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 |
5,196,590 |
T→G |
16.1% |
intergenic (+29/+24) |
PP_4574 → / ← PP_4575 |
hypothetical protein/urea amidolyase‑like protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 5,196,590 | 0 | T | G | 16.1%
| 66.6
/ 4.9
| 53 | intergenic (+29/+24) | PP_4574/PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| Reads supporting (aligned to +/- strand): ref base T (17/24); new base G (6/3); total (25/28) |
| Fisher's exact test for biased strand distribution p-value = 2.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCAGGCCTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTC > NC_002947_CJ‑RC/5196446‑5196734
|
aGCAGGCCTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCg < 3:240517/147‑1 (MQ=255)
cTGGGAGTACACCGCCTCGACCCAACTAGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCCCTACCTGACCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCACCCCcgcc > 5:115623/1‑145 (MQ=255)
gAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTCGC‑GGGCTCGCCCCCGAAAgg > 7:192325/1‑147 (MQ=255)
gAGTACACCGCCTCGACCCAACTTGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGaaa < 4:32681/145‑1 (MQ=255)
aGTACACGGACTCGACCCTTCTGGTGTGCGAGTTTATCGAGGACATGATGTTTCCGTTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTAATTGTCCAAGTTAGGTTGGCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCTAAAggg < 4:180383/147‑1 (MQ=255)
tACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGcc < 6:89023/147‑1 (MQ=255)
acacCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCca < 8:72852/147‑1 (MQ=255)
acacCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCca < 2:23606/147‑1 (MQ=255)
acCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCcagc > 2:162120/1‑147 (MQ=255)
acCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCGTTGGC‑GGGCGCGCCCCCGGAACGGCccgc > 2:127807/1‑147 (MQ=255)
acCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTCGC‑GGGCTCGCCCGCGAAACGGCca > 2:28952/1‑145 (MQ=255)
tCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCGCGGCCGGGGAAGGGGCCGCCGTc > 5:186157/1‑145 (MQ=255)
cTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCCAAACGGCCAGCAGTCATACGAcaacc > 2:221348/1‑143 (MQ=255)
tGCGCGACCTGATCGAGGACAATATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGccc < 2:49331/147‑1 (MQ=255)
gcgACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCGGTACCGGCCCTTTCGC‑GGGCTCGCCCGCTAATGGGCCAGCAGTCTTACGACCAACGCCCCa < 8:173444/146‑1 (MQ=255)
ccTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTAGC‑GGGCTGGCCCGCGCAAGGGCCCGCCGGCGTAGCACCCACCCCCCacggta > 2:85458/1‑142 (MQ=255)
aTCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAgct > 6:94403/1‑147 (MQ=255)
aGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCg > 2:198037/1‑147 (MQ=255)
aGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCg < 6:105564/147‑1 (MQ=255)
aTGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTAGC‑GGGCGCGCCCGCGGAAGGGCCCGCAGGAGTACGACCCACGCCCCAGGTAAAccagctgcaaacgcc > 8:132208/1‑140 (MQ=255)
tATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAg < 6:252514/146‑1 (MQ=255)
cTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTGGC‑CGGCGCCCCCCCGAAAAGGGACGCCGTCTGTCCGCCCACGCCCCAGGGAAAGCGGGTTGTCGCGCCAGGGCTCGt > 6:227540/1‑147 (MQ=255)
cccTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTg < 8:83926/147‑1 (MQ=255)
cccTCCACGGGTTGGAGTAGGGTATGCGCTACCTGTCCATGGTTGTTTGCCTGTACCGCCCCTTTCGC‑GGGCTGGCCCGCTAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTg < 6:145729/147‑1 (MQ=255)
ccTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGc > 8:131075/1‑147 (MQ=255)
aaGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTACCCCGCGAAAGGGCCAGCAGTAATACGAACAACGCCCCACGTAAAGCTGCAGCACTCGCCAGGCCACCTCCAGcaccac > 6:249951/1‑147 (MQ=255)
ggTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGGAAGGGCCCGCAGGCTTACGACCACCGCCCCAGGGAAAGCTGCTGCTAGCGCCAGGCCTCGTCCTGCACCACCGc > 2:220829/1‑147 (MQ=255)
gaggaCGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGa > 6:129929/1‑147 (MQ=255)
ggATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTACC‑CGGCACGCCCCCCAAAGGGCCACCACTAATACCACCAACCCCCCACCTAAAACAGCAGCACTACCCCCGCCACCTCCAGCACCACCCCCCAGAAcccccc > 8:21960/1‑143 (MQ=255)
aTGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTAGC‑GGGCTCGCCCCCGAAACGGCCCGCAGTCATAAGCCCCAACCCCCAAGTAAAGCTGCAGCTCAAGCCCCGCCTCGTCCAGCACCCCCCCCCAGAAACGcacca > 6:98510/1‑147 (MQ=255)
tGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGcaccac < 5:129929/147‑1 (MQ=255)
cTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTCGC‑GGGGGCGCCCCCGAAACGGCCAGCCGGCTTTCGGCCAACCCCCCCGGGAAACCGGCTGGGCGCGCCCGGGCACGTCCGGCACCCCCCCCCGGAACCGCaccccccgc > 4:159435/1‑144 (MQ=255)
tACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCGCGCCCGCTAATGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTcc < 1:57749/147‑1 (MQ=255)
cTGTCCATGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTcccc < 8:14827/146‑1 (MQ=255)
ccAAGTGCGGGTGCCTGACCCGGCCCTTTCGC‑GGGCGCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCa < 1:69790/146‑1 (MQ=255)
aaGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGc < 7:139557/147‑1 (MQ=255)
aaGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGc < 1:216962/147‑1 (MQ=255)
tGAGGTTGCCTGTACCGGCCCTTTAGC‑GGGCTAGCCCGCGAAAGGGCCCGCAGTGTTACGACCAACCGCCCAGGGAAAGCTGGTGCGCTCGCCAGGCCGCGGCCAGCACCCCCGCCCTGCACCGCCCCACCCTCCCCGGCCTGCCCt > 8:151172/1‑147 (MQ=255)
cggTTGCCTG‑ACCGGCCCTTTTGCGGGGCTCGCCCGGTAATGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGAACTg < 2:218879/145‑1 (MQ=255)
cgtGTACCGGCCGTTGGGC‑GGGCTCGCCCGCTAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGt < 3:117822/145‑1 (MQ=255)
tACCGGCCCTTTCGC‑GGGCTCCCCCGCGAAAGGGCCAGCAGTCTTACGACCAACTCCCCAGGTAAAGCTGCTTCTCTCGCCACGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcg < 8:70390/147‑1 (MQ=255)
acccGCCCCTTGCGG‑GGGCCCCCCCGCAAAGGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcg < 3:233596/145‑1 (MQ=255)
cccGGCCCTTTCGC‑GGGCTCGCCTGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcg < 3:263290/145‑1 (MQ=255)
ccGGCCCTTCGGC‑GGCCGCCCCCGCTAACGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgcc < 1:85458/147‑1 (MQ=255)
ggCCCTTTCGC‑GGGCTCGCCCGCTAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgccag < 7:18027/147‑1 (MQ=255)
ggCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgccag < 6:115623/147‑1 (MQ=255)
ggCCCTTGCGC‑GGGCTCGCCCGCTAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgccag < 7:21960/147‑1 (MQ=255)
cccTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgccagcg > 4:203354/1‑147 (MQ=255)
cccTTTAGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACCCCCCAGGGAAATCTGCTGCTCTCGCCAGGCCGCGGACGGGACCACCCCCCCGAACCCCACCACCCGCCCCCGCCTGCACAGCGCCACTTgcgccaccc > 4:18112/1‑144 (MQ=255)
ccTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgcccgcg > 5:256386/1‑146 (MQ=255)
cTTTCGC‑GGGCGAGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgccagcg > 8:142809/1‑145 (MQ=255)
c‑gGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACTACCAACGCCCCAGGTAAAGCTGATGCTCTCGCCAGGCATCGTCCTGCGCCACCGACCTGAACCGCACCACCGTCCCCGGCATGAACTGCGCCAGTTGCGCAAGCGCCAgcggc > 3:214844/1‑147 (MQ=255)
gCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTc < 7:266811/147‑1 (MQ=255)
|
AGCAGGCCTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGC‑GGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTC > NC_002947_CJ‑RC/5196446‑5196734
|
| 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
