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 F50 I1 R1
|
163 |
55.0 |
1534755 |
98.6% |
1513268 |
150.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,097,218 |
(G)7→8 |
intergenic (+389/+347) |
ycdU → / ← serX |
putative inner membrane protein/tRNA‑Ser |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,097,211 | 1 | . | G | 82.3%
| 18.9
/ 4.3
| 17 | intergenic (+382/+354) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base G (5/9); total (6/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
GCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑A‑GGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTC > NC_000913/1097067‑1097307
|
gCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑A‑gggggg < 1:687047/151‑1 (MQ=33)
tCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑A‑gggggggggtt > 1:659302/1‑146 (MQ=18)
gCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACt < 1:1952/149‑1 (MQ=18)
aCTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACCAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAAAATGGCGGTG‑AGGGGGGGGATTGACtc < 2:287531/132‑1 (MQ=255)
ggCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGTCCTG‑CGGGCAg < 1:606100/151‑1 (MQ=16)
gTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTTCTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCg < 1:280691/151‑1 (MQ=16)
gTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGGCCCCCTTCCCCCCCCCCGCCGGGCAGcc > 2:711041/1‑150 (MQ=11)
ccAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCa < 1:280122/151‑1 (MQ=18)
gACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACG‑AAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGGTTTATTCGCTTCGCTCGCCCCG‑CGGGCAGCCCGCTCACTGCGTTTAc > 2:319778/1‑151 (MQ=11)
gCTTCCCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACt < 1:735445/151‑1 (MQ=9)
tcATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGGTTGAATCGCTTCGCTCGCCCCG‑CGGGCCGGCCCCCCCCTGCGGTCACGGGCTGTCCCACTg > 2:723859/1‑147 (MQ=11)
aTCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTc < 2:659263/151‑1 (MQ=14)
ccGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGGTTGAACCCCTTCGCTCGCCCCG‑CGGGCAGCCCCCCCACTGCGGTCCCGGTCTGTCCAACTGGCTGTCGcc > 1:621374/1‑148 (MQ=11)
cGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGt < 1:344447/150‑1 (MQ=14)
gtgtgtGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGG‑AGGGGGGGGATTGAACCCCTTTCTTCCCCCCC‑CGGGCGGCCCCCTCCCTGGGTTCCCGGTCTTTCCAACTGGCGGTCGccc > 2:552092/1‑145 (MQ=2)
aaTACACGAAAAAAAGGCCCGTCCTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑A‑GGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCg < 2:685411/151‑1 (MQ=14)
aaTACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGCGTG‑GGGGGGGATTGACTCCCTTCGCTCTCCCTG‑CGGGCAGCCCGCCCACTGCGTTCACGGGCTGTCCAACCGGGTGTGGCCCGTTGTCGAAcccc > 1:723921/1‑151 (MQ=11)
acacGAAAAAAAAGCCCGTGCTTTCGTACGAGCTCTTCTATAAATATGGCGGTG‑A‑GGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTc < 2:339546/151‑1 (MQ=14)
acacGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑AGGGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGt < 1:418766/151‑1 (MQ=14)
|
GCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTG‑A‑GGGGGGGATTGACTCGCTTCGCTCGCCCTG‑CGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTC > NC_000913/1097067‑1097307
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
