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 |
|
A2 F13 I0 R1
|
203 |
85.6 |
3649704 |
98.8% |
3605907 |
146.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,070,246:1 |
+G |
82.4% |
intergenic (+46/+96) |
aroP‑I → / ← PP_0928 |
aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,070,246 | 1 | . | G | 82.4%
| 76.6
/ 15.3
| 34 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| Reads supporting (aligned to +/- strand): ref base . (2/4); new base G (3/22); total (5/29) |
| Fisher's exact test for biased strand distribution p-value = 2.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑GATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACA > NC_002947_CJ‑RC/1070098‑1070379
|
ccTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt < 1:391843/149‑1 (MQ=255)
ccTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt < 7:30465/149‑1 (MQ=255)
aCGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑Gaga < 3:297529/149‑3 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt‑‑g < 8:250861/144‑1 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt‑‑g > 7:250861/1‑144 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑Gagatc < 1:98299/149‑5 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑Gagatc < 3:411200/149‑5 (MQ=255)
ccgccgATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑Gagatc > 5:316348/1‑144 (MQ=255)
gccgATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt > 4:206954/1‑140 (MQ=255)
gccgATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt < 3:206954/140‑1 (MQ=255)
gccgATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGAGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑TT‑‑Gagaaacc > 2:237668/1‑142 (MQ=255)
cATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCcgcgcg > 2:147821/1‑149 (MQ=255)
aTCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCgcgg < 6:5426/149‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCgcgggcgg < 4:137572/148‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCACCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGAACGAGCGCCGCgcgggcg < 1:209562/147‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCCCGCGCGGCGCt < 5:126484/148‑1 (MQ=39)
cTGATCCCGGCATGGATCGCTGTGGTGGGGGTGGCTTTCAAGCGGCAGAAGGCGCGCCAGGCCAAGGGCTGATCGGGTTTGGTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑a < 1:275592/148‑1 (MQ=37)
cTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGCTTTCATCGCCT‑‑GTGAGATCGAGCGCCGCCCGCGCGGCGCTCG‑At < 5:101122/149‑1 (MQ=37)
aTCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑Atc < 4:99376/147‑1 (MQ=255)
tgggtggCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCa < 8:146782/149‑1 (MQ=255)
gggtggCTTTCAAGCTGAAGACGGCTCGCCCGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCAt < 2:244165/149‑1 (MQ=38)
gggtggCTTCCACGCTCAACACGCCCCCCCAGGCCAAGGGCTGATCGGGTTTGTTCGTACGGGGTATGCCGTTCGGTTTCCGGCGCCT‑‑GTTCCACCCCGCCCCGCGCGGGCGGCGCGCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCAt < 4:95706/149‑1 (MQ=255)
cAAGCTGAATAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTTGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTggc < 2:422122/148‑1 (MQ=38)
gaagaaGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCCAGCGCCGCGCCGGCGGCGCTCG‑ATCTCACACGCGATGAAAGCCAAAAAGCATGCGTCTGGCGGgccag > 8:157050/1‑147 (MQ=38)
gaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCAGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGAcg > 8:79960/1‑149 (MQ=255)
gCCAGGCCAAGGGGTGATCGGGTTTGTTCTTTAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGGCGCGCGGGCGGCGCTCT‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGGGTTcccc < 6:457204/149‑1 (MQ=255)
gCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGCGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTc < 4:144198/147‑1 (MQ=255)
aaGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTTGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGc < 4:422698/149‑1 (MQ=255)
gggCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTCACATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGccc < 5:339875/149‑1 (MQ=255)
aTCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCaa < 1:147821/148‑1 (MQ=255)
tCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGGGA‑‑GATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtg < 8:321033/149‑1 (MQ=255)
gggTTTGTTGGTATGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct < 6:413060/149‑1 (MQ=38)
gggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct < 4:77642/149‑1 (MQ=255)
gggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct < 2:135226/149‑1 (MQ=255)
gTTTGTTCGTATGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGCGCGCCGCGCGGGCGGCGCTGG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgctgc < 6:94288/149‑1 (MQ=38)
gggttagCCGGTAGGTTTTCGGGGCCT‑‑GTGCGATCGCGCGCCGGGCGGGCGGCGCTCGCTTGTCACTGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAgca < 1:237668/143‑1 (MQ=255)
ccGTTAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAg < 5:106359/148‑1 (MQ=255)
ttAGGTTTTCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtggt < 2:9563/149‑1 (MQ=255)
ttttCGGCGCCT‑‑GTGAGATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACa < 2:35404/149‑1 (MQ=255)
ttttCGGCGCCG‑‑GTTAGAGCGCGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACa < 3:303971/149‑1 (MQ=39)
|
CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑GATCGAGCGCCGCGCGGGCGGCGCTCG‑ATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACA > NC_002947_CJ‑RC/1070098‑1070379
|
| 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
