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 |
|
A18 F25 I0 R1
|
17 |
19.2 |
625642 |
96.1% |
601241 |
148.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
3,985,522 |
T→C |
17.5% |
L337P (CTC→CCC) |
cyaA → |
adenylate cyclase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,985,522 | 0 | T | C | 17.5%
| 35.3
/ 3.0
| 23 | L337P (CTC→CCC) | cyaA | adenylate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (5/14); new base C (2/2); total (7/16) |
| Fisher's exact test for biased strand distribution p-value = 5.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.10e-01 |
GCACGACGGCGAGATTGTATCGTTTGGTCTCGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACCGCGCTAACTGGAAGATTGATCAGGTGCGTGAGGCGCACAACGAGT > CP009273/3985379‑3985668
|
gCACGACGGCGAGATTGTATCGTTTGGTCTCGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGcc > 1:99083/1‑149 (MQ=255)
aTTGTATCGTTTGGTCTCGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGGCGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTg < 1:6282/149‑1 (MQ=255)
ggaTCGTTTGGTCTCGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGt < 2:311097/147‑1 (MQ=255)
tctcGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGCTTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGGGAAAAGCCCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTc > 1:265496/1‑149 (MQ=255)
tctcGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCCCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTc > 1:73418/1‑149 (MQ=255)
ctcGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTcg > 2:245023/1‑149 (MQ=255)
tcGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTcgc < 2:114765/149‑1 (MQ=255)
aTCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCa < 1:300099/149‑1 (MQ=255)
ccATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAgt < 1:128139/149‑1 (MQ=255)
tgCTGGAGCGTGTTACTGAATTCCTGACGGCGATTGAAGATTTTTCCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTa < 1:9211/149‑1 (MQ=255)
tgCTGGAGCGTGTTACTGAATCCCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTa < 2:31768/149‑1 (MQ=255)
atggtcggtgtTACTGAATACCGGACGGCGATTGAAGATTTTACCGGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGGCGCGCAGTGTTGAGCCAGTTAGt < 1:109524/142‑1 (MQ=255)
aGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGAGCATACTTAGCCTT‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGc < 2:75239/149‑1 (MQ=255)
tGACGGCGATTGAAGATTTTACCGGTCTGGATTTAGTACGTCGCTGCTTCTATTTCAACGTGTGCGAAAAGCTCAGCCGTGACCGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGaa < 1:264904/149‑1 (MQ=255)
gATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTc > 2:18874/1‑149 (MQ=255)
tttACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCt < 2:179793/149‑1 (MQ=255)
tACCCGTCTGGATTTAGTCCGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGGCGGCTG‑GCGTCGCGCAGTGTTGAGCCAGATAGTGAGCGAGGGGGGATGGGACGAAGCTCGTCTGGCAATGCtac > 1:264156/1‑147 (MQ=255)
tGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACcgc > 2:282233/1‑149 (MQ=255)
tctatgtccaaGCGTGCGACAAGCTCCGCCGTGCACGCGCCTGCGTCGGCTGCGCG‑CGCGCAGGGTATAGCCAGTCACTGAGAGAGTGTGGCCCTCTCCGAGCCCCTCTCGATATGCTCGATAACCGCGCTAACTGGAAGATTGATCAg < 1:91446/140‑1 (MQ=255)
aaaaGTGTGCGAAAAGCCCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACCGCGCTAACTGGAAGATTGATCAGGTGCGTg < 2:265496/149‑1 (MQ=255)
aaaaGTGTGCGAAAAGCCCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACCGCGCTAACTGGAAGATTGATCAGGTGCGTg < 2:73418/149‑1 (MQ=255)
gCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACCGCGCTAACTGGAAGATTGATCAGGTGCGTGAGGCGcac < 2:99083/149‑1 (MQ=255)
gCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACCGCGCTAACTGGAAGATTGATCAGGTGCGTGAGGCGCACAACGAGt < 2:143756/149‑1 (MQ=255)
|
GCACGACGGCGAGATTGTATCGTTTGGTCTCGATCCATACTGCATGATGCTGGAGCGTGTTACTGAATACCTGACGGCGATTGAAGATTTTACCCGTCTGGATTTAGTACGTCGCTGCTTCTATTTAAAAGTGTGCGAAAAGCTCAGCCGTGAACGCGCCTGCGTAGGCTG‑GCGTCGCGCAGTGTTGAGCCAGTTAGTGAGCGAGTGGGGTTGGGACGAAGCTCGTCTGGCAATGCTCGATAACCGCGCTAACTGGAAGATTGATCAGGTGCGTGAGGCGCACAACGAGT > CP009273/3985379‑3985668
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
