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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,787,923 |
+C |
intergenic (+165/‑55) |
cafA2 → / → moaA1 |
Ribonuclease G and E/molybdopterin biosynthesis protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,787,920 | 1 | . | C | 100.0%
| 42.3
/ NA
| 13 | intergenic (+162/‑58) | cafA2/moaA1 | Ribonuclease G and E/molybdopterin biosynthesis protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (7/6); total (7/6) |
GGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGC > AM260479/2787793‑2788038
|
ggACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑cccct > 1:105262/1‑131 (MQ=255)
tttttCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGc > 1:450516/1‑134 (MQ=255)
aCCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGcccac > 1:818585/1‑98 (MQ=255)
aCCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGcccac < 2:818585/98‑1 (MQ=255)
ccGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGAcc < 2:930613/134‑1 (MQ=255)
ggCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGa > 2:989782/1‑134 (MQ=255)
ggCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGa > 2:989783/1‑134 (MQ=255)
agAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGcccacc > 1:230651/1‑73 (MQ=255)
agAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGcccacc < 2:230651/73‑1 (MQ=255)
agAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGa < 1:715173/85‑1 (MQ=255)
agAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGa > 2:715173/1‑85 (MQ=255)
tCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAg > 1:611985/1‑70 (MQ=255)
tCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAg < 2:611985/70‑1 (MQ=255)
tCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATGCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGc < 2:3268/134‑1 (MQ=255)
|
GGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGC > AM260479/2787793‑2788038
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGC > AM260479/2787778‑2788038
|
GCCAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCctg > GWNJ‑0478:712:GW2002102894th:2:1106:8437:56428/1‑146 (MQ=60)
gtgtctcgtgggctcggagatgtgtataagagacagTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATT < GWNJ‑0478:712:GW2002102894th:2:2215:6702:89108/114‑1 (MQ=60)
CAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATT < GWNJ‑0478:712:GW2002102894th:2:2203:2743:87695/150‑1 (MQ=60)
AGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGG > GWNJ‑0478:712:GW2002102894th:2:2208:18312:26279/1‑150 (MQ=60)
GCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCC > GWNJ‑0478:712:GW2002102894th:2:1211:16955:95212/1‑150 (MQ=60)
ttcctggagccttgcgggtttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagcCCCTGATTTGGCCACGCAGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCAC < GWNJ‑0478:712:GW2002102894th:2:1216:13206:33807/52‑1 (MQ=60)
gttgttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGC < GWNJ‑0478:712:GW2002102894th:2:2204:4133:38215/69‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTC < GWNJ‑0478:712:GW2002102894th:2:2109:12488:40993/115‑1 (MQ=60)
GGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:2115:10541:62460/1‑128 (MQ=60)
GGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGACGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGctgtctcttatacacatctccgagcccacgagacactcgctaatctc > GWNJ‑0478:712:GW2002102894th:2:1115:13510:35729/1‑103 (MQ=60)
TGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:2102:7224:40186/1‑100 (MQ=60)
|
GCCAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGC > AM260479/2787778‑2788038
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
