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 F1 I1 R1
|
770 |
51.4 |
2439994 |
93.8% |
2288714 |
110.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,977,529 |
A→G |
C106R (TGC→CGC) |
flhC ← |
flagellar class II regulon transcriptional activator, with FlhD |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,977,529 | 0 | A | G | 100.0%
| 143.3
/ NA
| 41 | C106R (TGC→CGC) | flhC | flagellar class II regulon transcriptional activator, with FlhD |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (20/21); total (20/21) |
TGGGTAATAAAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCACTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCATGAACGTTTTGTTCCCAGGTCATAAACC > NC_000913/1977405‑1977657
|
tGGGTAATAAAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGtt < 2:246103/130‑1 (MQ=255)
tGGGTAATAAAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGtt > 1:246103/1‑130 (MQ=255)
taataaAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCaa < 2:608720/129‑1 (MQ=255)
taataaAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCaa > 1:608720/1‑129 (MQ=255)
ataaAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGt < 2:1101662/139‑1 (MQ=255)
aTTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCt > 2:1132531/1‑139 (MQ=255)
tGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCttt > 2:960879/1‑139 (MQ=255)
gCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCCCGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATGACCGCATCGACGCCa < 1:813464/139‑1 (MQ=255)
tCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGt > 2:433596/1‑88 (MQ=255)
tCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGt < 1:433596/88‑1 (MQ=255)
aCCGCACCAATGTCCAGGAACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTCATCGCCGCATCGACGCCATTACACAATCCGGTTTTCAGTAAAAACTGCCa < 1:977232/139‑1 (MQ=255)
ccGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAg < 1:851406/69‑1 (MQ=255)
ccGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAg > 2:851406/1‑69 (MQ=255)
cAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTa < 1:1132531/139‑1 (MQ=255)
gCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGtt > 2:807101/1‑49 (MQ=255)
gCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGtt < 1:807101/49‑1 (MQ=255)
ggTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCaa < 2:832863/47‑1 (MQ=255)
ggTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCaa > 1:832863/1‑47 (MQ=255)
ggTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCa > 2:776984/1‑139 (MQ=255)
aTGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATg > 1:476255/1‑114 (MQ=255)
aTGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATg < 2:476255/114‑1 (MQ=255)
gcagTGGTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCATGAACGTTTTg > 2:508709/1‑139 (MQ=255)
ggTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTa > 1:1194234/1‑108 (MQ=255)
ggTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTa < 2:1194234/108‑1 (MQ=255)
ggTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCATGAACGTTTTGTTccc < 1:776984/139‑1 (MQ=255)
ggTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCATGAACGTTTTGTTccc < 2:322870/139‑1 (MQ=255)
ggTCCTTCTTCTGCTTGTGGGCGCTGTGCAAGCTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTa > 1:725436/1‑108 (MQ=255)
ggTCCTTCTTCTGCTTATGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTa < 2:725436/108‑1 (MQ=255)
gTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAGCCGGTTTTCAGTAAAAACTGcc > 1:872331/1‑99 (MQ=255)
gTCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGcc < 2:872331/99‑1 (MQ=255)
tCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATg > 1:708217/1‑101 (MQ=255)
tCCTTCTTCTGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATg < 2:708217/101‑1 (MQ=255)
ttctGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGa > 2:425181/1‑56 (MQ=255)
ttctGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGa < 1:425181/56‑1 (MQ=255)
tGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCa > 1:629041/1‑94 (MQ=255)
tGCTTGTGGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCa < 2:629041/94‑1 (MQ=255)
gCTTGTAGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCATGAACGTTTTGTTCCCAGGTCATAAAcc > 1:10347/1‑139 (MQ=255)
gtgGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATg > 2:207311/1‑87 (MQ=255)
gtgGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATg < 1:207311/87‑1 (MQ=255)
tgGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGa < 1:1169434/47‑1 (MQ=255)
tgGGCGCTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGa > 2:1169434/1‑47 (MQ=255)
|
TGGGTAATAAAATTGCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCACTTTCAACAAACCGCACCAATGTCCAGGCACGGGTTAATGCCAGCAGTGGTCCTTCTTCTGCTTGTGGGCACTGTTCAAGGTATAAACGGTAGGCTTTGATCACCGCATCGACGCCATTACACAAACCGGTTTTCAGTAAAAACTGCCATGCATTACAGAACATCGAAGCATGAACGTTTTGTTCCCAGGTCATAAACC > NC_000913/1977405‑1977657
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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
