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 |
|
A15 F3 I1 R1
|
17 |
41.7 |
1441332 |
93.3% |
1344762 |
144.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
4,111,596 |
G→A |
L179L (CTG→TTG) |
yiiQ ← |
DUF1454 family putative periplasmic protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_pae_tpiA | 4,111,596 | 0 | G | A | 94.4%
| 110.9
/ NA
| 36 | L179L (CTG→TTG) | yiiQ | DUF1454 family putative periplasmic protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (22/12); minor base T (0/2); total (22/14) |
| Fisher's exact test for biased strand distribution p-value = 1.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAAAGGAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAGCCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGC > NC_000913_3_pae_tpiA/4111450‑4111736
|
tAAAGGAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGCAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAAcc > 1:27649/1‑149 (MQ=255)
gAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACGGCGAAGGTCAACCCCttt > 1:223099/1‑149 (MQ=255)
cgccCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTg > 2:607064/1‑149 (MQ=255)
cGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCAAAGGTCAACCCCTTTTCGCCGTTGTcctc > 1:619526/1‑147 (MQ=255)
agcagGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACAt < 2:348424/149‑1 (MQ=255)
ggTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACg < 2:710946/149‑1 (MQ=255)
tgtgAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGt > 1:688738/1‑149 (MQ=255)
tgAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGc > 1:699708/1‑149 (MQ=255)
aaaCAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑CTCAGATCGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCTTTGTCCGCGACAACATAACGCAGTgacc > 2:254840/1‑146 (MQ=255)
aCAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCt > 2:614549/1‑149 (MQ=255)
cAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCtt < 1:159126/149‑1 (MQ=255)
ataGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGt < 1:481772/149‑1 (MQ=255)
gagaTTCATTGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGtctc > 2:434923/1‑149 (MQ=255)
tccactgCACATAGGCATTCCTTGTTATCATTTATTTGCTTTTTCAAGCGA‑TTTCGATACCTCCAGCTATTTCGATGGCACCACGCAGGTCGACCCCTTCGCGCCGGTGTCCGCGACAACAGAACGCAGTGCACCTTCTGTATCGgtgt < 2:551388/143‑1 (MQ=255)
tCGGCACAAAGGCTGTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCTGTGtatt > 2:401219/1‑147 (MQ=255)
gCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAAc > 1:508092/1‑149 (MQ=255)
acaAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACgt > 1:312967/1‑149 (MQ=255)
tttgctttTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGttttt > 2:17578/1‑149 (MQ=255)
ttGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCccgccg < 1:434923/149‑1 (MQ=255)
tATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCACCGCCGTTAGTAGc > 1:489609/1‑149 (MQ=255)
ttCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCCCCGTTAGGAGCGa > 1:224682/1‑149 (MQ=255)
aCCTTCAA‑CGACTTCCGTTAGCTCCAGCTAAATCTGTTCAATCGGGAAGGTCATCCACTTTTCGCGGTTGTCCGAGACAACATAACGAAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCa < 2:312967/149‑1 (MQ=255)
aCCCTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCa < 1:451822/149‑1 (MQ=255)
cTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTCATAACGTTTGGTTTTCCCCGCCGTTAGTAGCGACTGCAGt > 1:319331/1‑149 (MQ=255)
cccAAACGA‑TCCAGATCGCGCCAGCTAAATCGGTTCAACAGCTAAGCTCATCCCCTTTTCGCCGTTGTCCGCAAAAACATACCGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGtt < 2:508092/147‑1 (MQ=255)
aaGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGttttt > 2:390071/1‑149 (MQ=255)
aaGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACACCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCAACTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACGGCAGttttt > 1:603100/1‑149 (MQ=255)
gA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTg < 1:614549/149‑1 (MQ=255)
a‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATGCGGTTTGTTTTTCCCCGCCGGTAGTGGGGACTGCCGTGTTTTCAgg > 1:689461/1‑149 (MQ=255)
tAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTtgtg < 1:607064/149‑1 (MQ=255)
cAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTgg > 1:614568/1‑149 (MQ=255)
gtgcAACAGCAAAGATCAACCCCGTCTCGCCGGTGTTGGCTACAATAAAACGCTGTGACCCTTCTGTCACGGTGTAATCACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATggg < 2:27649/146‑1 (MQ=255)
gTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCAACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATggg < 1:17578/149‑1 (MQ=255)
ttaaCAGCGAAGGCCAACCCCTATGCGCCATGGTCCGAGATTACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGt < 2:393157/147‑1 (MQ=255)
aCAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACCACATAACGCAATGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTACCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTgcg > 2:64997/1‑147 (MQ=255)
gAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGc > 1:377570/1‑149 (MQ=255)
|
TAAAGGAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGA‑TTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAGCCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGC > NC_000913_3_pae_tpiA/4111450‑4111736
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
