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 F1 I1 R1
|
82 |
28.6 |
1225488 |
97.4% |
1193625 |
116.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,927,241 |
(C)6→7 |
coding (1599/2061 nt) |
ptrB ← |
protease II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,927,235 | 1 | . | C | 96.0%
| 87.2
/ NA
| 25 | G535G (GGC→GGG) | ptrB | protease II |
| Reads supporting (aligned to +/- strand): ref base . (0/0); major base C (12/12); minor base A (1/0); total (13/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATG‑CCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATAATCATTAAACGTATTTTTCTTCTT > NC_000913/1927114‑1927342
|
cACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGc > 2:217308/1‑139 (MQ=255)
ggTAAGAGGAATTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGc > 1:369045/1‑139 (MQ=255)
tAAGAGGAATTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCAt < 2:64389/139‑1 (MQ=255)
aaTTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAg > 2:136645/1‑139 (MQ=255)
aaTTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAg > 1:72274/1‑139 (MQ=255)
ttGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCg > 1:598021/1‑139 (MQ=255)
aGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCa < 1:217308/139‑1 (MQ=255)
cGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGcc < 1:505718/139‑1 (MQ=255)
gttgttACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAATATG‑cccccccg > 1:47713/1‑93 (MQ=255)
gttgttACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAATATG‑cccccccg < 2:47713/95‑3 (MQ=255)
gttACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGt < 1:99664/139‑1 (MQ=255)
caTCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACa < 1:273515/139‑1 (MQ=255)
aTCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAg < 2:552139/109‑1 (MQ=255)
aTCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAg > 1:552139/1‑109 (MQ=255)
aacaaACGGTACCTGGGCGATAACGCCGTGGAATAATTACGGGCGTTGATTAATTGCAACGCCCATCAACATGACCCCCCGCCCTCCCGCCCATCGCATAACAAAGCGAAGGAGCGCCATAGCCTAGTTTTAACAATGc > 1:24247/1‑139 (MQ=255)
cGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAATTTTAACAATGCATCGCa < 1:340034/139‑1 (MQ=255)
tACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACaa < 2:347402/127‑1 (MQ=255)
tACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACaa > 1:347402/1‑127 (MQ=255)
cTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATG‑cccccccg > 1:276110/1‑67 (MQ=255)
cTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATG‑cccccccg < 2:276110/69‑3 (MQ=255)
gggCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGc > 2:581183/1‑109 (MQ=255)
gggCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGc < 1:581183/109‑1 (MQ=255)
ggCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGt > 2:434864/1‑113 (MQ=255)
ggCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGt < 1:434864/113‑1 (MQ=255)
ggCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATG‑cc > 1:591310/1‑60 (MQ=255)
ggCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATG‑cc < 2:591310/60‑1 (MQ=255)
gATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATa < 2:72274/139‑1 (MQ=255)
aTAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATaa > 1:66593/1‑139 (MQ=255)
aaCGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATAATc > 2:596333/1‑139 (MQ=255)
ccGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATAATCATTa > 1:261943/1‑139 (MQ=255)
gCGTTGATTAATTGCAACGCCCATCAACATGCCCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATAATCATTAAACGTATTTttcttctt < 2:369045/139‑1 (MQ=255)
|
CACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTACAACATCAACAAACGGTACCTGGGCGATAACGCCGTGGAATAATTCCGGGCGTTGATTAATTGCAACGCCCATCAACATG‑CCCCCCGCACTCCCGCCCATCGCATAACAAAGCGAAGGAGAGCCATAGCCCAGTTTTAACAATGCATCGCAGGCATCAAGATAATCATTAAACGTATTTTTCTTCTT > NC_000913/1927114‑1927342
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
