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 |
|
A9 F1 I2 R1
|
760 |
52.7 |
2744488 |
90.2% |
2475528 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,950,559 |
(C)5→6 |
intergenic (‑37/‑273) |
aspS ← / → yecD |
aspartyl‑tRNA synthetase/isochorismatase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,950,554 | 1 | . | C | 94.9%
| 118.9
/ ‑2.2
| 39 | intergenic (‑32/‑278) | aspS/yecD | aspartyl‑tRNA synthetase/isochorismatase family protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); major base C (18/19); minor base T (1/1); total (19/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.71e-01 |
ATCAGGCTACCAAGATCACGACGACGGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATG‑CCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGCCCGCGCTGGAACGCCTCGTTACCA > NC_000913/1950422‑1950685
|
aTCAGGCTACCAAGATCACGACGACGGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATG‑cccccc > 2:452177/1‑138 (MQ=255)
ggCTACCAAGATCACGACGACGGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATG‑cccccctgct > 2:565635/1‑134 (MQ=255)
tACCAAGATCACGACGACGGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTgcg < 1:565635/139‑1 (MQ=255)
aGATCACGACGACGGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGt < 1:1359037/139‑1 (MQ=255)
acgGTTCACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGc < 2:68484/139‑1 (MQ=255)
cgGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGTCCCCCTGCTGCGCAGGTGACCAAGTCGCa > 1:208098/1‑139 (MQ=255)
cgGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAg < 1:388836/125‑1 (MQ=255)
cgGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAg > 2:388836/1‑125 (MQ=255)
ttGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTgcgc < 2:836924/120‑1 (MQ=255)
ttGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTgcgc > 1:836924/1‑120 (MQ=255)
agTCACCTGCTGCCCCACGTGGGACAAACGGAGCTTTCCACAATATTCTGTACGCATGAGATATCCCTAAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGt > 2:475001/1‑134 (MQ=255)
agTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACaa > 1:146961/1‑139 (MQ=255)
agTCACCTGCTGCACCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGt < 1:475001/134‑1 (MQ=255)
tgcCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGtt > 2:873855/1‑114 (MQ=255)
tgcCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGtt < 1:873855/114‑1 (MQ=255)
ccACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAg > 1:185079/1‑139 (MQ=255)
cacaATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTg > 1:372988/1‑139 (MQ=255)
aaTATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGTCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCg < 2:208098/139‑1 (MQ=255)
tatTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCa < 2:372988/139‑1 (MQ=255)
tGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTa < 2:938961/139‑1 (MQ=255)
tGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTa > 1:938961/1‑139 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCtatt > 1:803921/1‑107 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCtatt < 2:803921/107‑1 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTa < 1:1233705/132‑1 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTa > 2:1233705/1‑132 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCt > 2:502083/1‑139 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCt < 1:853474/139‑1 (MQ=255)
aTGAGATATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCt > 1:323654/1‑139 (MQ=255)
agaTATCCCTTAACTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGc < 1:1361747/139‑1 (MQ=255)
aaCTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGc > 1:761083/1‑49 (MQ=38)
aaCTTAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGc < 2:761083/49‑1 (MQ=38)
ttAGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGCCCGCGCTGGAACGc < 1:452177/139‑1 (MQ=255)
aGCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGCCCGCGCTGGAACGCCt > 1:220595/1‑139 (MQ=255)
gCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCg > 1:357198/1‑105 (MQ=255)
gCTGCCGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCg < 2:357198/105‑1 (MQ=255)
ccGGCGGATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGCCCGCGCTGGAACGCCTCGTTa < 2:220595/139‑1 (MQ=255)
ggcggATGCCCCCCTGCTGCGCAGGTGACCAAGTc > 1:484475/1‑35 (MQ=25)
ggcggATGCCCCCCTGCTGCGCAGGTGACCAAGTc < 2:484475/35‑1 (MQ=25)
ggcggATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGc > 2:677261/1‑116 (MQ=255)
ggcggATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGc < 1:677261/116‑1 (MQ=255)
gcggATGCCCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGCCCGCGCTGGAACGCCTCGTTACCa > 1:426176/1‑139 (MQ=255)
|
ATCAGGCTACCAAGATCACGACGACGGTTGACCCAACCACACAGAGTCACCTGCTGCCCCACGTGGGACAAACGGAGCTGTCCACAATATTCTGTACGCATGAGATATCCCTTAACTTAGCTGCCGGCGGATG‑CCCCCTGCTGCGCAGGTGACCAAGTCGCAGCGTTAGCTGTATGTCACAACTGAATGAAAAAAGGCGGCTATTATACTGGAAATTCTGCCGCACCGTAAGAGCCTGGCCCGCGCTGGAACGCCTCGTTACCA > NC_000913/1950422‑1950685
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
