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 F48 I1 R1
|
58 |
71.3 |
3054194 |
98.3% |
3002272 |
146.3 |
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 | 80.8%
| 48.7
/ 11.8
| 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 . (0/5); new base G (6/15); total (6/20) |
| Fisher's exact test for biased strand distribution p-value = 2.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
| * | NC_002947_CJ‑RC | 1,070,246 | 2 | . | A | 80.8%
| 50.1
/ 12.0
| 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 . (0/5); new base A (6/15); total (6/20) |
| Fisher's exact test for biased strand distribution p-value = 2.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑T‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGG > NC_002947_CJ‑RC/1070104‑1070373
||
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑T‑‑G‑‑agatc < 7:174810/149‑5 (MQ=255)
gATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAgcgc < 1:94691/149‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGTATCGCTGTGCTGTGTTTGGCTTTCAATCTGAAGAAGGCTCGCCAGGCCAAGGGCTTATCGGGTTTGTTCGTAAGGGGTATGCAGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATAGAGCGCCGAGCTtgcggc > 1:260535/1‑149 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCgcgggcgg < 4:321750/148‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGGGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCgcgggcgg < 6:305388/148‑1 (MQ=255)
gATCGCTGTGCGGTGGGCGGCTTTCAAGCTGAAGACGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATg < 6:161781/148‑1 (MQ=38)
cGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGGGGCGCGCGGTGGGACAGGCGAGGAAAg > 2:241582/1‑149 (MQ=38)
tgggtgggTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGTTGGGGTTTGTTCGTACGGTGTATGCCGTTAGGTTTTCGGCGCCTG‑‑T‑‑GATATGGAGCGCCGGGCGGGCGGGGGTCGATCTCACAGGCGATGAAAGCCTAAAGGc < 6:303844/148‑1 (MQ=255)
tgggtggCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATAGGGCGCCGCGCGGGGGGGGGGCGCTCGCACAGGCGATGAAAGGCTAAAggga > 2:39919/1‑147 (MQ=255)
ggCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATAGAGGGCCGCGCGGGCGGCGGGGGGTCGCACACGCGATGAAAGCCTAAAGGCCAGCGt > 8:374367/1‑149 (MQ=255)
aGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTggcggc < 7:306197/149‑1 (MQ=255)
agaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGAc < 5:292788/149‑1 (MQ=255)
gCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTCTGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTccc < 2:46718/148‑1 (MQ=255)
gCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTcc < 2:118575/147‑1 (MQ=255)
cAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑AGCGCGCGCCGCGCGGGCGGCGCGCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCtt < 1:241582/149‑1 (MQ=255)
cggCCATGGGCTGACCGGGTGTGTCCGCACGGGGTAGCCCGTACGGTTTGCGGCGCCGG‑‑G‑‑GCCACCGCCCCCCGCGCGGGCGGCGCCCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTc < 8:143641/148‑1 (MQ=255)
ccAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCAt > 6:336311/1‑149 (MQ=255)
gggTTTGTTCGTACGGGGTATGCCTTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct < 7:276261/149‑1 (MQ=38)
gggTTTGTGCTAACGGGGTATGCCTTTTGGTTTGCGGCCCCTG‑‑TGAG‑‑ACCGCCCCCCGCGCGGGCGGCGCGCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct < 5:228903/149‑1 (MQ=255)
aGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAgc < 5:336311/149‑1 (MQ=255)
ggTATGCCGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCGCGATCTCACCGGCGATGAAAGCCGAAAGGCCATCGGATGGCGGGCCTGCCGCGTTGCCCATCCAGGCCCCACAATGCTGCCACCCCCAAgcacg > 2:112148/1‑149 (MQ=19)
cGTTTGGTTTTGGGCGCCTGTCT‑‑G‑‑ATCGCGCGCCGCGCGGGCGGCGCGCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtg < 1:283930/149‑1 (MQ=255)
cGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtg < 4:109351/149‑1 (MQ=255)
cGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtg < 5:340286/149‑1 (MQ=255)
cGTTAGGTTTTCGGCGCCTG‑‑TGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtg < 6:296364/149‑1 (MQ=255)
tttAGGTTTTGGGCGCCTG‑‑T‑‑GATATCGAGCGCCGCGCGGGCGGCGCTGGATCTCACAGTCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtgg < 7:113612/148‑1 (MQ=38)
||
GCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTG‑‑T‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGG > NC_002947_CJ‑RC/1070104‑1070373
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
