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 F24 I1 R1
|
60 |
68.7 |
2919236 |
98.6% |
2878366 |
146.9 |
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 | 76.9%
| 58.9
/ 14.6
| 28 | 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 (5/15); total (6/22) |
| 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 |
| * | NC_002947_CJ‑RC | 1,070,246 | 2 | . | A | 75.0%
| 54.4
/ 19.3
| 28 | 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 . (1/6); new base A (5/16); total (6/22) |
| 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 |
CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑G‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAGCA > NC_002947_CJ‑RC/1070098‑1070382
||
ccTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑t‑‑gt > 8:209086/1‑149 (MQ=255)
cTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑t‑‑gt > 5:77536/1‑148 (MQ=255)
cTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑a‑‑gt‑‑g > 6:28395/1‑149 (MQ=255)
ttCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGcgccg > 6:226505/1‑149 (MQ=255)
tCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTTGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGcgccg < 1:131454/148‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCACGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGGTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCgcggg < 1:187628/145‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCccgcgcg < 4:117022/147‑1 (MQ=39)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCTTTAGGCTTTCATCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCCCGCGCGGCGCTc < 2:275092/149‑1 (MQ=25)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCt < 5:183832/148‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTc < 5:39132/149‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTc < 2:360765/149‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTc < 6:77536/149‑1 (MQ=255)
aTCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGAtctc < 5:226505/149‑1 (MQ=255)
tCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑GAAAT‑‑CGAGCGCCGCCCGCGCGGCGCTCGATCTca < 5:356815/149‑1 (MQ=38)
ctgtgGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTTATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAg < 8:51424/149‑1 (MQ=255)
ctgtgGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑AGAGCGCCCCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAg > 8:108044/1‑149 (MQ=39)
gCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGt < 8:104176/148‑1 (MQ=255)
tCAAGCTTACGACGGCTGCCCCGGCCACGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTCGGTTTTCGGCGCC‑‑G‑‑GT‑‑C‑‑ATCCCGTGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTg < 6:228099/147‑1 (MQ=37)
cAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCTGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTggc < 2:220726/148‑1 (MQ=255)
aaaGCTTAATAGGGCCCGCCAGCCCATGGGCGTACCGGTTTTGTCCGAACGGGGTATGCCTTTCGGTTTTCGGCGCCGGG‑‑GC‑‑G‑‑AG‑‑CGAGCCCCGCGCGGGGGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTggcg < 6:235511/148‑1 (MQ=255)
gaagaaGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑AGCGCGCCGCGGGGGGGGCGCGGGGTGTCACACGCGGTGAAAGCCGTAAGGCCTGCGGGTGGCGGcccgg > 7:314203/1‑147 (MQ=255)
aagGCGCGCCCGGCCAAGGGCTGATCGGGTTGGTTCGTACGGGGTATGCCGTAAGGTTTACGGCGCC‑‑T‑‑GTGAG‑‑AG‑‑CCAGCGCCGCGCGGGCGGCGCTGGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGAcgc < 7:208104/149‑1 (MQ=37)
cAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCA‑T‑‑TTA‑G‑‑AT‑‑AGAGCGCCCCGCGGGCGGCGCTCGATATAACAGGCGATGAAAGCCAAAATGCAATCGTATGGCGGCCCTGACGCGTTgcccgt > 8:9262/1‑147 (MQ=255)
cAGGCAAAGGGTTTATCGGGTTTGTTGTTAAGGGGTATGCTTTTTGGTTTTGGGCGCA‑‑T‑‑GT‑‑GATAT‑‑CTAGCGCGGGGCGGGGGGCGATGTATATCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCtt < 4:53709/149‑1 (MQ=255)
gcccAAGGCCTGATCGGGTTTGTGCGTAAGGGGTAGGCCTTTAGGTTTTCGGCGCCGGT‑‑GA‑‑G‑‑AT‑‑CGTGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTcc < 4:303841/147‑1 (MQ=37)
gcaatgggCTGATCGGGTTTGTTCGAAAGGGTTATCCCGTTAGGTTTGCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCa < 6:41433/144‑1 (MQ=37)
gggTTTGTGCGTACGGGGTATCCCGTTAGGTTTTCGGCCCC‑‑T‑‑GTTAG‑‑AT‑‑CGCGCGCCGCGCGGGCGGCGCGCGATCTAACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgc < 3:262556/148‑1 (MQ=255)
ccGTTAGGTTTTCGGCGCC‑‑TGAGA‑‑G‑‑AG‑‑CCAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgt < 7:183096/149‑1 (MQ=38)
ccGTTAGGTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑AGAGCGCCGCGCGGGCGGCGCGCGATCTCACAGGCGATGAAAGCCGAAAGGCATGCGTCTGGCGGCCCTGACGCGGTGCCCGTACATGGCCCACAATTCTTCCACCCCCAAGCACGCCCAgt > 2:60313/1‑149 (MQ=21)
ggTTTTCGGCGCC‑‑T‑‑GTGAG‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGgtgt < 7:9262/148‑1 (MQ=255)
gcgcC‑‑T‑‑GTGAG‑‑AT‑‑AGAGCGCCGCGCGGGCGGCGCTCGATATCACAGGCGATGAAAGCCTAAAGGCATTCGTCTGGCGGCCCTTACGCGTTCCCCTTACATGCCCCTCAATTATTCCTACGCCAAGCACGCACATTGGTGTACAGCa > 6:357282/1‑146 (MQ=25)
||
CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑T‑‑GT‑‑G‑‑AT‑‑CGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACAGCA > NC_002947_CJ‑RC/1070098‑1070382
|
| 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
