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 |
|
A6 F406 I0 R1
|
35 |
111.3 |
2499574 |
96.3% |
2407089 |
209.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
2,151,689 |
G→T |
50.3% |
intergenic (+43/+22) |
yegJ → / ← yegK |
uncharacterized protein/ser/thr phosphatase‑related protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,151,689 | 0 | G | T | 50.3%
| ‑4.7
/ 3.2
| 15 | intergenic (+43/+22) | yegJ/yegK | uncharacterized protein/ser/thr phosphatase‑related protein |
| Reads supporting (aligned to +/- strand): ref base G (5/2); new base T (4/3); total (9/6) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.67e-01 |
ATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑GAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAGTCGCTGGAT > NC_000913/2151578‑2151911
|
aTTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTGTCTTCAACCCCCCTGAGAAACTCACTCTTCCCCCAGCGCCAGTGCCAACGTTTTTTCATCATCCGTACGCTCGTTTACCGCCCG‑GCTGGGCCAAAACTGCTTTT‑ACAATTCAGGTAATAAAACG‑Agt > 1:842521/1‑239 (MQ=255)
gATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTTTTTTTAACCGCCATGAGAAACTCACTCTTCCCACAGCGCCCGTGCCAAAGTTTTTTCATTATTCGTACGCCCGGTTAACCCCCG‑GCCGGACAAAAAATTCGTTT‑ACAATTTAGGGGATAAAtacaggtgt > 2:248226/1‑231 (MQ=255)
ttcttttATGGGTCACCTATCAAAAAAAAGAAGCCGACGAGAAAAGAGCAAAATTTGTT‑CGCAAACCACCTTTTATTTTTTTTTTTTAAACGGGG‑GGTTGAT‑TTTTTCTCTCCACCCGCCATGAGAAACTCACTCTGCCCACAgcgc < 2:881304/143‑1 (MQ=255)
ggTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTTTTTTTAAACGCCCTGAGAAAATCACTCCTCCCCCCGCCCCAGTGCCAACGGTTTTTTATCATCCCTACGCTCGTTTATCGCCGGTGCGGGAGAAAAA‑TGCCTTATAAAATACAGGT‑ATAAATCG‑AGTTGTTCCTGccgtgg > 2:1209329/1‑234 (MQ=255)
ggTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTGTCTTCAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGGGCCAAc > 1:881304/1‑147 (MQ=255)
cTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTTAA‑TTGTTTTCTTCAAACCCCATGAGAAACTCACTCTGCCCACAGCGCCCGTGCCAACg > 1:695524/1‑142 (MQ=255)
cgcagaagaGCAAAGAACAATAGTTGTT‑CGATAATCCGCTGTTATATTTATTGTAAAAACGGGG‑GGTTGAA‑TTGTTTTTTAAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑Gaaaaa < 1:477991/232‑1 (MQ=255)
cggacgaGAAAAGAAAAAATTTAGTT‑CTCAAATCAGCTTTTATTTTTTTTG‑TTAAACCGGG‑GGTTTAATTTTTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑Gaaaaa < 1:64596/235‑1 (MQ=255)
acgaGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑ATGTTGTCTTCAACCGCCCTGAGAAAATCACTCTGCCCCCAGCGCCAGGGCCAACGGTTTTTCATCAACCGTACGCTCGGTTACCGCCCG‑GCTGGACAAAAAATGCTTTT‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTTCGTTTCTGCCGCCAGTCCACTT‑TAAAAACggg > 2:738822/1‑239 (MQ=255)
cgaGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTTTTTTCAACCGCCATGAGAAAATCACCCTGCCCCCAGCGCCACTGCCAACGGTTTTTCATCATCCGTACGCCCCTTTACCGCCGG‑GCTGGGCAAAAACTGCTTTT‑ACAATTCAGGGAATAAATCGCAGTT‑TTTCTTCGTTGCTGCCGCCAGTCCA‑TTGGAAAAAAgggg > 2:64596/1‑239 (MQ=255)
aaaTTTGTTCCGCTAACCAGCTTTTATTTTTATTGTTAAACGGGGC‑GGTAAAA‑TTGTGTTCTTCACCCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑GAAAAACGGGGTAAAGAAAGGcac < 1:706623/239‑1 (MQ=255)
cttttatttttatttTTAAACCGGGC‑GTTTAAT‑TTTTTGTCTTAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑Gaaaaa < 1:915936/198‑1 (MQ=255)
ttttAAACGGGGGGGTTGAT‑TTGTTTTCTTCACCCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑GAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAg < 1:738822/238‑1 (MQ=255)
ggC‑GGTTGAA‑TTTTTGTCTTTAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCCG‑GCTGGACAAAAACTGCTTTT‑ACAATTCAGGGAATAAATAC‑AGTTGTTCCTTCGTTGCTGCCGCCAGTCCC‑TT‑TTAAAAAGGGGGAAAGAAATGCACATTAGGGGAAATATACAACACATTTTAAGCCCGTCGCttgga > 2:641927/1‑234 (MQ=255)
gC‑GGTTGAA‑TTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCCCAGCGCCAGTGCCCACGGTTTTTCATCATCCGTACGCTCGTTTACCGCCCG‑GCTGGACAAAAAATGCTTTT‑ACAATTCAGGGAATAAAACG‑AGTTGTTCCTGCGTTTCTGCCGCCAGTCCA‑TT‑GAAAAACAGGGGAAAGAAAGGCACATTAGGGGAATTATCCAGCATATTTaa > 2:394269/1‑222 (MQ=255)
|
ATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTT‑CGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAA‑TTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGG‑GCTGGACAAAAACTGCTTTA‑ACAATTCAGGTAATAAATCG‑AGTTGTTCCTGCGTTGCTGCCGCCAGTCCA‑TT‑GAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAGTCGCTGGAT > NC_000913/2151578‑2151911
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
