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 |
|
A12 F1 I1 R1
|
65 |
25.3 |
1027584 |
98.0% |
1007032 |
120.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,467,061 |
C→T |
pseudogene (1670/2513 nt) |
ydbA → |
pseudogene, autotransporter homolog, interrupted by IS2 and IS30 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,467,061 | 0 | C | T | 97.2%
| 117.8
/ NA
| 36 | pseudogene (1670/2513 nt) | ydbA | pseudogene, autotransporter homolog, interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (12/23); minor base G (1/0); total (13/23) |
| Fisher's exact test for biased strand distribution p-value = 3.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGCGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAATACGGGTGATGTTAA > NC_000913/1466929‑1467193
|
tCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATgg < 2:388069/139‑1 (MQ=255)
tCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATgg < 1:404750/139‑1 (MQ=255)
cAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGgt < 2:162026/139‑1 (MQ=255)
acgacgCCACCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGaa > 2:314716/1‑139 (MQ=255)
aCCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCAt < 1:203333/120‑1 (MQ=255)
aCCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCAt > 2:203333/1‑120 (MQ=255)
aCCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTg > 2:218627/1‑139 (MQ=255)
cAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACg > 2:45074/1‑139 (MQ=255)
tGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGtt < 2:28971/139‑1 (MQ=255)
aaCCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTaacaac < 1:94243/139‑1 (MQ=255)
aCTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAg > 2:231731/1‑139 (MQ=255)
aCTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAg > 2:470716/1‑139 (MQ=255)
cTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAgg < 2:218970/139‑1 (MQ=255)
tGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCCTTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGGGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGga > 1:325622/1‑139 (MQ=255)
tGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATAtt < 2:156793/139‑1 (MQ=255)
aTTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTc < 1:314716/139‑1 (MQ=255)
aTTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTc < 2:325622/139‑1 (MQ=255)
gggCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGATAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTg < 1:25653/139‑1 (MQ=255)
gTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAgg > 2:187490/1‑139 (MQ=255)
aaTCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAggggg < 1:470716/139‑1 (MQ=255)
aaTCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAggggg < 1:45074/139‑1 (MQ=255)
aaTCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAggggg < 1:231731/139‑1 (MQ=255)
aaTCTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAggggg < 1:165634/139‑1 (MQ=255)
cTGGATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCaa < 1:218627/139‑1 (MQ=255)
cTGGATGGTAGCCTGACTGTTACAGGCGGTGTACATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCaa < 2:158807/139‑1 (MQ=255)
ggATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACa < 1:186794/139‑1 (MQ=255)
gATGGTAGCGTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAg > 1:512126/1‑139 (MQ=255)
gATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGata < 2:15679/82‑1 (MQ=255)
gATGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGata > 1:15679/1‑82 (MQ=255)
tGGTAGCCTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTa < 2:150277/139‑1 (MQ=255)
ccTGACTGTTACAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAAt > 1:53364/1‑139 (MQ=255)
aCAGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAATACGGGTGATg < 2:316111/139‑1 (MQ=255)
aGGCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAATACGGGTGATGtt < 2:11389/139‑1 (MQ=255)
gCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTaa > 1:73213/1‑46 (MQ=255)
gCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTaa < 2:73213/46‑1 (MQ=255)
gCGGTGTGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAATACGGGTGATGTTaa > 2:231438/1‑139 (MQ=255)
|
TCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGCGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAATACGGGTGATGTTAA > NC_000913/1466929‑1467193
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
