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 |
|
A0 F0 I1 R1
|
16 |
48.9 |
1703346 |
91.6% |
1560264 |
146.2 |
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 | 96.9%
| 79.9
/ ‑3.7
| 32 | intergenic (+586/+56) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (14/17); total (14/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| * | NC_000913_3_pae_tpiA | 4,296,296 | 2 | . | G | 96.9%
| 78.2
/ ‑3.7
| 32 | intergenic (+586/+56) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (14/17); total (14/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCT > NC_000913_3_pae_tpiA/4296213‑4296434
||
aCGCTTAACGCGTCTGATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGt > 1:763793/1‑149 (MQ=255)
ttAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGt > 1:160131/1‑149 (MQ=255)
ggcgTCTATTCAGGTCAACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTCGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATCCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAAt < 1:561111/148‑1 (MQ=11)
cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTc < 2:114888/149‑1 (MQ=255)
ttATCAAGCCTACGCCAGACAGCGCAATGGCCTGATTTATCGTGATTTTGTAGCTCGGATAAGGCGTGTACGCCG‑‑CATCCGAAATCAATGCCTGATGCGACGCTTGCCCCGTCTTATCAGGCCTATCTTAAACGTCGTTTACTTTTTCa > 2:208457/1‑149 (MQ=11)
aTCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa < 1:267184/149‑1 (MQ=255)
tcaCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTca < 1:264381/147‑1 (MQ=255)
cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCttta > 2:789837/1‑147 (MQ=255)
gcAATAGCCTGATTTAGCGTGATGTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa < 2:444408/149‑1 (MQ=255)
aGCCTGATTTAGCGTGATTTTTTAGGTCGGATCAGGCGTTTACGCCG‑‑CATCCGATATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt < 2:581245/149‑1 (MQ=18)
cagtgtttAGCGTTATTTGGTAGGGCGGATAGGGGGTTTACGCCG‑‑CATCCGGCATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTcc < 2:113451/144‑1 (MQ=21)
cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa < 2:160131/149‑1 (MQ=255)
gATTTAGCGAGATTTTGTAGCTCGCATACGCCGTTTA‑‑CCGCTCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATa < 2:465616/149‑1 (MQ=25)
aTTTTGCTTGATTTTGGAGGCCGGATAAGGTGTTTACGCCG‑‑CATCCGACATCAAAGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATAc < 2:642303/149‑1 (MQ=21)
tttAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGTCTATCGTAACCTTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACa < 2:393376/149‑1 (MQ=21)
ttAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAg < 1:445197/149‑1 (MQ=255)
cGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCa < 1:181065/149‑1 (MQ=255)
cGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCa > 1:782001/1‑149 (MQ=255)
gTGATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTCTCAAACCCTTCCATACAACTCAg > 2:654466/1‑149 (MQ=21)
gATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt > 1:847939/1‑149 (MQ=255)
gATTTTGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt < 2:250066/149‑1 (MQ=255)
gATTTGGTGGGTGGGATACGGCGTTTACGCCT‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt < 2:165208/149‑1 (MQ=25)
ttttGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGCCGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCCAACCCTTCCATACAGCTCAGGTTc > 2:151818/1‑149 (MQ=25)
ttttGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTaa > 2:244527/1‑86 (MQ=1)
ttttGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTaa < 1:244527/86‑1 (MQ=1)
ttttGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTc > 2:316587/1‑149 (MQ=255)
ttGTAGGTCGGATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCaa < 1:87195/149‑1 (MQ=255)
ggATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGGCTGATGGGACGCTGGCCGCGTCTTGTCAGGCCTGTCTTAGCCGGTGGTTAATTTTTCAAACTCTTCACACCCGGTAGAACAACCGTCCAAACCGCGCAGGTTAAACCAGtcacg > 2:73969/1‑145 (MQ=12)
gATAAGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGCTGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTCACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACACCTCAGGTTCAACCAGtatagc > 1:455434/1‑144 (MQ=25)
aGGCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACAGTTGGTTAATTTTTCAAACTCTTCAACACCGGTATCACACCCTTACATACAGCTCAGGTTCAACCAGTACacagagt > 2:511213/1‑143 (MQ=21)
ggCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTg > 2:205925/1‑75 (MQ=14)
ggCGTTTACGCCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTg < 1:205925/75‑1 (MQ=14)
||
ACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCG‑‑CATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCT > NC_000913_3_pae_tpiA/4296213‑4296434
|
| 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
