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 |
|
A0 F0 I1 R1
|
31 |
30.9 |
1275452 |
97.8% |
1247392 |
117.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,271,600 |
(C)5→6 |
coding (171/1146 nt) |
garK ← |
glycerate kinase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,271,595 | 1 | . | C | 85.7%
| 41.4
/ 0.9
| 14 | coding (176/1146 nt) | garK | glycerate kinase I |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base C (6/6); total (6/8) |
| Fisher's exact test for biased strand distribution p-value = 4.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCGTTTTTCCGCAGGTACCAGCTCCAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑CCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAACGTACTGTGCATCAGGAAAAATTTCCCGAAATCCTTTTTCTATCGCCTGC > NC_000913/3271458‑3271711
|
cgcgTTTTTCCGCAGGTACCAGCTCCAGCCCACTGGCCGCCGCCATTTCAATAAACGCTGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑c < 2:74326/139‑1 (MQ=255)
gcgTTTTTCCGCAGGTACCAGCTCCAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑cc < 2:86317/139‑1 (MQ=255)
tttttCCGCAGGTACCAGCTCCAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑ccc‑c‑c < 2:559278/139‑1 (MQ=255)
tCCGCAGGTACCAGCTCCAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGACGTGACGTTCAG‑ccc‑c‑cctgg > 2:474714/1‑135 (MQ=255)
cAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCATTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAg < 2:392025/113‑1 (MQ=255)
cAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAg > 1:392025/1‑113 (MQ=255)
cAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGc > 2:213408/1‑139 (MQ=255)
cTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCAcc > 1:156773/1‑139 (MQ=255)
gccgccgccATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAatcat < 2:103644/126‑1 (MQ=255)
gccgccgccATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAatcat > 1:103644/1‑126 (MQ=255)
cgccATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑ccc‑c‑cctggg < 1:398776/108‑6 (MQ=255)
cgccATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑ccc‑c‑cctggg > 2:398776/1‑103 (MQ=255)
aaCGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCa < 1:69477/139‑1 (MQ=255)
cgcgGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAAc < 1:327565/139‑1 (MQ=255)
ttttGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGaa < 1:63542/139‑1 (MQ=255)
ttctGCCATCGCCCGAGACGCCCCACCTGGCATTCACTCTCTCCCCGAGCGGACCTGTACTCCACACCTGACGTTCAG‑CCCGC‑CTGGGTGGCTGCAATCCTGGCTTCCACAGGGCCTTCGCCACCGTCGGCAACCGGaa < 2:409773/136‑1 (MQ=255)
tGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAg > 2:116450/1‑139 (MQ=255)
aCTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑CCC‑CGCTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAACGTACTGTGCATCAGGAAAAATTTCCCGa < 2:156773/139‑1 (MQ=255)
tctcGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAACGTACTGTGCATCAGGAAAAATTTCCCGAAATc > 2:324104/1‑139 (MQ=255)
gTAACCCAGGCGTGACGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAACGTACTGTGCATCAGGAAAAATTTCCCGAAATCCTTTTTCTATCGCCTgc < 1:116450/139‑1 (MQ=255)
aCGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAAc > 2:600965/1‑76 (MQ=255)
aCGTTCAGCCCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAAc < 1:600965/76‑1 (MQ=255)
|
CGCGTTTTTCCGCAGGTACCAGCTCCAGCCCACTGGCCGCCGCCATTTCAATAAACGCGGTTTTGCCATCGCCGGAGATCCCCCAACTGGCATTCACTTTCTCGCCCAGCGGCCCTGTAACCCAGGCGTGACGTTCAG‑CCC‑C‑CTGGGTGGCTGCAATCATCGCTTCCACCGTTCCTTCGCCACCGTCGGCAACCGGAACAGAAACGTACTGTGCATCAGGAAAAATTTCCCGAAATCCTTTTTCTATCGCCTGC > NC_000913/3271458‑3271711
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
