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 F79 I1 R1
|
20 |
28.5 |
998386 |
94.1% |
939481 |
141.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
4,184,269 |
A→C |
T1037P (ACC→CCC) |
rpoB → |
RNA polymerase, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_pae_tpiA | 4,184,269 | 0 | A | C | 96.3%
| 84.6
/ NA
| 27 | T1037P (ACC→CCC) | rpoB | RNA polymerase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base C (14/12); minor base G (1/0); total (15/12) |
| 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 |
GCTCGACAAACTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCACCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATC > NC_000913_3_pae_tpiA/4184124‑4184406
|
gCTCGACAAACTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACCAAATAAGTCGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCcccc > 1:469216/1‑149 (MQ=255)
cTCGACAAACTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCa > 2:330265/1‑149 (MQ=255)
aaaCTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGcga > 1:336345/1‑149 (MQ=255)
aCTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTTGCTGGGCAGTATGACGAACTGAAACACGAGATCGAGAAGAAACTCGAAGCGAACAGCCGCAAAATCCCCCAGGGcgacg > 2:95373/1‑149 (MQ=255)
aCTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTGCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGcgacg > 1:200910/1‑149 (MQ=255)
gCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATc < 2:342414/149‑1 (MQ=255)
tCGCTGGCTGGAGCTGGGCCTGAAAGACGAAGAGAAACAAAATCAGCTGGCACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCgg < 1:332245/149‑1 (MQ=255)
tggAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTg > 1:14900/1‑149 (MQ=255)
gAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGaa < 1:330265/149‑1 (MQ=255)
gCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGa > 1:330930/1‑149 (MQ=255)
ggCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCgg > 1:109424/1‑133 (MQ=255)
ggCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCgg < 2:109424/133‑1 (MQ=255)
tGACAGACGAAGAGAAACAAAATGAGCTGGAACAGCTGGCTGAGCAGGATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAg < 2:21781/149‑1 (MQ=255)
aGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGcga < 1:38047/111‑1 (MQ=255)
aGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGcga > 2:38047/1‑111 (MQ=255)
aCGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCACCGATCTGGCACCGGGCGTGCTGAAGATTGTTACGGTatat > 2:95838/1‑149 (MQ=255)
aaCAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGtt > 1:250151/1‑149 (MQ=255)
tCAGTTGGAACGGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGACCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGcc < 2:469216/149‑1 (MQ=255)
tCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGCAGATTGTTAAGGTATATCTGGCGGTTAAACGcc > 2:202414/1‑149 (MQ=255)
gAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCa < 1:279038/149‑1 (MQ=255)
tGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAg < 2:14900/149‑1 (MQ=255)
tGACGAACTGAAACACAAGTGCGAGAAGTAACTCGAAGCGAAACGCCGCAAGATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAg < 2:112671/149‑1 (MQ=255)
tGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCGACCAGGGCGACGATCTGGAACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCAc > 1:40278/1‑149 (MQ=255)
cacGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGGTGGCAGGTCGTCACGGTaa > 1:43242/1‑149 (MQ=255)
gTTCGAGAAGAAACTTGAAGCGAAACGCCGCAAAACTCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAgg < 2:40278/149‑1 (MQ=255)
tCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCCCGCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGgt < 2:464200/149‑1 (MQ=255)
tCGAAGCGAAACGCCGCAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAg > 1:212796/1‑149 (MQ=255)
gccgcAAAATCCCCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATc > 1:450944/1‑149 (MQ=255)
|
GCTCGACAAACTGCCGCGCGATCGCTGGCTGGAGCTGGGCCTGACAGACGAAGAGAAACAAAATCAGCTGGAACAGCTGGCTGAGCAGTATGACGAACTGAAACACGAGTTCGAGAAGAAACTCGAAGCGAAACGCCGCAAAATCACCCAGGGCGACGATCTGGCACCGGGCGTGCTGAAGATTGTTAAGGTATATCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATC > NC_000913_3_pae_tpiA/4184124‑4184406
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
