 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCGTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGt > 7:197917/2‑139 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCgg > 5:101278/2‑138 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGt > 6:45055/2‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGtttt > 5:326927/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGtttt > 7:221781/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGtttt < 3:137621/139‑1 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGtttt > 4:122470/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGttt > 8:73015/1‑138 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGgttt > 7:34469/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTATCATAGAAAAACATCCCTCCGCTTCATTTTGGCAGGCACC‑CTT‑TTTAGCAGCCCGttt > 7:184662/1‑138 (MQ=255)
ccGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAg > 3:208483/1‑139 (MQ=255)
ccGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAg > 3:204043/1‑139 (MQ=255)
cGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCg > 1:188885/1‑126 (MQ=255)
cGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCg < 2:188885/126‑1 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 3:160165/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTGTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGGTTTCACACCCCCAGCCCCCAAGAAAAGACGGCCGCtt > 3:227820/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTTGCAGGCCGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACCGCCGAtg > 1:131064/1‑138 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCATCCGCAGCCCGCAAGAAAAGACGGCCGAgttcgtt > 7:305466/1‑139 (MQ=255)
cccGTAACTATACAACCAAACGTTACATCAAAAAACATCCCTCGGTTTATTTTTGGCCGGAAGCTT‑T‑TTTAGCAGCCTTGTTTCTCTGCCGCCGCCCCCATAAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 4:324146/139‑1 (MQ=255)
cGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTCTCGCAAAATAGCGGctc > 7:290085/1‑139 (MQ=255)
cGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGctc > 5:61976/1‑139 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTATCGCAAACTAGCGGctc > 4:232437/1‑137 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGATTTCTTTTGTCGCAAACTAGCGGCGCTGGCAAAAc > 1:8230/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTACTTTTCTCGCAAACTAGCGGCTCTACCaaaa > 2:207806/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 7:82277/1‑139 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGTCCGATTTCTTTTGTCGCAACCTAACGTCTCGAGCAAAACt > 8:254030/1‑138 (MQ=255)
gaaaaCTTTTAATAGAAAAAAATCCCTCCGCTTCTTTTTGGATGGCAGCTT‑T‑TTTAGCCGCCGGTTTTCTCACCCGCAGCCCTAAATAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:305466/137‑1 (MQ=255)
ccacaCGTTTAATATAAAAACATCCCGCCGATGATTTTTGGCCGCCCGCTT‑T‑TTTACCCCCCGGTTTTCTCCCCCCCCGCCCCCAACAAACGACGGCCGATTTCTTTTCTTGAAAACTAGCGGCTCTAGCAAAACTCAt < 8:3009/135‑1 (MQ=255)
aaaCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 7:188931/139‑1 (MQ=255)
cggTTTCATACAAAACAGACCGTCCGCTGTGTTTTGGCCGGCCGC‑C‑TGTTTCGCCGCGCGTTTCCTCAGCCGCCGCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTCGCGGCTCTAGCAAAACTCATGAct < 8:34469/137‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 3:338233/139‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTTGCAAACAAGCGGCTCGAGCAAAACTCATGAct > 7:3009/1‑139 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct > 4:148668/1‑139 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTGCTTTTGGGCAGGCACC‑CTT‑TTTCGCAGCCCGTTTTCTCAGCCGCAGCCCCCAACAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 8:197917/139‑1 (MQ=255)
aaaaaCATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGAAAGAc > 5:139164/1‑139 (MQ=255)
tCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGa > 5:84248/1‑138 (MQ=255)
cTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAATCTATGAAAGACCGTTGaaa > 3:62698/1‑137 (MQ=255)
cGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCACCCGCCCCCCGAAACAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGaa < 7:73015/139‑1 (MQ=255)
cttTTTGCCCGGCAGCTT‑T‑TTTAGCAGCCGGTTTTCACAGCCCCACCCCGCAACAAACCACGGCCTATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCt < 6:61976/138‑1 (MQ=255)
ttttGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTg > 7:250034/1‑139 (MQ=255)
|
GAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTG > CP006881/3725069‑3725328
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
