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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,521,593 |
C→T |
*295* (TAG→TAA) |
xapR ← |
transcriptional activator of xapAB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,521,593 | 0 | C | T | 100.0%
| 73.2
/ NA
| 24 | *295* (TAG→TAA) | xapR | transcriptional activator of xapAB |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (11/13); total (11/13) |
AAGCGAGTCATCCTGCACGACCCACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACCTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGC > NC_000913/2521458‑2521710
|
aagcgaGTCATCCTGCACGACCCACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTAc < 2:249433/139‑1 (MQ=255)
tAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATc > 1:744336/1‑139 (MQ=255)
cTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCaa < 2:975050/105‑1 (MQ=255)
cTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCaa > 1:975050/1‑105 (MQ=255)
gCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATcg < 2:657631/112‑1 (MQ=255)
gCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTGCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAAAAGCTGAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa < 2:114422/139‑1 (MQ=255)
gCTATCTGCGATTTGCGAAATTGCATGATGCGCTTCACTTAGCAGACTACTCTTTCCGGCAATTCCTGTCTCCTCAGTTACTGTGTCAATGCAGCCAACAGCTTAACCATcg > 1:657631/1‑112 (MQ=255)
aTTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACa < 2:973056/131‑1 (MQ=255)
aTTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACa > 1:973056/1‑131 (MQ=255)
tGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa > 1:947733/1‑111 (MQ=255)
tGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa < 2:947733/111‑1 (MQ=255)
cTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa < 1:798910/107‑1 (MQ=255)
cTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa > 2:798910/1‑107 (MQ=255)
actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAAc > 1:758037/1‑54 (MQ=255)
actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAAc < 2:758037/54‑1 (MQ=255)
tactaTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCtgt > 1:637269/1‑82 (MQ=255)
tactaTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCtgt < 2:637269/82‑1 (MQ=255)
taTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa > 2:479938/1‑89 (MQ=255)
taTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaaa < 1:479938/89‑1 (MQ=255)
cGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGc < 2:744336/139‑1 (MQ=255)
ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCtgt > 2:259078/1‑72 (MQ=255)
ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCtgt < 1:259078/72‑1 (MQ=255)
gTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCgg < 2:969931/48‑1 (MQ=255)
gTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCgg > 1:969931/1‑48 (MQ=255)
|
AAGCGAGTCATCCTGCACGACCCACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACCTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGC > NC_000913/2521458‑2521710
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
