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 F1 I1 R1
|
16 |
43.9 |
3070277 |
96.2% |
2953606 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,160,666 |
T→G |
intergenic (+130/‑190) |
rplL → / → rpoB |
50S ribosomal protein L7/L12/DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,160,666 | 0 | T | G | 93.3%
| 173.7
/ ‑1.9
| 45 | intergenic (+130/‑190) | rplL/rpoB | 50S ribosomal protein L7/L12/DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base T (2/1); new base G (22/20); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
ACCAGCCTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCTTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGAAATGGTTTAAG > REL606/4160595‑4160738
|
cncNGCCTTTNTGCGCTGTAAGGCGCCAGTAGCGTATCACACTNTATGACTACTGCTATNCCTTTCACTGCGTGtt < 1:112372/74‑1 (MQ=255)
ccgaGCCTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGtt < 2:885255/73‑1 (MQ=255)
cAGCCTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCTTGTTTc < 2:1367839/76‑1 (MQ=255)
gcccTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCt < 1:710439/74‑1 (MQ=255)
aGCCTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATTCGTGTTTCt > 1:43896/1‑76 (MQ=255)
cTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATc > 2:900763/1‑76 (MQ=255)
cTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATc > 2:501979/1‑76 (MQ=255)
tttttGCGCTGTAAGGCACCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATcg > 2:481154/1‑76 (MQ=255)
tttGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATcgac > 1:561314/1‑76 (MQ=255)
ttGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATcgacg > 2:61708/1‑76 (MQ=255)
tGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATcgacga > 1:611200/1‑76 (MQ=255)
gTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAat < 1:1224871/76‑1 (MQ=255)
tAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCTTGTTTCTATCGACGACTTAata > 1:385089/1‑76 (MQ=255)
tAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAata > 2:371205/1‑76 (MQ=255)
aGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAAtata > 2:1333873/1‑76 (MQ=255)
gcNAGTCGCGTCTCACACTGTTTGAGTACTGCTGTGCCTTTCAATGCGTGTTTCTATCTACGACTTAATATTCTGc < 2:1442482/76‑1 (MQ=255)
gcCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGc < 1:308969/76‑1 (MQ=255)
cAGTAGCGTTTCACACTGTTTGACTACTGCAGTGCCTTTCAATGCGTGTTTCTATCGACGACNTAATATACTGCGa > 2:1401539/1‑76 (MQ=255)
aGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGAc > 1:615870/1‑76 (MQ=255)
tAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAg > 1:1273279/1‑76 (MQ=255)
gTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATNCGTGTTTACANCGCCAACTTAATATACTGCGCCANGACg > 1:175403/1‑76 (MQ=255)
gTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCTTGTTTCTATCGACGACTTAATATACTGCGACAGGACg > 1:1040401/1‑76 (MQ=255)
gTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACg > 1:1040391/1‑76 (MQ=255)
tttCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGt > 2:144819/1‑76 (MQ=255)
tttCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGt > 1:1005276/1‑76 (MQ=255)
tttCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGt > 2:1091698/1‑76 (MQ=255)
tCACACTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATAAACTGCGACAGGACGTcc > 2:1075065/1‑76 (MQ=255)
cacaCTGTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTNTCGACGACTTAATATACTGCGACAGGACGTCCg < 2:1295857/76‑1 (MQ=255)
cacaCTGTTTGACTACTGCTGTGCCTTTCAACGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCg < 2:245317/76‑1 (MQ=255)
gTTTGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACNACTTAATATACTGCGACAGGACGTCCGTTCtgt < 2:1304262/76‑1 (MQ=255)
ttGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTgtgt > 2:1337310/1‑76 (MQ=255)
ttGACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTgtgt > 1:382725/1‑76 (MQ=255)
gACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTaa < 2:936050/76‑1 (MQ=255)
gACTACTGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTaa < 2:478229/76‑1 (MQ=255)
actactGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTaaa > 2:1510790/1‑76 (MQ=255)
ctactGCTGTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAAt < 1:402887/76‑1 (MQ=255)
ctgctgTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATAGACTGCGACAGGACGTCCGTTCTGGGTAAATCGc < 2:1313829/76‑1 (MQ=255)
ctgctgTGCCTTTCAATGCGTGTTTCTATAGACGACATAATATACTGCGACAGGACGNCCGTTCTGTGTAAATCGc < 1:1454175/76‑1 (MQ=255)
tgctgTGCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCa < 1:501980/76‑1 (MQ=255)
gtgCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGa > 1:1496580/1‑76 (MQ=255)
tgCCTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGaa < 1:1194136/76‑1 (MQ=255)
ccTTTCAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGAAAt < 2:814386/76‑1 (MQ=255)
cAATGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGAAATGGttt < 1:1091699/76‑1 (MQ=255)
aaTGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGAAATGGTTTa < 1:563604/76‑1 (MQ=255)
tGCGTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGAAATGGTTTAAg < 2:797608/76‑1 (MQ=255)
|
ACCAGCCTTTTTGCGCTGTAAGGCGCCAGTAGCGTTTCACACTGTTTGACTACTGCTGTGCCTTTCAATGCTTGTTTCTATCGACGACTTAATATACTGCGACAGGACGTCCGTTCTGTGTAAATCGCAATGAAATGGTTTAAG > REL606/4160595‑4160738
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
