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 |
|
A21 F5 I0 R1
|
24 |
41.2 |
1474486 |
89.7% |
1322613 |
148.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
4,295,976 |
C→T |
14.8% |
intergenic (+266/+376) |
gltP → / ← yjcO |
glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_pae_tpiA | 4,295,976 | 0 | C | T | 14.8%
| 77.2
/ 6.1
| 51 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base C (20/20); new base T (4/3); total (26/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
GTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCC > NC_000913_3_pae_tpiA/4295828‑4296123
|
gTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCGGATGCGACGCTTAACGCGTCTTATCAGGACTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAAc > 2:670923/1‑149 (MQ=17)
gATAAGGCGTTTATTCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCt < 1:720787/149‑1 (MQ=17)
tAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCCGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGa < 1:169802/149‑1 (MQ=17)
aGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCAGCCGACATCAATGCCGGAtc > 2:479752/1‑148 (MQ=12)
gTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 2:467432/1‑149 (MQ=17)
tATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCt < 1:346339/149‑1 (MQ=17)
tccGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGc < 1:304930/148‑1 (MQ=18)
tcGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAAGGCCTGATGCGACCCTTGcc > 2:660130/2‑149 (MQ=21)
ccGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGcc > 2:40732/1‑149 (MQ=21)
ccGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGCTCGGATAAG‑GCGTTTACGACGCGTCCGAACTCAACGCCGGCTGCGACGCttcca > 2:58215/1‑146 (MQ=11)
cGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCACTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAATCCCTGATGCTACCCGTGCcg > 2:285034/1‑149 (MQ=11)
cGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcg < 1:478046/149‑1 (MQ=35)
cGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcg < 1:477924/149‑1 (MQ=35)
gCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCGGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCAGCCGCCGTCACGGCCTGCTGCGACGCTTGAcgc > 2:636595/1‑149 (MQ=11)
cATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcgcg > 1:95720/1‑149 (MQ=38)
gACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCGAGACAGCGCAATAGGCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCCCATCCGACATCAACGCCTGATGAGGCGCTTGCCGCGTCTTa > 1:647074/1‑149 (MQ=11)
cATCAACGCCTGATGCGACGCTTAACGCGTTTTATCAGTCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATc < 1:380869/149‑1 (MQ=255)
cATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATc > 1:313419/1‑149 (MQ=38)
aaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc > 1:735343/1‑149 (MQ=37)
gCCTGATGCGACGCTGAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAACAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTa < 1:201179/149‑1 (MQ=255)
tGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGATCCACCAC‑CCTCATGCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGc > 1:168112/1‑149 (MQ=11)
gACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACCGCGCAATAGCCTGGTTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGAACTCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACa < 2:488882/149‑1 (MQ=11)
gACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGcaccccg > 2:163354/1‑143 (MQ=255)
gACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTGAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCACCGCCTGCTGCGACGCTTGCCGCGGCTTATCCGGCACACGctcgact > 1:200049/1‑143 (MQ=11)
aCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATa < 1:263450/149‑1 (MQ=39)
aCGCGTCTTAGCAGGCCTACGCCAGACGGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATa < 1:126349/149‑1 (MQ=255)
gaGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGGCGGATAAG‑GCGTTTCCGCCGCATACGGCATCACCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAg < 2:658335/148‑1 (MQ=11)
ggCCGACGGCAGAGAGAGCAAGGGTGTGATTGAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATTCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCg < 2:587042/149‑1 (MQ=11)
tcaCGTCAGACAGATGAATAGCTATATTTGGCGTTATTTTGTAGGGCGGATAAG‑GCGTTTACGCCGCATTCGACATCAAGGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGa < 2:408498/147‑1 (MQ=11)
tACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCTACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCATACAGAGCAATAGCCTGAATTAGTGTGAt > 1:6931/1‑149 (MQ=11)
ccAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCACGCCTATCCCAGCCAGCGGAATAGCTTGATTTAGCGGCATTTTg > 2:366326/1‑149 (MQ=11)
gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAg < 1:518032/149‑1 (MQ=38)
gCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGc < 1:379338/149‑1 (MQ=39)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc < 2:513663/92‑1 (MQ=255)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc > 1:513663/1‑92 (MQ=255)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATCGCCTGATTTAGCGTGATTTTGCGTCTCGAATAAGGCg > 2:296518/1‑149 (MQ=11)
ccTGATTTAGCGTGATTTTGTAGCTTGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGCTTTAGCGTCATTTTGTAGGTCGGATACGGCg > 2:413524/1‑149 (MQ=14)
tcgCGTGATTTTGTAGGTCGGATAAG‑GGGTTTACGGAGCTGCCCGCAGCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGc < 1:503037/147‑1 (MQ=11)
agtgTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGGCATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGcc < 1:278451/146‑1 (MQ=255)
gTGATTTTGTAGGTCGCATAAG‑GCGTTTACGCCGCATCCGCCATCAACGCCTGATGCGACGCTTTCCGCGTCTTATCAGGCCTACGCCAGACAGCGCATTAGCCTGATTTCGCGTGACTTTGTAGGTCGGATACGGCCTTTATGCCGCa > 1:641290/1‑149 (MQ=11)
ggtcgggcGGACAAG‑GCGTTTACGCCCCACCCTACATCAACGCTTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACa < 1:297377/142‑1 (MQ=11)
tggggcGGATAGG‑GCGTTTAGGCCGCAGACGGCGTCAAGGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATc < 2:233031/144‑1 (MQ=11)
gatgTCGGATGCG‑GCGTAAACGCCTTATCCGACCTCAACGCCTGATGCGACGCTTGCCGCGACTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGCTTGTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATc > 1:22408/4‑149 (MQ=11)
gTCGGATAAG‑GCGTTTACTCCGCATCCGACATCAACGCCTGATGCGGCGCTTGCCGCATCTTATCAGGCCTACGCCAGACAGTGCAATAGCCTGATTATGCGTGATTTTCTAGGCGGGATCAGGCCATTCGGCCACATCCCtcatcaca > 2:699595/1‑147 (MQ=11)
tCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCCTCCGACATCCACg > 2:12001/1‑149 (MQ=255)
gTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGAc < 1:704299/149‑1 (MQ=38)
tttACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATGAGTGCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACg > 1:389109/1‑149 (MQ=255)
tttACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACg > 1:709220/1‑149 (MQ=39)
gcATCCGACATCAACGCCTGGTGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAAcgc < 2:95720/149‑1 (MQ=21)
acccGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGt < 1:360387/147‑1 (MQ=25)
aaCGCCTGATGGGACGCTTGGCGGGGCTTATCAGGGCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGc < 2:440667/149‑1 (MQ=11)
aCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACGGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCCTCCGTCATCAACGCCTGATGCGCCGTTTGACGCGTTTTGTCAAGca > 2:164550/1‑148 (MQ=11)
|
GTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAG‑GCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCC > NC_000913_3_pae_tpiA/4295828‑4296123
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
