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 |
|
A4 F13 I0 R1
|
140 |
52.5 |
2164708 |
98.8% |
2138731 |
146.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
5,512,711 |
A→C |
25.9% |
Q32P (CAG→CCG) |
urtB → |
urea ABC transporter permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 5,512,711 | 0 | A | C | 25.9%
| 35.0
/ 3.6
| 45 | Q32P (CAG→CCG) | urtB | urea ABC transporter permease |
| Reads supporting (aligned to +/- strand): ref base A (16/13); new base C (5/7); total (21/24) |
| Fisher's exact test for biased strand distribution p-value = 5.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCC > NC_002947_CJ‑RC/5512565‑5512857
|
aGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCa > 8:78356/1‑147 (MQ=255)
aGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCACCAAGCCCGCCGACCa > 4:62519/1‑147 (MQ=255)
gAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAgg < 6:61286/147‑1 (MQ=255)
cgCGGGCACACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAggc < 3:172326/146‑1 (MQ=255)
gggggCTCCCCCGCCAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAggcc < 1:177468/145‑1 (MQ=255)
gggCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAggcccg > 2:150025/1‑145 (MQ=255)
cTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCCAGCAcgccggccg > 2:116293/1‑146 (MQ=255)
cccGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCGGCt > 7:73191/1‑146 (MQ=255)
ccaagaaTCCAACACCGATTTCCAGGTTTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAACCCCCCTGGCAACCCACGCCAGCGAGGGCTAATTCTTTCTCACCCCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAg < 3:254627/145‑1 (MQ=255)
gaagaaTCAAACACCGATTTACAGGATTGAACGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAAACCACCTGGCAACCCACGCCAGCGAGGGCGAATTATTTCTCACCGCCAAGCCCGCAGAGCACGCCCGCCTTCTCGaacg > 8:238704/1‑145 (MQ=255)
aagaaTCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCACCCCCGCCACCTCGaaaa > 3:182052/1‑144 (MQ=255)
ccAACACCTATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGgca < 8:1981/147‑1 (MQ=255)
acCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCCGGCCGGCCGGCGCGAAGGCGGGGCAGcaca > 1:224253/1‑147 (MQ=255)
gATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTCCTCGAACGCTGGGGAGCACaaac > 5:59741/1‑145 (MQ=255)
cAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTACTCCCCCTGGCAACCCACGCCAGCGAGGGCTAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGc < 8:153202/147‑1 (MQ=255)
agggCCCGCATGCTCCGACGCCTCCTCCCCCTCCCGCGCATACCCCCCCTCCAACCCCCCGCCCGCGTGGGCTAATTCATACTCCCCCCCACCCCCGCCGCGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCcgcg < 4:200436/144‑1 (MQ=255)
cccGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCCGGCCGGCCGGCGCGAAGGCAGGGCAGCACAACCCCATGCCGCGCGcc > 4:125294/1‑147 (MQ=255)
ccGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCt > 2:47913/1‑147 (MQ=255)
ccGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCGGCGCGAAGGCTGGGCAGCCCAACCCGAAGCcgcccgcca > 6:10791/1‑146 (MQ=255)
aTGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCCGGGCGGCCGGGTGGAAGGGTGGGGAGCCCAACCCCATGCCCCGCGCCTGCCg > 7:262516/1‑147 (MQ=255)
tCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCAGCTCGAAGGCTGGGCACCCCAACCCCAAGCCGCCCCCCAGCCgcagc > 6:137597/1‑147 (MQ=255)
gACTCCTGCCCACCCTCCTGCTGCAAACCCCCCTGCCACCCCCCCCCAGCGAGGGCTAATTCTTTCTCCCCGCCACGCCCGCCGCGCCGGCCGGCCGGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCgctgct < 7:206983/145‑1 (MQ=255)
cTCCTGCTCACCCTCCTGCTGCTAACCCCCCTGGCAACCCACGCCAGCGAGGGCTAATTCTTTCTCACCGCCACGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGaa < 8:198522/147‑1 (MQ=255)
tGCCCACCCGCCTGCTCCTAACCCCCCTCCCAACCCCCGCCCGCGCGGGCGAATTCTTTCCCCCCGCCCCGCCCGCCGAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGaaaa < 1:91951/145‑1 (MQ=255)
tgctAATCCCCCTGGCACCCCCCGCCTGCGTGGGCTAATTGTTTCTCACCGCCACGCCCGCCGAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCg < 5:66454/145‑1 (MQ=255)
tCCCCCTGCCAACCCACCCCAGCGAGGGCTAATTCTACCTCCCCCCCACCCCCGCCCAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGcca < 1:128621/147‑1 (MQ=255)
ccaccccacccacccCAGGGGGGGCGATTTCTTTCCCACCCCCACGCCCGCCCCGCCGGGCGGCGGCCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCaa < 3:118322/140‑1 (MQ=255)
ccTGCCAACCCACGCCAGCGTTGGATAATTCTTTCTCACCGCCAAGCCCGCCGAGCTGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCaa < 1:237909/147‑1 (MQ=255)
cTGCCACCCCCCGCCAGCGAGGGCGAATTCTTTCTAACCGCCTCGCCCGCCGAGCAGGCCGGCCGGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAAt < 8:219669/147‑1 (MQ=255)
gggCAACCCCCGCCAGCGTGGGCTATTTCTTTCTCCCCCCCCCGCCCGCCGCGCCGGCCGGCCTGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATg < 1:150025/146‑1 (MQ=255)
cAACCCACGCCCGCGTGGGCTAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACa < 2:224253/147‑1 (MQ=255)
cAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCGGCTCGAAGGCTGGGCAGCACCACCCCCTGCCGCGCGCCAGCCGCGGCTGGAAAACCAGCGCCAAGGCCGCATCACCACCAATGAc > 8:1075/1‑146 (MQ=255)
cccgCGAGGGCGAATTCTTTCCCCCCCCCACCCCCGCCGAGCAGGCCGGCCGGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAgg < 1:59093/144‑1 (MQ=255)
ccAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCCGCCGGGGCGAAGGGTGGGCCGCCCAACCCCAAGCCGCCCGCCTGGCCCTGCTGGAAAAACAGCGCCAAGGCCCCCTCCCCACCAAAGACAAGCGCAAgg > 6:26522/1‑147 (MQ=255)
ggttaaTTTTTTCTCACCGCCAAGGCCGCCGTTCTGGGGGGCTTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCGTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCt < 4:182052/142‑1 (MQ=255)
ttctttctCACCCCCACCCCCGCCGCCCAGGCCGGCCTGCCCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGaacaa < 5:10791/146‑1 (MQ=255)
tttctCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCg < 8:73191/146‑1 (MQ=255)
ccGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCCCGCGCCTGCCGCTGCTGGAAAACCAGCGCCAAGGCCGCATAGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGcgcg > 8:76199/1‑147 (MQ=255)
cccacccccGCCGCGCTGGCCGGCCTGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGc < 7:222726/141‑1 (MQ=255)
aaccccGCCGAGCTGGCCTGACTGCTGGAAGGCTGGGCAGCACAACCCGATGCCTCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTg < 3:223924/144‑1 (MQ=255)
gCCCGCCGCGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGAt < 1:196851/147‑1 (MQ=255)
ccgccgAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCCCTGCCGCGCGCCGGCCGCTGCTGGAAAAACAGCGCCCACGCCGCATCGCCCCCAATGAAAACCGCCAGGTGAGCCGGAACAACCGCCTGCGCGGCCGGAtag > 6:171346/1‑145 (MQ=255)
ccgccgAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCCAATCCGCGCGCCTGCCGCTGCTGGAAAACCAGCGCCAAGGCCGCCTCGCCAACAAATACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGAGCg > 8:1444/1‑147 (MQ=255)
ccgccgAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCCATTCCGCGCGCCTGCCGCTGCTGGAAAACCAGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCg > 8:5318/1‑147 (MQ=255)
cgccgAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACCACCCGATGCCGCGCGCCTGCCGCGGCTGGAAAACCAGCGCCAAGGCCGCATCGCCACCAATGACACGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCg > 8:153388/1‑146 (MQ=255)
tcgAGCAGGCCGGCCTGCTAGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCCCCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACa > 3:42049/2‑147 (MQ=255)
ccgAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACa > 5:98221/1‑147 (MQ=255)
aGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGccc > 7:245319/1‑147 (MQ=255)
|
AGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCC > NC_002947_CJ‑RC/5512565‑5512857
|
| 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
