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 |
|
A24 F21 I1 R1
|
17 |
36.5 |
1286766 |
92.7% |
1192832 |
143.7 |
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 | 97.0%
| 100.0
/ ‑4.8
| 33 | L179L (CTG→TTG) | yiiQ | DUF1454 family putative periplasmic protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (19/13); minor base T (0/1); total (19/14) |
| Fisher's exact test for biased strand distribution p-value = 4.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
AAAGGAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAGCCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGC > NC_000913_3_pae_tpiA/4111451‑4111736
|
aaaGGAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGAAACTGTATCGGGGTTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAAccc < 2:458790/149‑1 (MQ=255)
ggCCGCCCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCg < 1:520950/149‑1 (MQ=255)
tagCAGGGCAGTAGGTCTGTCAAACTAGATAGAGATTCATCGGCACAAAGGCTGTGCTTGTTGTCATTGATTCAAACCTTCAAGCGATTCAGATAGCGCCTGCTTCATCGTTTCAAAAGCCAAGGTCATTCCCTTTTCGCCGTTTTCcg < 2:109908/147‑1 (MQ=255)
agcagGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACAt > 1:370418/1‑149 (MQ=255)
agcagGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCAAAGATCAACCCCATATCGCCATTATCCGCGACAACAt > 1:10274/1‑149 (MQ=255)
cTGTGAAACAGTATAGAGATTCATCGGAACAAAGGCTATGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAg < 1:601023/149‑1 (MQ=255)
tgAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTTTTTTTTTTTCAAACCTTCAAGCGCTTCAGATAGCACAAGCTTTATCTGTTCAACAGCGAATGTCAACCCATTTTCGCTGTTCTCCGACACACCATCACGCaatct > 2:192220/1‑145 (MQ=255)
gAAACAGTATAGAGATTCATCGGCACAAAGGCTATGGTGTTGGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCa > 1:316750/1‑149 (MQ=255)
cAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTTTTCAAACCTTCAAGCGATTCAGCTAGCGCCAGCTTAATCGGTTCAACACCAAAGTTCAACCCCTTTTCGCCGTTGTCCGCGACAACATCACGCAACGCACCtt > 2:88530/1‑149 (MQ=255)
aGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTc < 1:238148/149‑1 (MQ=255)
taGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCcgc < 2:333620/121‑1 (MQ=255)
taGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCcgc > 1:333620/1‑121 (MQ=255)
gCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAAc > 2:452472/1‑149 (MQ=255)
gCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAAc > 2:233715/1‑149 (MQ=255)
aaGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACgtttg < 1:415996/149‑1 (MQ=255)
cgcgttggctttTTGTCATTTATTGAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACgtttgt < 1:240151/142‑1 (MQ=255)
gtgttgctttTTGTCATTTATTCAAACCTACGAGCGATTCAGATGGCGCCAACTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACgtttgttt < 2:370418/146‑1 (MQ=255)
gctttgctttTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTTTAATAACatttgttt > 1:299170/1‑149 (MQ=255)
tttgctttTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTc > 1:623040/1‑86 (MQ=255)
tttgctttTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTc < 2:623040/86‑1 (MQ=255)
tCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTta > 2:388650/1‑149 (MQ=255)
aaaCCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTATGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGGCTg > 1:410258/1‑149 (MQ=255)
gATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTg > 2:446673/1‑149 (MQ=255)
aTTCAGATAGCGCCAGTTTAATCGGTTTAACAGCGAAGGTCAACCCTTTTTCGCCGTTTTCCGCTACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTgg < 1:184772/149‑1 (MQ=255)
aTTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTgg < 1:446673/149‑1 (MQ=255)
aGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGGttt > 1:197888/1‑149 (MQ=255)
aGCGCCAGCTTAATCGGTTCAACAGAGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTATTAGCGACTGCAGTTTTTTCTGACTTTgtgt > 2:526401/1‑149 (MQ=255)
cgcCAGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGgtt > 1:236507/1‑149 (MQ=255)
aGCTTAATCGGTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCACGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGt > 1:593593/1‑149 (MQ=255)
gTTCAACAGCGAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATggg < 1:330416/149‑1 (MQ=255)
gTTCAACAGCGAAGGTCAACCCCTTTCCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATggg < 1:68183/149‑1 (MQ=255)
aCAGCGAAGGTCAACCCCTTTTCGCCGTTATCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCACCGCCCTTCGCAGCTGCTTCAGTTTTTTCTGGCTTTGTGCTTTGTTCCTTAAGGGGATGAg > 2:394471/1‑149 (MQ=255)
gAAGGTCAACCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTTATTAATGGGGTGAAAGTGc > 1:439175/1‑149 (MQ=255)
|
AAAGGAAGATGGCCGCCCCGCAGGGCAGCAGGTCTGTGAAACAGTATAGAGATTCATCGGCACAAAGGCTTTGCTTTTTGTCATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTCAACAGCGAAGGTCAGCCCCTTTTCGCCGTTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGC > NC_000913_3_pae_tpiA/4111451‑4111736
|
| 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
