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 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
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%
| 57.5
/ NA
| 16 | intergenic (+162/‑58) | cafA2/moaA1 | Ribonuclease G and E/molybdopterin biosynthesis protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (10/6); total (10/6) |
CACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAG > AM260479/2787800‑2788042
|
cACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGc > 2:546783/1‑134 (MQ=255)
ttttCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAgg < 2:174726/132‑1 (MQ=255)
aGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGAc < 1:546783/134‑1 (MQ=255)
cggccggATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGcc > 1:892340/1‑134 (MQ=255)
aTGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGccca < 2:892340/134‑1 (MQ=255)
gCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCa > 1:409438/1‑117 (MQ=255)
gCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCa < 2:409438/117‑1 (MQ=255)
tCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGCTTTTCGACCTgcg > 1:868783/1‑133 (MQ=255)
tCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTgcg < 2:868783/133‑1 (MQ=255)
aGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCAt > 2:753582/1‑134 (MQ=255)
gAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCAt < 1:753582/133‑1 (MQ=255)
agAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTc > 1:240337/1‑134 (MQ=255)
gAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTc > 2:920187/1‑133 (MQ=255)
ggCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGAt > 1:735831/1‑133 (MQ=255)
gCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGa > 1:449953/1‑134 (MQ=255)
cccTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAg > 1:613083/1‑133 (MQ=255)
|
CACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAG > AM260479/2787800‑2788042
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAGCATTCCCGGCAAGCTGGCT > AM260479/2787779‑2788061
|
CCAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGAT < GWNJ‑0478:712:GW2002102894th:2:2113:5208:98311/150‑1 (MQ=60)
TTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCG > GWNJ‑0478:712:GW2002102894th:2:2207:11733:59604/1‑150 (MQ=60)
CAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCAC < GWNJ‑0478:712:GW2002102894th:2:2103:20964:68208/150‑1 (MQ=60)
GGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCctg > GWNJ‑0478:712:GW2002102894th:2:1211:16710:80163/1‑147 (MQ=60)
TGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGCTTTTCGACCTGCGCG > GWNJ‑0478:712:GW2002102894th:2:2206:11431:9503/1‑150 (MQ=60)
GGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCG > GWNJ‑0478:712:GW2002102894th:2:1114:9059:94167/1‑150 (MQ=60)
AGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATG < GWNJ‑0478:712:GW2002102894th:2:2114:9957:58686/149‑1 (MQ=60)
AGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATG > GWNJ‑0478:712:GW2002102894th:2:2115:9137:61278/1‑149 (MQ=60)
GAATGGCAGCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGAC > GWNJ‑0478:712:GW2002102894th:2:1212:16260:3504/1‑150 (MQ=60)
GCAGAAGGCATCCGGCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAGC > GWNJ‑0478:712:GW2002102894th:2:2106:12146:26457/1‑149 (MQ=60)
GCCCTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAGCATTCCCtgtctctt > GWNJ‑0478:712:GW2002102894th:2:1104:18694:58580/1‑141 (MQ=60)
CTCGAGCGCCCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCctgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:2108:2295:12918/1‑129 (MQ=60)
|
CCAAAGCAAGAAGGGGACGGCCACGCCGTCTCCTTTTTTCATGGGCAGCCGGCCGGATGAATCCCCGCCATCTCCGGGGGATGCGGGTGCCCCACCCCCGCCTCGGCTAGAATGGCAGCAGAAGGCATCCGGCCCTCGAGCG‑CCCTGATTTGGCCACGCCGCCAGGCCGCTCCCCGGACGCCGTGCCCACCCACAGGCCATGACCGAATCCGTCATTCCGATTTTCGACCTGCGCGACCATCGCTACCGCTCGATGACGCCCAGCATTCCCGGCAAGCTGGCT > AM260479/2787779‑2788061
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
