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 I4 R1
|
119 |
110.4 |
4066752 |
95.0% |
3863414 |
126.5 |
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 | 88.1%
| 124.1
/ 10.2
| 47 | intergenic (‑37/‑492) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base . (2/3); new base T (29/8); total (36/11) |
| Fisher's exact test for biased strand distribution p-value = 1.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑C‑TT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATG > CP006881/3725068‑3725338
|
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑C‑t > 8:424242/1‑139 (MQ=255)
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑C‑t > 2:105878/1‑139 (MQ=255)
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑C‑t > 8:201361/1‑139 (MQ=255)
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑C‑t > 8:413058/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGgcc‑gc‑cgt > 5:125388/1‑137 (MQ=255)
tAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTa‑gca‑g < 7:413058/139‑1 (MQ=255)
accgCGGCAGCCGCAGTTTGTCTGGCCGGCGTCACCCAGATCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑Gccc < 7:23586/136‑1 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCCCCCAGGTCATCAAAAAGACCCTCCCCACCCGTAAAGATACAAGCAAACGTGTCATAGAAAAACCTCCCTCCGCTTCTTTGTGGCAGGCG‑GC‑CTTT‑TTA‑GCA‑GCCCGt > 5:1058/2‑139 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CGTT‑TTA‑GCA‑GCCCga > 3:345704/2‑138 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTTGCAGGCA‑GC‑CAGT‑TTA‑GGG‑GCCCGgttt > 1:444573/1‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTGTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑CC‑CTTT‑TTA‑TCA‑GCCCGtttt > 1:89448/1‑139 (MQ=255)
gCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGGC‑T‑TT‑TTA‑GCA‑GCCCGTTTTATCAGCCGCAGCCCGCAAGaaaa > 5:352306/1‑139 (MQ=255)
cccAGTTCACCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGACGCAGCCCGCAAGAAAAGACgcc > 3:123241/1‑137 (MQ=255)
ttCATCTAAAAGACCATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGGCTGTTTTGCAGGCA‑GC‑CGTT‑TTA‑TCA‑GCCCCTTTTCTCAGCCGCAGCCCGCAAGCACAGACGGCAGagt > 5:490599/1‑137 (MQ=255)
aGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCg > 4:26887/1‑139 (MQ=255)
aCCATCCACACCCTAAAAGATACAACCAAACGTTTCATACAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAACAAAAGACGGCCGATTTCTTTTCTCGCa < 7:145964/139‑1 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCCAGCAAAGACGGCCGAGTTCTTTTGTCGCAAAc > 2:192137/1‑139 (MQ=255)
tCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAAc > 3:349710/1‑138 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCg < 2:438637/87‑1 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCg > 1:438637/1‑87 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGctc > 3:200315/1‑137 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCGGGCG‑GC‑C‑TTGTTT‑GCA‑GCCCGGTTTCTCAGCCGCAGCCCGCAAGCAAAGCCGGCCGAGGTGTTTTGTCGCCTACTAggggggc > 6:509578/1‑134 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCC‑GC‑CTTT‑TTA‑GCC‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTATCGCAAACTAGCGGctctt > 8:303161/1‑138 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCA‑GC‑CGGT‑TTA‑GCA‑GCCCGGTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGCTTTCTTTTCTCGCAAACTAGCGGctc > 7:499840/1‑137 (MQ=255)
aGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 7:424242/139‑1 (MQ=255)
gATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCGAGCa > 1:206543/1‑138 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaa > 3:201986/1‑138 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTGCTTTTTGGCCGGCA‑GC‑CGTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTGCTTTTCTCGGAAACTAGCGGCGCGAGcga > 4:212046/1‑136 (MQ=255)
aCAAGCAAACGTTTCATAGATAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGAGGGCCGATTTCTTGTGTCGCAAGCGAGCGGCTCTAGCAAAAc > 8:387818/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCCGGCG‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGGTCTGTTGTCGCAAACAAGCGGCGCGAGcccaa > 2:184380/1‑134 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTCTCGCAAACTAGCGGCTCGAGCaaaa > 3:422769/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 6:390499/1‑138 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCTTTTGTAGCAAACAAGCGGCGCTAGCAAAACt > 5:421838/1‑138 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACt > 8:242052/1‑138 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCGAGCAAAACt > 7:128358/1‑138 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAATTGTTTTCACACAAAATAGCGGCGCAAGCAAAACt > 7:196187/1‑138 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCGTTTTTGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCCGCCGCAGCCCCCAAGAAAAGACGGCCGATTTAGTTTCTCGCACAAGAGCGGCACTAGCAAAACt > 6:4979/1‑138 (MQ=255)
aaaCGTTAAATCCAAAAACACCCCCCCGTTTATTTTTGCCAGGCA‑GC‑C‑TT‑TTT‑ACACCCCCGTTTTCTCCGCCCCCGCCCGCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 1:105878/139‑1 (MQ=255)
agttttCATAGAAAAAATTCCCTCGGCTTATTTTTGGCAGGCA‑GC‑A‑TT‑TTACGCA‑GCCCGTTTTCTCCGCGGCAGCCCGAAATAAATCACGGCCTATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 8:128358/136‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAATACGGCCGATTTCTTTTATCGCAAAATAGCGGCTCTAGCAAAACTCATGAct > 4:76016/1‑139 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTATTTTATCCCAAACTAGCGGCTCTAGCAAAACTCCAGAct > 4:234163/1‑139 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCAGCAGCACGCAAGAAAAGACGGCAGATTACTTTTCTCGCAAACTATCGGCTCAAGCAAAACACATGAc > 3:501468/1‑138 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCGTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCCCAAACTAGCGGCTCTAGCAAAACAAATGAc > 3:64783/1‑138 (MQ=255)
cGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct > 6:243099/1‑138 (MQ=255)
aaaaaCATCCCTCCGTTTTTTTTTGGCTGGCC‑GCTT‑TT‑TTC‑GCC‑GCCGGTTTTCTCCGCCGCCGCCCCAAATAAAACACGGCCGATTTCTTTTCTCGAAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGAc < 4:201986/139‑1 (MQ=255)
cTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGaaa > 4:79697/1‑137 (MQ=255)
cTCCGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGaaa > 3:424544/1‑137 (MQ=255)
cGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGaa > 6:199373/1‑139 (MQ=255)
cGCTTCTTTTTGGCAGGCA‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTATAGCAAAAAATCGGGTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGaa > 4:312448/1‑139 (MQ=255)
cttTTTGGCCGCCA‑CC‑CTTT‑TTA‑CCC‑GCCCTTTTTCTCCGCCGCCGCCCCAAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCt < 4:185280/138‑1 (MQ=255)
ggcaggca‑GC‑CTTT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTca < 5:199373/138‑1 (MQ=255)
ca‑gC‑CTTT‑TTA‑GCA‑GCCCGTTTACACAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATg < 1:11347/139‑1 (MQ=255)
|
TGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCA‑GC‑C‑TT‑TTA‑GCA‑GCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATG > CP006881/3725068‑3725338
|
| 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
