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 |
|
A26 F57 I1 R1
|
119 |
93.8 |
3687158 |
95.5% |
3521235 |
127.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,239 |
2 bp→AA |
intergenic (‑71/‑457) |
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 | 3,725,239 | 0 | G | A | 95.3%
| 132.1
/ NA
| 43 | intergenic (‑71/‑458) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (29/12); minor base C (1/1); total (30/13) |
| Fisher's exact test for biased strand distribution p-value = 5.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| * | CP006881 | 3,725,240 | 0 | G | A | 97.7%
| 121.5
/ NA
| 43 | intergenic (‑72/‑457) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (30/12); minor base C (0/1); total (30/13) |
| Fisher's exact test for biased strand distribution p-value = 3.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑C‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTT > CP006881/3725114‑3725360
||
cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GGAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGc > 5:192803/1‑139 (MQ=255)
cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGc > 5:199749/1‑139 (MQ=255)
gTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CATTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAt > 1:299404/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 8:19855/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGCCGGCCGAgttctgt > 4:26443/1‑137 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAgttcttt > 1:405840/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAG‑C‑CGTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAgttattt > 1:383664/1‑139 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAAc > 4:422918/1‑139 (MQ=255)
cccGTCAAGAAACACCCAACCTTTT‑CATACAAAAACATCCCTCGGCTTGTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTACTCAGCCGCAGCCCTCAATAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 7:39020/139‑1 (MQ=255)
cccGAAAACAAAAAACCAAACGTTC‑CAAACAAAAACATCCCGCGGCTTCTTTTTGGCCGCCAG‑C‑A‑TTTTACGCCCCCCTTTTTCTCAGCCGCCCCCCGAAACAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 7:402937/139‑1 (MQ=255)
tAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACAAGCGGctc > 2:355377/1‑137 (MQ=255)
aGATACATCAAAACGTTT‑AAAAAAAAAACACCCCTCCGCTTCTTTTTGGCCGGCCG‑C‑CTTTTTC‑GCAGCCCTTTTTCTCCCCCCCCGCCCGCACAAAATCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 4:218627/139‑1 (MQ=255)
aCAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCCGGCAG‑C‑CTTTTTT‑GCCGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTGTTTTGTCGCCAACTCGCGGCTCTATCaaa > 6:33227/1‑137 (MQ=255)
aCAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGCTTTCTTTTCTCGCAACCGAGCGGCTCTAGCAAAAc > 5:373337/1‑139 (MQ=255)
aCAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 8:103549/1‑139 (MQ=255)
aCAAGCAAACGTAT‑CATAGAAAAACATCCCTCCGCTTGTTTTAGGCAGGCCG‑C‑CTTTTTT‑GCAGCCCGTTTTCTCCCCCGCAGCCCGCAAGAAAAGACAGCCCAATAGGTGTCTCGCAAACTAGCGGCTGGACCaaaa > 4:189834/1‑138 (MQ=255)
aaGCAAACGTTT‑CATAGAAAAACATCCCTCCGCGTCTTTTTTGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCCGCCGCAGCCCGCAAGAAAAGACGGCCCAGTTCGTTTCTCGCAAACAAGCGGCTCGACCaaacag > 1:85066/1‑135 (MQ=255)
gaaaaCGTTT‑CATATAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑CAT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCCCAATAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:307621/137‑1 (MQ=255)
gCAACCGTTT‑CATAGAAAAACCTCCCTCCGCTTCTTTTTGGCCGGCAG‑C‑CTTTTTA‑GCACCCCGTTTGCTCAGCCGCCGCCCGCAACAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:386712/139‑1 (MQ=255)
gCAAACTTTT‑AATACAAAAACACCCCTCCGCTTTTTTTGGGCCGGCAG‑C‑C‑TTTTACCCCCCCCGTTTTCTCCCCCCCCGCCCCCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 1:355377/139‑1 (MQ=255)
gCAAACGTTT‑CATATAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCCGCCGGTTTTCTCACCCGCAGCCCGCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 3:422918/139‑1 (MQ=255)
gCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:275588/139‑1 (MQ=255)
gCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTATTTTCTCGCAAACTAGCGGCTCTAGCCAAACTCAt > 6:68866/1‑139 (MQ=255)
ccAAACGTTT‑CATACAAAAACATCCCGCCGCTTCTTTTTGGCCGCCAG‑CAT‑TTTTC‑CCACCCCGTTTTCTCAGCCCCCCCCCCAAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:46607/138‑1 (MQ=255)
ccAAACGTGT‑CAAACAAAACCATCCCTCGGGTACTTTTGGCGCGGCAG‑C‑CTTTTTA‑GCACCCGGTTTTCTCCGCCGCTGCCCGCCAGAAAAGACGCCCGATTTATTTTCTCGCAAACAATCGGCTCTAGCAAAACTCAt < 6:159651/138‑1 (MQ=255)
caaaaCGTTA‑AATATAAAAACATCCCTCCGCTTCTTTTTGGCAGCCAG‑C‑CTTTTTC‑CCAGCCCGTTTTCACCGCCGCAGCCCGAAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 2:299404/137‑1 (MQ=255)
ccaaCGTTTACAAACAAAAACACCCCTCCGATTTTTTTTGGCGCGCCC‑C‑CTTTTTC‑CCCGCCTGTTTACTCCGCCCCACCCCCCAACAAAACACGGCCGATTTCTTTTCTCGCAAACAAGCGGCTCTAGCAAAACTCAt < 6:429304/137‑1 (MQ=255)
aCGTTT‑CATAGAAGAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAcg > 2:381336/1‑138 (MQ=255)
aCGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTAGCAAACTAGCGGCTCTAGCAAAACTCATGAct > 5:429304/1‑139 (MQ=255)
aCGTTT‑AATACAAAAACACCCCCCCGCTTCTTTTTGCCTGCCAG‑CTT‑TTTTA‑CCACCCGGTTTTCACCGCCCCAGCCCCAAACAAACGCCGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:282206/139‑1 (MQ=255)
cGTTT‑CATAGAAAAACATCCATCCGCTTATTTTTGGCAGGCAGAC‑T‑TTTTA‑GCAGACCGTTTTCTCAGCCGCAGCCCGCAAGAAAATACGGCCGATTTGTTTTCTCCCAAAATAGAGGGTCGAGCAAAACTCATTActc > 1:139961/1‑139 (MQ=255)
t‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATTACTCTAt > 2:286095/1‑138 (MQ=255)
cATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTAATGACTCTATGa > 3:98079/1‑139 (MQ=255)
aaaCATCCCTCCGCTTCTTTTTGGCAGGCAGAC‑T‑TTTTA‑GCAGCCCGATTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTATTTTCTAGCAAACTAGCGGCTCTAGCAAAACTCATGACTCAAAGATAGTCCg > 8:446484/1‑139 (MQ=255)
ttttGGCAGGCCG‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTATCGCAAACTAGCGGCGCGCGCAAAACTCATGACTCGATGATAGACCGTGGAAAGAGAATTGtttt > 2:229296/1‑138 (MQ=255)
tttGGCAGGCAG‑C‑CTTTTTA‑GCCGCCCGTTTTATCAGCCGCAGCCCGCCAGAAAAGACGGCCGATTTAGTTTATCGCCAACAAACGGCGCTAGCAAAACACAATCCTCTATTAAAGACCCTGGAAAGACAAttaatttt > 4:421995/1‑133 (MQ=255)
gcag‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatat > 5:170270/1‑139 (MQ=255)
gcag‑C‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatat > 3:107167/1‑139 (MQ=255)
agcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTTTCACAATATGAGTGAAAAAAcc > 3:245560/1‑138 (MQ=255)
gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCCTTTCTCGCCAACTAGCGTCTCGAGCAAAACTCATGCCTCAATGATAGACACTGGAAAGCGAAGTCTTTGTCACAATATGAGTGAAAAAACaaa > 7:358313/1‑139 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc > 7:271790/1‑139 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCACGCATACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGATAGAGAATTCTTTGTCACAATAAGAGTGAAAAAACCAAc > 1:249169/1‑139 (MQ=255)
cAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGCCTCTATGATAGACCGTGGAAAGAGAATTGTTTGTCACAATATGAGTGAAAAAACCAACTAGtttt > 8:33294/1‑136 (MQ=255)
||
CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTT‑CATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAG‑C‑C‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTT > CP006881/3725114‑3725360
|
| 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
