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 |
|
A5 F25 I1 R1
|
61 |
74.4 |
3161000 |
98.6% |
3116746 |
146.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,070,248 |
+GA |
intergenic (+48/+94) |
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 | 76.0%
| 54.2
/ 16.1
| 26 | 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 . (0/6); new base G (2/17); total (3/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
| * | NC_002947_CJ‑RC | 1,070,246 | 2 | . | A | 76.9%
| 54.0
/ 16.2
| 26 | 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 . (0/6); new base A (3/17); total (3/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAGC > NC_002947_CJ‑RC/1070098‑1070381
||
ccTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt > 3:327368/1‑149 (MQ=255)
ccTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTCTTCGGCGCCt‑‑gt < 4:268213/149‑1 (MQ=255)
cTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt > 8:317237/1‑148 (MQ=255)
gACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCa‑‑gttt > 3:98020/1‑146 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCTAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gtaagatc < 2:342786/149‑7 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCt‑‑gt > 2:23824/1‑143 (MQ=255)
cATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCcgcgcg < 1:319355/149‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCgcgggcgg < 4:340789/148‑1 (MQ=255)
tAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGgcgc < 4:134492/149‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTc < 2:281114/149‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCCCGCGCGGCGCt < 7:397490/148‑1 (MQ=39)
tGCGGATCCCGGCATGGAGCGCTGTGCTGGGGGTGGCTTTCAAGCTGAAGAAGGCGCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTTGGTTTTGGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCCCGCGCGGCGCTCg < 2:186381/149‑1 (MQ=37)
cTGTTCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCATGCTGATGAAGGCTCGCGAGGCCAAGGGGTGATCGGGTTTGTTGGTATGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCCCGCGCGGGGCTCGAt < 4:327368/149‑1 (MQ=25)
cTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGAt < 5:136734/149‑1 (MQ=255)
cGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAg > 6:374093/1‑149 (MQ=255)
gctgtgctgtGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGc < 8:380692/149‑1 (MQ=255)
tgctgtgGGGGGCTTTCCAGCTGAAGAAGGCGCGCCAGGCCAAGGGCTGATCGGGTTGGTTCGTAAGGGGAATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑GACATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCt < 6:182887/147‑1 (MQ=37)
gCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATAGAGCGCCGCGCCGGCGGCGCTCGGTCTCACAGGCGATGAAAGCCTAAAGGCATTCGTc > 6:83208/1‑149 (MQ=38)
agacgGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTCAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGa < 4:310486/148‑1 (MQ=38)
ggCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑GATATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGt < 5:83208/149‑1 (MQ=255)
tCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCA‑‑GTTAG‑‑ATACCGCGCCCCCCGGGGGGCCCGCCGTATCACCAGCGATGCAACCCGAAAAGCAAGCGGGAGGCGGCCCAGAagcggtgc > 8:321243/1‑145 (MQ=255)
ccAAGGGCTGATCGGGGTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑AACGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCAt < 6:82525/149‑1 (MQ=38)
aTCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGCGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCaa < 6:307990/148‑1 (MQ=255)
tCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtg < 1:23824/149‑1 (MQ=255)
cGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑GACATCGCGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgc < 4:98020/149‑1 (MQ=255)
ggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGGGA‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgctg < 5:377960/149‑1 (MQ=255)
ttCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTcc < 4:123110/148‑1 (MQ=255)
aGGGTTATGCCTTTAGGTTTTCGGCGCCTGGGA‑‑G‑‑AGCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAgc < 8:225091/149‑1 (MQ=38)
tttggTTTTCGGCGCCT‑‑GTGAG‑‑AGCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtggt < 7:321243/146‑1 (MQ=38)
tAGGTTTTCGGCGCCT‑‑GT‑‑GATATCGAGCGCCGCGAGGTCGGCGCTCTATCTCACAGGGGATGAAAGCCTAAAGGCATGCGTCTGGAGGCCCTGACGCGTTCCCCTTCAATGCCCCTCAATGCTGACTCCGCCTAGCACGCACAgtggt < 6:366052/148‑1 (MQ=255)
ttCGGCGCCT‑‑GTGAG‑‑ATCGTGCGCCGCGGGGGCGGCGCTCTTTCTCACAGGGGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAg < 4:208491/148‑1 (MQ=255)
tCGGCGCCT‑‑GTGAG‑‑ATCGCGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAGc < 3:257321/148‑1 (MQ=255)
||
CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCT‑‑GT‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAGC > NC_002947_CJ‑RC/1070098‑1070381
|
| 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
