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 |
|
A18 F53 I0 R2
|
221 |
66.0 |
2680176 |
94.9% |
2543487 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,202 |
A→C |
29.4% |
intergenic (‑34/‑495) |
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 | 3,725,202 | 0 | A | C | 29.4%
| 41.8
/ 6.6
| 39 | intergenic (‑34/‑495) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base A (20/6); new base C (6/5); total (27/12) |
| Fisher's exact test for biased strand distribution p-value = 2.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCTGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATAT > CP006881/3725065‑3725337
|
cGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTggcaggca < 7:125814/138‑1 (MQ=255)
cGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTggcaggca < 1:250850/138‑1 (MQ=255)
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑t > 7:188762/1‑139 (MQ=255)
tGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑t > 3:293952/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑C‑t‑t > 1:258828/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑t‑t > 4:258373/1‑139 (MQ=255)
gAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGGAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGGGGGTTTTTGGCAGGCGGG‑C‑t‑t > 4:294838/1‑139 (MQ=255)
aaTAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTTGCAGGCAGC‑C‑t‑ttttagc > 7:323965/1‑135 (MQ=255)
aaTAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑t‑ttttagc > 1:27181/1‑135 (MQ=255)
accgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCCCCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACCTCCCTCCGCTGCTTTTTGGCAGGCCGC‑CTT‑TTTA‑GCAGccc > 7:207266/4‑139 (MQ=255)
accgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATCCAAGCAAACGTTTCATAGAAAACCATCCCTCCGCTTGTTTTTGGCAGGCAGC‑CTT‑TTTa‑gcagc > 6:127958/4‑137 (MQ=255)
accgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGccc > 3:270498/4‑139 (MQ=255)
cgCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGt > 3:286278/2‑139 (MQ=255)
ggCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATC‑AAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACTTCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTtc > 8:96541/1‑139 (MQ=255)
cAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TATTTA‑GCAGCCCGTTTtct < 2:4181/139‑1 (MQ=255)
tCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTggcaggca > 1:211867/1‑103 (MQ=255)
tCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTggcaggca < 2:211867/103‑1 (MQ=255)
aCCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCCGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACgg > 6:74602/1‑139 (MQ=255)
cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGc > 7:157968/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCCGC‑CGT‑TTTA‑GCCGCCCGGTTTCTCAGCCGCCGCCCGCAAGC‑AAAGACGGCCGAtt > 6:72144/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTT‑TTTA‑TCAGCCCGTTTTCTCAGCCCCACCCCGCAAGA‑AAAGACGGCCGAtt > 1:245536/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGAtt > 8:141976/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGAtttcttt < 3:258373/139‑1 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGACCGTTTTCTCAGCCGCCGCCCCCAAGA‑AAAGACGGCCGAtttcgtt > 5:244875/1‑139 (MQ=255)
caAAAAGAACATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTCGCAGGCAGC‑CGT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGACCGCAAGA‑AAATACGACCGAtatattt > 7:42767/1‑139 (MQ=255)
acCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCgg > 2:135/1‑139 (MQ=255)
ccGAAAAGATACACGCAAACTTTTAATACAAAAACAGCCCTCCGTTTTTTTTTGGCCGGCCTC‑CTT‑TTTA‑CCCGCCCGTTTTCCCCGCCGCAGCCCCCAACA‑AACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGct < 6:244875/139‑1 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGT‑TTTA‑GCAGCCCGTTTTCTCATCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTGTTTTTTAGCCTACTATCggggc > 3:8176/1‑134 (MQ=255)
aGATAAAACCAAACTTTACATACAAAAACTTCCCTCGGTTTTTTTTTGGCTGGCTGCTT‑T‑TTTA‑GCAGCCCGTTTTCCCCGCCGCAGCCCGAAATA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 4:293952/139‑1 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaa > 3:136817/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTGTTTTTGGCAGGCCGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGA‑AAAGACGGCCGAGTTCGTTTGTCGCCAACTAGCGGCTCGAGGaaaa > 2:134569/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑TCAGCCCGTTTTCTCCGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTATCGGCTCTAGCAAAAc > 1:42814/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 2:176775/1‑138 (MQ=255)
gaaaaCTTTTAATAAAAAAACTCCCCACGGATTCTTTTTGGCCGGCCGCTT‑T‑TTTC‑CCCGCCGGTTTGCCCCGCCCCCGCCGCAAAGA‑AACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 4:320349/137‑1 (MQ=255)
ccAAACGTGCCATCCAAAACCATCCCTCCGCTGCTTTTTGGCCGGCAGC‑CTT‑TTTA‑GCCGCCGGTGTTCTCCGCCGCCCCCCCCAACA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:188762/138‑1 (MQ=255)
cAAACGTTTCAAACAAAAACACCCCACCGCGTCTTTTTGGCAGGCACC‑CTT‑TTTA‑CCCCCCCGGTTTCCCCCCCCCCCCCCCCAACACAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:79951/139‑1 (MQ=255)
aaccttttCATATAAAAACCTCGCGCCGTTTTTTTTGGGCCGGCCTCAT‑T‑TTTC‑CCAGCCCTTTTTCCCCCCCGCCCCCCGAAAAA‑AACCACGGCCGTTTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 8:136109/134‑1 (MQ=255)
ccGTTTCATACAAAAACATCCCACCGTTTCTTTTTGGCTGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCACCCGCCGCCCGCAATA‑AAAGACGGCCGATTTCTTTTCTCGAAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:21023/138‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct > 1:279150/1‑139 (MQ=255)
aCGTTTCATACAAAAACACCCCTCCGCTTCTTTTGGGCTGGCCCC‑A‑T‑TTTACGCCGCCGTTTTTCTCCGCCGCCGCCCCCAAAA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:141976/139‑1 (MQ=255)
gAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCa > 1:223499/1‑100 (MQ=255)
gAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCa < 2:223499/100‑1 (MQ=255)
caccccTCCGCTTCTTTTTGGCCGGCCGC‑CTT‑TTTA‑GCAGCCGGTTTTCTCCCCCCCAGCCCCCAATA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTgg < 1:135/136‑1 (MQ=255)
gcagC‑CTT‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatat > 1:247157/1‑139 (MQ=255)
|
CGCTGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATAT > CP006881/3725065‑3725337
|
| 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
