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 |
|
A23 F6 I1 R1
|
16 |
59.9 |
2107472 |
93.9% |
1978916 |
143.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
4,296,297 |
+GC |
intergenic (+587/+55) |
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 | 4,296,296 | 1 | . | C | 93.8%
| 124.3
/ 2.3
| 50 | intergenic (+586/+56) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base C (16/29); total (17/33) |
| Fisher's exact test for biased strand distribution p-value = 5.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
| * | NC_000913_3_pae_tpiA | 4,296,296 | 2 | . | G | 94.0%
| 141.1
/ 2.4
| 50 | intergenic (+586/+56) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base G (17/30); total (17/33) |
| Fisher's exact test for biased strand distribution p-value = 5.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑A‑‑C‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCG > NC_000913_3_pae_tpiA/4296212‑4296431
||
gACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATTCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCg > 2:982887/1‑149 (MQ=255)
gACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCg > 2:605852/1‑149 (MQ=12)
gCTTAAAGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTg > 2:444637/1‑149 (MQ=255)
tgaaCGCGTTTTCTCAGGCTTACGCTAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGt < 2:294630/147‑1 (MQ=11)
aCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGCTTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGttga > 1:426274/1‑147 (MQ=11)
tttATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTc < 1:985678/148‑1 (MQ=255)
cTTATCAGGCCTACGGCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTc < 1:632319/149‑1 (MQ=255)
cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTc > 1:1004540/1‑149 (MQ=255)
ttATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCa < 1:81205/149‑1 (MQ=255)
gtATCAGGGCTACGCCAGACAGCGCAAGAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCa < 2:223129/148‑1 (MQ=14)
aTCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa < 1:677737/149‑1 (MQ=255)
aGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAActc > 1:907197/1‑149 (MQ=255)
ccgaCGCCAGACAGCGCAGTGGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTc < 2:783109/146‑1 (MQ=17)
cTACACCAGACAGTGCCATAGCCTGATTTAGCGTTATTTTGTAGGTCCGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAAGGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTGACCGTTGGTTAATTTTTCAAACTCTTca < 1:1006343/149‑1 (MQ=14)
cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCacac < 1:605852/149‑1 (MQ=255)
ccAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGAAATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAccc > 2:785803/1‑149 (MQ=255)
aGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCgg > 2:998706/1‑149 (MQ=255)
agagcAATAGCATGACTGAGCGTGATTTTGTGGGTCGGATAAGGCGT‑TTCCG‑‑C‑C‑GCATGCGACATCAATGCCTGATGCGACGCTTGCCGCCTCTTATTAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATc < 2:174692/146‑1 (MQ=18)
gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑A‑‑CGCAGCATCATGCATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa < 1:770926/149‑1 (MQ=18)
cAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAc > 1:256360/1‑149 (MQ=255)
aaTAGCCGGATTGAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑ACATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGAATCAAAcc < 2:179268/149‑1 (MQ=18)
aTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAccc < 2:686799/149‑1 (MQ=255)
gCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTc < 1:444637/149‑1 (MQ=255)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTcc > 1:68519/1‑149 (MQ=255)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTcc < 1:150702/149‑1 (MQ=255)
ccTGATTTAGCGTGATTCTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTcc < 1:878262/149‑1 (MQ=255)
cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa < 1:150550/149‑1 (MQ=255)
cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa < 1:838317/149‑1 (MQ=255)
cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCAACCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa > 2:768449/1‑149 (MQ=255)
gATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATa < 2:335351/149‑1 (MQ=255)
gATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATa < 2:185286/149‑1 (MQ=255)
aTTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ATGC‑C‑GCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATAc > 2:577325/1‑149 (MQ=255)
tttAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ATGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACa < 2:329999/149‑1 (MQ=255)
ttAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAg < 2:703944/149‑1 (MQ=255)
ttAGCGTGATGTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAg < 1:715312/149‑1 (MQ=255)
gTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAg < 1:642955/149‑1 (MQ=255)
gTGATTTTGTAGGGCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAg < 1:327656/149‑1 (MQ=255)
tGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAgg < 2:147952/149‑1 (MQ=255)
tGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATGTTAACCGTTGGTTAAttt > 1:397358/1‑103 (MQ=11)
tGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAAttt < 2:397358/103‑1 (MQ=11)
gATTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt < 1:280078/149‑1 (MQ=255)
gATTTTGTAGGTCGCATAAGGAGTATTC‑G‑‑C‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt < 1:765741/149‑1 (MQ=25)
aTTTTGTAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGtt < 2:242309/149‑1 (MQ=255)
tAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTCACCGTTGGTTAATTTTTCAAACTTTTCATTCTCGGTATCAAACCCTTCCATACAGCTCAGGTTCAATCa > 1:899684/1‑149 (MQ=21)
tAGGTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGCATCAAACCCTTCCATACAGCTCAGCTTCAACCa > 1:128902/1‑149 (MQ=25)
ggTCGGATAAGGCGT‑CT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGt < 2:300247/149‑1 (MQ=255)
gTCGGATAAGGGGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCCTTCAGCTTAGGTTTACCCAATg > 1:171333/1‑149 (MQ=21)
gTCGGATAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATTGGAGGCTTGCCGCGTCTTATCAGGCCTCTCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCACACCCTTCCATACATCTCCGGTTCAACCAGTg > 2:173581/1‑149 (MQ=25)
cGGATCCGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCa < 1:418294/149‑1 (MQ=37)
aTAAGGCGT‑TT‑‑ACGC‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAgcg < 2:156378/149‑1 (MQ=255)
||
GACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT‑TT‑‑A‑‑C‑C‑GCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCG > NC_000913_3_pae_tpiA/4296212‑4296431
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
