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 |
|
A1 F2 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,877,816 |
T→C |
pseudogene (408/1482 nt) |
yeaV → |
BCCT family transporter YeaV |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,877,816 | 0 | T | C | 100.0%
| 63.7
/ NA
| 20 | pseudogene (408/1482 nt) | yeaV | BCCT family transporter YeaV |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/8); total (12/8) |
GGCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTTCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCT > NZ_CP009273/1877729‑1877893
|
ggCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCg > 2:390502/1‑90 (MQ=255)
ggCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCg > 2:371222/1‑90 (MQ=255)
ggCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCg > 2:177125/1‑90 (MQ=255)
ttAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCaa < 2:515371/90‑1 (MQ=255)
tAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAg < 1:177125/90‑1 (MQ=255)
tGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCAt > 1:303082/1‑90 (MQ=255)
ttCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTgg > 1:231163/1‑90 (MQ=255)
gCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGAttt < 1:377652/90‑1 (MQ=255)
ggTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATc > 2:407934/1‑90 (MQ=255)
cTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGcc > 1:347815/1‑90 (MQ=255)
tttCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCg > 1:492839/1‑90 (MQ=255)
ttCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCgg < 1:184793/90‑1 (MQ=255)
ggCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGtt > 1:493659/1‑68 (MQ=255)
ggCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGtt < 2:493659/68‑1 (MQ=255)
gCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCAc < 1:45496/90‑1 (MQ=255)
gCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCAc > 2:45496/1‑90 (MQ=255)
gCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCAc < 1:116752/90‑1 (MQ=255)
tattGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGAc > 1:506122/1‑90 (MQ=255)
attGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGAcc < 1:248421/90‑1 (MQ=255)
tATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCt > 2:273281/1‑90 (MQ=255)
|
GGCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTTCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCT > NZ_CP009273/1877729‑1877893
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTTCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCTTG > NZ_CP009273/1877733‑1877895
|
TCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCAT > SRR3722114.306318/1‑100 (MQ=60)
TAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGG < SRR3722114.178885/100‑1 (MQ=60)
GCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGG > SRR3722114.233361/1‑100 (MQ=60)
GCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTG < SRR3722114.382198/100‑1 (MQ=60)
AAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCC > SRR3722114.351800/1‑100 (MQ=60)
GGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCG > SRR3722114.498998/1‑100 (MQ=60)
GAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCctgtctcttata > SRR3722114.499833/1‑88 (MQ=60)
TTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGAC > SRR3722114.512460/1‑100 (MQ=60)
TTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACC < SRR3722114.186613/100‑1 (MQ=60)
GCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTC < SRR3722114.117990/100‑1 (MQ=60)
GCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTC < SRR3722114.45941/100‑1 (MQ=60)
ATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCTTG < SRR3722114.250847/100‑1 (MQ=60)
|
TCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTTCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCTTG > NZ_CP009273/1877733‑1877895
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
