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 |
|
A5 F50 I1 R1
|
141 |
76.7 |
2402765 |
98.4% |
2364320 |
150.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,097,450 |
T→C |
intergenic (+621/+115) |
ycdU → / ← serX |
putative inner membrane protein/tRNA‑Ser |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,097,450 | 0 | T | C | 83.3%
| 22.2
/ ‑0.2
| 27 | intergenic (+621/+115) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| Reads supporting (aligned to +/- strand): ref base T (2/2); new base C (8/12); total (13/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.66e-01 |
GTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATAC > NC_000913/1097305‑1097597
|
gTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCTTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGCCTGTc < 1:799033/151‑1 (MQ=14)
gggggggctgggccccccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGCCt < 1:381043/133‑1 (MQ=255)
ggCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCCTCGCTCCCCCTGCGGGCAACCCCCTCCCTGCGTTCCCGGCCTGTcc > 2:786976/1‑147 (MQ=11)
ggCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGAGTGACTCGCCTCGCTCGCCCCCCGGGCAGCCCCCTCCCCGCGTTCACGGCCTGTccca > 2:420351/1‑147 (MQ=11)
ggCTTCTCAT‑CCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGAGTGAATCCCCTCGCTCCCCCCGCGGGCAACCCCCTCCCCGCGTTCACGGTCTTTCCCAcc > 1:563221/1‑149 (MQ=11)
gCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGCCTGTCCAACTg < 2:16246/151‑1 (MQ=14)
ttCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCCCTTCGCCCTCCCTCGGGGGAGCCCTCTTAATGCGTTCGCGGCCGGGCCAAccg > 1:964869/1‑147 (MQ=11)
aTCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTACTCCCCTCCCCCGCCCCCCGGGCAACCCCCCCCCTTCGTTCCCGGCCCGTCCCACTgg > 2:1002250/1‑145 (MQ=11)
gtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑Gaa < 2:724423/150‑1 (MQ=11)
gtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑Gaa < 2:565142/150‑1 (MQ=11)
gtgCAATATACGAAAAAAAAGCCCGGTCTGTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑Gaa < 2:229339/150‑1 (MQ=2)
tgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGAATCGCTTCGCTCGCCCCGCGGGGCGCCCCCTCCCTGCGTTTACCGGCTGTCCAACTGGCTTTCGCCCGTTTTC‑GAAcc > 2:838476/1‑151 (MQ=11)
gCAATATACGAAAAAAAAGCCCGTACTTTCGTATGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCCCGCCCTGCGGGCAGCCCCCCCACCGCGTTCACGGGCTGTCCAACTGGCTGTCGCCCGGTGTC‑GAAccc > 2:1012801/1‑151 (MQ=11)
gCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTACTCGCTTCCCCCGCCCTGCGGGCAGCCCCCTCCCTGCGGTCACGGCCTGTCCAACTCGCTGTCGCCCGTTGTC‑GAAccc > 1:296483/1‑151 (MQ=11)
atatACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGAATCGCTTTGCTCGCCCCGCGGGCAGCCCCCCCACTGCGTTCACGGCCTGTCCAACCGGCTGTCGCCAGTTGTC‑GAACCCCgg > 2:705862/1‑151 (MQ=11)
taCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTACTCCCCTCCCTCGCCCCGCGGGGAGGCCGGTCGGTGGGGTGCCGGGCCGTCCCACTGGCTGTCGGCAGGTGTCGGAACCCCggc > 1:76993/1‑149 (MQ=2)
cTGCGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGaa < 1:705852/150‑1 (MQ=17)
tGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAcc > 1:196762/1‑151 (MQ=14)
tGCGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGa < 2:551706/148‑1 (MQ=14)
gCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAAcc < 2:491156/150‑1 (MQ=33)
gCGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGTTCggaacc > 1:1103129/1‑146 (MQ=9)
cGTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAAcccc < 2:27504/151‑1 (MQ=25)
gTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTC‑GACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAAccccc < 1:415976/151‑1 (MQ=14)
gTTCACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAAccccc > 2:649558/1‑151 (MQ=25)
cACGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGa < 2:348899/150‑1 (MQ=38)
cGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATa < 2:76994/150‑1 (MQ=255)
cGGCCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATAc < 2:1048029/151‑1 (MQ=255)
|
GTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTC‑GAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATAC > NC_000913/1097305‑1097597
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
