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 |
|
A3 F14 I0 R1
|
206 |
76.7 |
3255580 |
98.8% |
3216513 |
146.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,070,246:2 |
+A |
70.7% |
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 | 2 | . | A | 70.7%
| 87.7
/ 38.2
| 41 | 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 . (5/7); new base A (8/20); total (13/28) |
| Fisher's exact test for biased strand distribution p-value = 4.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑GA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAG > NC_002947_CJ‑RC/1070104‑1070380
|
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑Gagat < 8:360664/148‑4 (MQ=255)
ccgATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑Gagatcgag > 8:318233/1‑141 (MQ=255)
cATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCcgcgc‑‑g < 1:83180/149‑1 (MQ=255)
aTCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCgc‑‑gg > 2:315522/1‑149 (MQ=255)
tcGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑A‑‑GT‑‑GA‑‑TAAAGAGCGCCCCgc‑‑gggcg > 4:85749/1‑149 (MQ=255)
cGGTAATGCTGATCCCGGCATGGATCGCTGTGCTCTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGATGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGCTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAACGCCGCgc‑‑gggcgg > 2:218538/1‑149 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCgc‑‑gggcg < 3:332918/147‑1 (MQ=255)
gTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGgcggcg < 3:252832/149‑1 (MQ=255)
tAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGgcgc < 2:36859/149‑1 (MQ=255)
aaTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCAGT‑‑GA‑‑GA‑‑T‑‑AGAGCGCCCCgc‑‑gggcggggg > 6:251360/1‑145 (MQ=255)
aaTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCCCGC‑‑CGGCGgcgc > 6:126491/1‑148 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTc < 4:325920/149‑1 (MQ=255)
tGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTTT‑‑GA‑‑GA‑‑T‑‑AGAGCGCCCCGC‑‑GGGCGGCGCGCGAtg > 2:323328/1‑148 (MQ=255)
gATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGCTTTCATCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCCC‑‑GCGCGGCGCTCGAtc > 7:200043/1‑148 (MQ=37)
aTCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGCTTTCATCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCCC‑‑GCGCGGCGCTCGAt < 8:200043/146‑1 (MQ=37)
ccgggCTTGGAGCGCTGGGCGGTGGGTGGCTTTCAAGCTGAAGATGGCTCGCCAGGCCAAGGGGGGAGCGGGTTTGTTCGTAAGGGGTATGCCGTTTGGTTTTCGGCGGC‑‑TGGGC‑‑GA‑‑T‑‑CGAGCGCTGCGC‑‑GGGGGGCGCTCGATCTca < 2:55477/145‑1 (MQ=255)
cGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCGCGATCTca > 6:399555/1‑146 (MQ=255)
gATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCt < 3:228372/131‑1 (MQ=255)
gATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCt > 4:228372/1‑131 (MQ=255)
ggCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGCGCGCCCCGC‑‑GGGGGGGGCGCGCTGTGACAGGGGGTTAAAGCCAAAAGGccatcg > 5:286230/1‑143 (MQ=255)
cTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTc < 8:391744/148‑1 (MQ=255)
ttCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTTT‑‑GA‑‑GA‑‑T‑‑AGAGCGCCCCGC‑‑GGGGGGGGCGCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTg > 6:98127/1‑148 (MQ=255)
aagaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTTAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGa > 2:279667/1‑149 (MQ=255)
aagaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGTGGccc < 8:387345/146‑1 (MQ=255)
ggCTCGCCAGGCCAAGGGCTGATCGGGTTTGTGCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGt < 1:212883/149‑1 (MQ=255)
gCCTGGCCAAGGGCTGATGGGGTTTGTTCGTACGGGGTATGCCGTTCGGTTTTCGGCGCCTTT‑‑GA‑‑GA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTcc < 4:27326/147‑1 (MQ=37)
gCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTcccc < 2:258951/149‑1 (MQ=255)
ggcaacgggCTGTTCGGGTTTGTTCGTATGGGTTATCCCTTTCGGTTTTCGGCGCT‑‑TTGGA‑‑GA‑‑T‑‑GGCGCGGCGGGC‑‑GGGCGGCGCTCGATCTCAAAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTcc < 4:12896/143‑1 (MQ=255)
cggATGGGGTTTTGTCGTAAGGGGTAGGCCGTTAGGTTTTCGGCGCC‑‑G‑‑GTCAGA‑‑C‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTc < 1:315522/147‑1 (MQ=37)
aTCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCa < 5:399555/147‑1 (MQ=255)
tCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAt < 6:326206/148‑1 (MQ=255)
ttCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGCGA‑‑T‑‑CGCGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTcc < 5:126491/148‑1 (MQ=255)
ttCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTc < 7:318233/147‑1 (MQ=255)
tgggTATGGGTTATGCGGTTTGGTTTTGGGCGCC‑‑TGGGG‑‑GA‑‑T‑‑CGCGCGCGGCGC‑‑GGGCGGGGCTCGATCTCAAAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGTCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTcc < 1:218538/145‑1 (MQ=255)
aaGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCaa < 1:279667/148‑1 (MQ=255)
aGGGGTATGCGGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑G‑‑CGCGCGCCGCGG‑‑GGGCGGCGCTCGATCTAACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCaa < 5:251360/147‑1 (MQ=255)
gggTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGCGCGCCGCGG‑‑GGGCGGCGCTCTATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAgcac < 1:82330/149‑1 (MQ=255)
ggtttgtttttCGGCGCC‑‑T‑‑GT‑‑GA‑‑G‑‑ATGCCGGCGCGGGGGGGCGCCGCTCTATCTCACTGGCGATGAAAGCCTAAAGGCATGCTTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtg < 1:311615/142‑1 (MQ=255)
tggTTTGCGGCGCC‑‑G‑‑GT‑‑GACTT‑‑CGCGCGCCGCGC‑‑GGGGGGCGGGCTATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtggtg < 3:6695/147‑1 (MQ=255)
tCGGCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAg < 8:178872/147‑1 (MQ=255)
ggCGCC‑‑T‑‑GTGAGA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAg < 8:10901/145‑1 (MQ=255)
|
GCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑GA‑‑T‑‑CGAGCGCCGCGC‑‑GGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAG > NC_002947_CJ‑RC/1070104‑1070380
|
| 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
