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 |
|
A11 F83 I1 R1
|
24 |
40.7 |
1567444 |
90.4% |
1416969 |
141.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
419,671 |
Δ1 bp |
coding (81/1320 nt) |
brnQ → |
branched chain amino acid transporter BrnQ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 419,670 | 0 | T | . | 91.7%
| 81.6
/ 0.8
| 24 | coding (80/1320 nt) | brnQ | branched chain amino acid transporter BrnQ |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base . (7/15); minor base G (2/0); total (9/15) |
| Fisher's exact test for biased strand distribution p-value = 1.30e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
ATTGGCACAAAAATTTAACGTTACAACACCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACATTATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCAAAAGTTGGCGGCGGTG > NC_000913/419539‑419798
|
aTTGGCACAAAAATTTAACGTTACAACACCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTcc > 1:685966/1‑143 (MQ=255)
gCACAAAAATTTAACGTTACAACACCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATg > 1:505952/1‑143 (MQ=255)
gCACAAAAATTTAACGTTACAACACCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑CACTGTCCCTCCAATg > 2:248065/1‑143 (MQ=255)
aaaTTTAACGTTACAACACCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGGAACA‑GCTTTTCCCTCCAGTGGCCGGc > 2:485662/1‑143 (MQ=255)
acaccaCCATAGCCGCAGGCAGTTCTGTGTATTACCCATCAATTAAGATCGCGCGATATCATCGCTCTTGGCTTTACGCCATTCTCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACaggcaggc < 2:123158/143‑1 (MQ=255)
aacaCCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGCTATCATCGCTTTGGGCTTTATGACCCTCGCGTTGTTCGCCGGCGCAGGTAAC‑GAATTTTGCCTCCAATGGTCCGCTTCCAGGCCGGCGa > 2:230373/1‑143 (MQ=255)
aTCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCt < 2:773742/143‑1 (MQ=255)
cacaGGCAGTATGATTTATCACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGa < 2:149076/143‑1 (MQ=255)
acaGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACCGGCCGGCGAAACCGTCTggtc > 1:284625/1‑141 (MQ=255)
aTGATTTATGACCCGTCAATTCAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCATGCGAACACGTCTGGACTGCGGCAtt < 2:322319/143‑1 (MQ=255)
aTCAATTAAGTTCGCGCGCTATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCATTGGGCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTa < 1:179846/143‑1 (MQ=255)
gATCGCGCGCTATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTg < 1:159474/143‑1 (MQ=255)
cgctatCACCGCTCTGGTCTTTAAGACCCTTTCTTGGTTCATCGGCGCAGGTAACA‑GATTTTCCCTCCATTCGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGcc < 2:585635/140‑1 (MQ=255)
atcagcGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTa < 1:563816/143‑1 (MQ=255)
atcGCTCTGGGCTTTATGACATTTGAGTTGTTCGGTATTGCAGTTTTCAGT‑TTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTa > 1:537069/1‑143 (MQ=255)
tttATGACATTTGCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTCTTCACGGTGGTGgcg > 1:102301/1‑143 (MQ=255)
aTGCCATTTGCGTTGGTCGTCGGCGCAGGTAACA‑TATTCTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATCACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTg < 1:611651/143‑1 (MQ=255)
tttGCGTTGTTCGTCGGCGCAGGTAACA‑TATATTCCGTTCAAGCGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCaaaa < 1:606604/143‑1 (MQ=255)
gttGCGTTGTTCGTCGGCGCAGGTAACA‑TACTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGTCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCaaaa < 1:337737/142‑1 (MQ=255)
gCGTTGTTCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCCGCTTACAGGCAGGCGAACACGTCTGGGCTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCAAAAGtt < 1:57770/143‑1 (MQ=255)
gttgttCGGCCGCGCAGGTAACA‑GATGGCCCCTCCGAGGGTCGGCTTACAGGCAGGCGAACACGGCTGGACTGCGGCATTCGGCTTCGTCATTGCTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCAAAAGTTgg < 2:439299/143‑1 (MQ=255)
ttgttCGTCGGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCAAAAGTTggc < 1:612898/143‑1 (MQ=255)
tcgtcgGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCAAAAGTTGgcggcg < 1:159412/143‑1 (MQ=255)
tcgGCGCAGGTAACA‑TATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGGTGGCCTGCCGGTATTAACGGTAGTGGCGCGGGCAAAAGTTGGCGGCGgtg > 1:606865/1‑143 (MQ=255)
|
ATTGGCACAAAAATTTAACGTTACAACACCACATCCACAGGCAGTATGATTTATGACCCATCAATTAAGATCGCGCGATATCATCGCTCTGGGCTTTATGACATTTGCGTTGTTCGTCGGCGCAGGTAACATTATTTTCCCTCCAATGGTCGGCTTACAGGCAGGCGAACACGTCTGGACTGCGGCATTCGGCTTCCTCATTACTGCCGTTGGCCTGCCGGTATTAACGGTAGTGGCGCTGGCAAAAGTTGGCGGCGGTG > NC_000913/419539‑419798
|
| 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
