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 |
|
A1 F14 I0 R1
|
248 |
61.6 |
2601574 |
98.7% |
2567753 |
146.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,625,208 |
A→C |
24.6% |
intergenic (+31/+26) |
PP_1425 → / ← nadB |
hypothetical protein/L‑aspartate oxidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,625,208 | 0 | A | C | 24.6%
| 20.2
/ 2.6
| 24 | intergenic (+31/+26) | PP_1425/nadB | hypothetical protein/L‑aspartate oxidase |
| Reads supporting (aligned to +/- strand): ref base A (15/3); new base C (2/4); total (17/7) |
| Fisher's exact test for biased strand distribution p-value = 3.81e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTGGCTGGGGGAAAGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGACAGGATCATCAG > NC_002947_CJ‑RC/1625060‑1625344
|
ttGGCTGGGGGAAAGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGa < 6:60681/149‑1 (MQ=255)
ttGGCTGGGGGAAAGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGa < 8:283582/149‑1 (MQ=255)
ggCTGGGGGAAAGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAg < 7:11982/148‑1 (MQ=255)
gCTGGGGGAAAGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGcc > 7:285992/1‑149 (MQ=255)
aaGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGGTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTCCTTCGCGGGCTCGCCCGCGAAgaa < 7:260612/149‑3 (MQ=255)
tataCCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGCAGGCCACGACGcc > 3:184630/1‑149 (MQ=255)
cTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCCCGACGCCGata > 7:279902/1‑148 (MQ=255)
ggATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCa > 1:26070/1‑147 (MQ=255)
ggCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGCGCCCGCGAAGGCCACGCCGCCGATATCAGAGCGGGGTAAGGa > 3:166983/1‑149 (MQ=255)
ttGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCCCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTc > 1:244039/1‑149 (MQ=255)
ttGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGTCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGCCGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTgg > 4:5141/1‑149 (MQ=255)
gTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGGCGCCGATATCAGAGCGGGTTAAGGATGGTGTACTTGGCCTCGTCCAGCATCCCTGGATAAt > 4:153385/1‑149 (MQ=255)
ttCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATc > 2:314612/1‑149 (MQ=255)
aGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGAAGCCCAAATCAGAGCGGGTTAATGATGGTGTCCATGGCCTCGTCCAGCATCCCTGGATAATCCAg > 4:83921/1‑149 (MQ=255)
ccGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAgtg > 6:258099/1‑149 (MQ=255)
ggggggggggCGGGGGTGAGCGGGTAATTTATCGAGACCGGTTTAGATTCTTGGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTa < 8:39329/142‑1 (MQ=255)
aGATCTAGACGGGGTTAGCTTCTTCGAGGGCTAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGc < 4:264109/149‑1 (MQ=255)
aGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGAAATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATACAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTg > 3:36065/1‑148 (MQ=255)
gATCGAGACCGGGTTAGCTTCTTCGCGGGCGCGCCCGCGCAGGCCCCGCCGCCGATATCAGAGCGGGGTTAGGATGGTGTGCTTGGCCTCGTCCAGCCTCCCGGGATAATCCAGTGTGTTATGCAACCCTCGGCTTTCCTTGCGCTGCa > 3:33857/1‑149 (MQ=255)
aTCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATAACAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCAt > 8:37318/1‑149 (MQ=255)
agaCCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCt > 7:128713/1‑149 (MQ=255)
cccGGGTTAGCTTCTGCGGGGGCCCCCCCGCCAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGa < 5:144394/148‑1 (MQ=255)
cggggTTTGGTTTTTGGCGGGCGCCCCCGCCAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGAc < 8:279902/147‑1 (MQ=255)
cttcttCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGACAGGatcat > 6:101792/1‑148 (MQ=255)
cttctcCGCGGGCGCGCCGGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGACAGGatcatc < 1:240060/149‑1 (MQ=255)
tcttcGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGACAGGATCATCAg > 1:129133/1‑149 (MQ=255)
|
TTGGCTGGGGGAAAGCCAGTGTATACCTCAGGATGCGCTAGGGGCTGACGAGCATCGGCGCTTGCGGGTGCGGTTGAAGTTCAGCCGGCGGCGCTGGGCTGCGGTGAGCCGGGCATAGATCGAGACCGGGTTAGCTTCTTCGCGGGCGAGCCCGCGAAGGCCACGACGCCGATATCAGAGCGGGTTAAGGATGGTGTCCTTGGCCTCGTCCAGCATCCCTGGATAATCCAGTGTGTAATGCAACCCTCGGCTTTCCTTGCGCTGCATGGCTGACAGGATCATCAG > NC_002947_CJ‑RC/1625060‑1625344
|
| 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
