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 |
|
A1 F14 I0 R1
|
248 |
61.6 |
2601574 |
98.7% |
2567753 |
146.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
5,196,590 |
T→G |
20.3% |
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 | 20.3%
| 33.7
/ 7.8
| 29 | intergenic (+29/+24) | PP_4574/PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| Reads supporting (aligned to +/- strand): ref base T (12/11); new base G (4/2); total (16/13) |
| Fisher's exact test for biased strand distribution p-value = 6.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.95e-01 |
CCAAGCAGGCCTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTCAGCG > NC_002947_CJ‑RC/5196443‑5196738
|
ccAAGCAGGCCTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTc < 8:19922/149‑1 (MQ=255)
cTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGaaa < 8:174398/149‑1 (MQ=255)
cTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGaaa < 4:40501/149‑1 (MQ=255)
cTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCCTTGGCCGGCGGGCCcccgcca > 4:159117/1‑146 (MQ=255)
ggAGTACACCGCCTCGTCCCATCTGGTGCGCGTCCTGATCGAGGACAATATGTATCCGCTGACCCTGCAAGGGTTTGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAggg < 6:192667/149‑1 (MQ=255)
ggAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTGCCGGCCCTTTCGCGGGCGAGCCCGCGAAAg < 1:33159/147‑1 (MQ=255)
ggAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAgg < 2:74069/148‑1 (MQ=255)
ggAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAg < 1:281738/147‑1 (MQ=255)
acCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCGTTAGCGGGCTCGCCCGCGCAAGGGCccgccc > 1:276287/1‑147 (MQ=255)
ccATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTACCTGTACCGGCCCATTGGCCGGCTCGCCCGCGCAAGGGCCAGCACTCTTTCGAcc > 5:111185/1‑148 (MQ=255)
tGCGCGACCTGATCGAGTACAAGATGTATCCGCTGACCCTGCATGGGTTTGAGGACGGGATGCGCTACCTTTCCAAGTGAGGTTGCCTGTACGGGCCCTTTCGCGGGCTCGCCCGCGAATGGGCCAGCAGTCTTACGACCAACGCCCCa < 6:159317/149‑1 (MQ=255)
aGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAgctgctgct > 8:82798/1‑149 (MQ=255)
cgtcatgATGTCTCCGCTGCCCCTGCACGGGTTGGCGCACGGGTGGCTCTACGTGTCCATGTGCGGTTGCCTGTACCGGCCCTTTCGCGGGGTCGCCCGCGAACGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGctc < 2:316196/143‑1 (MQ=255)
gATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTCGCGGGCTCGCCCGCCAAAGGGCCAGCAGTATTACGACCAACGCCCCAGGTAAAGCTGCAGCTCTAGCCa > 7:277561/1‑149 (MQ=255)
gACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCCGGCGCGCCCGCGAAAGGGGCAGCAGTGGTACGACCCACGCCCCAGGTTAAGCTGCTGCTCTCGCCACGCCTCGTccag > 5:60598/1‑147 (MQ=255)
ccTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGcac > 2:244373/1‑149 (MQ=255)
aaGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTAGCGGGCTCGGCCGCGAAAGGGCCAGCCGTCGTAAGACCAACCCCCCAGGTTAAGCAGCTGCTCTCGCCCGGCCGCGGGCGGCcccaccc > 6:256879/1‑148 (MQ=255)
tgcaCGGGACCCGCTACCTGCCAATGTGCGGTGGCCGGAACCGGCCCTTCCGCGGCCTCGCCCGCTAATGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAAcc < 2:273522/146‑1 (MQ=255)
aggaCGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAAcc < 1:13472/149‑1 (MQ=255)
aTGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCATTACCGGGCTAGCCCCCGAAAGGGCCAGCAATCTTAACACCAACCCCCCAGGTAAAACAGCAGCTAACCCCAGGCCAACTACAGCACCCCCCCCCAGAACCCcaagata > 4:250927/1‑144 (MQ=255)
gcTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGGAAGGGCCAGCACTCGTACGCCCCACGCCCCAGGGAAAGCGGCTGCGCGCGCCAGGCCGCGTCCGGCACCCCCGCCCGGAACCCCCCCCCCGGcc > 6:238022/1‑149 (MQ=255)
ccTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCgg > 2:18616/1‑149 (MQ=255)
ccAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGc < 5:79293/149‑1 (MQ=255)
ggTTGCCTGTACCGGCCCTTTAGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCGTACGGCCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCCGGCCGCGTCCTGCCCCCCCCCCCTGCACCCCACCACCCTCCCCCGCAAGCACAGCGcc > 6:61570/1‑149 (MQ=255)
cccTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTgcgccagcgcc > 7:80212/1‑149 (MQ=255)
tttCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCgccagcgccagc > 1:284793/1‑149 (MQ=255)
tttCGCGGGCGAGCCCGCGAAAGGGCCAGCAGTCTTACGACCAATGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCgccagcgccagc > 6:315965/1‑149 (MQ=255)
ttCGCGGGCGAGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGCACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGccagcgccagcg > 1:257325/1‑149 (MQ=255)
cgcgGGCGCGCCCGCTAATGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAgcggc < 4:16893/149‑1 (MQ=255)
tCGCCCGCGAAAGGGCCAGCAGTCTTACGCCCAACCCCCCAGGTAAAGCTGCAGCACTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGACCCCGGCATGCACTGCGCCACTTGCGCCAGCGCCAGCGGCGTCAgcg > 1:37239/1‑149 (MQ=255)
tCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCCCCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTCAgcg > 6:196041/1‑149 (MQ=255)
tCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTCAgcg > 7:232024/1‑149 (MQ=255)
|
CCAAGCAGGCCTGGGAGTACACCGCCTCGACCCATCTGGTGCGCGACCTGATCGAGGACAAGATGTATCCGCTGACCCTGCAAGGGTTGGAGGACGGGATGCGCTACCTGTCCAAGTGAGGTTGCCTGTACCGGCCCTTTCGCGGGCTCGCCCGCGAAAGGGCCAGCAGTCTTACGACCAACGCCCCAGGTAAAGCTGCTGCTCTCGCCAGGCCTCGTCCTGCACCACCGCCCTGAACCGCACCACCGTCCCCGGCATGCACTGCGCCAGTTGCGCCAGCGCCAGCGGCGTCAGCG > NC_002947_CJ‑RC/5196443‑5196738
|
| 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
