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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
978,518 |
A→G |
S117G (AGC→GGC) |
h16_B0862 → |
cytosine deaminase or related metal‑dependent hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 978,518 | 0 | A | G | 100.0%
| 65.0
/ NA
| 18 | S117G (AGC→GGC) | h16_B0862 | cytosine deaminase or related metal‑dependent hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/6); total (12/6) |
GCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCG > AM260480/978397‑978643
|
gcgcATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAgg < 1:836202/134‑1 (MQ=255)
aTGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAg > 2:736404/1‑129 (MQ=255)
aTGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAg < 1:736404/129‑1 (MQ=255)
gATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTcc > 1:246073/1‑133 (MQ=255)
acacGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTg > 1:992576/1‑134 (MQ=255)
ccaccTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTg > 2:461132/1‑133 (MQ=255)
ccaccTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTg > 1:998447/1‑133 (MQ=255)
gTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGcgcg > 2:1015662/1‑134 (MQ=255)
cAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTca > 1:581604/1‑134 (MQ=255)
tgtTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTc < 1:1015662/134‑1 (MQ=255)
gCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGcc > 2:414662/1‑134 (MQ=255)
gAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCgg > 1:177019/1‑134 (MQ=255)
aTCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCAcgc > 1:864737/1‑134 (MQ=255)
ccGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGc < 1:414662/132‑1 (MQ=255)
cGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAgg < 2:377948/37‑1 (MQ=37)
cGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAgg > 1:377948/1‑37 (MQ=37)
ggTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCgg > 2:870402/1‑134 (MQ=255)
cGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTcgcg < 2:581604/134‑1 (MQ=255)
|
GCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCG > AM260480/978397‑978643
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
CCCGAGCTGGAAACCCTGCCGCTGCCGCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGCGCGGTCGCCGATGC > AM260480/978371‑978660
|
CCCGAGCTGGAAACCCTGCCGCTGCCGCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGC < GWNJ‑0478:712:GW2002102894th:2:2205:3345:30477/150‑1 (MQ=60)
CCGCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTAC < GWNJ‑0478:712:GW2002102894th:2:2114:5488:19188/150‑1 (MQ=60)
CGCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACC < GWNJ‑0478:712:GW2002102894th:2:2205:20691:68070/150‑1 (MQ=60)
GCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCtgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:2115:16016:29237/1‑133 (MQ=60)
CTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1216:6803:4562/1‑122 (MQ=60)
GCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCA > GWNJ‑0478:712:GW2002102894th:2:1116:4101:53160/1‑149 (MQ=60)
TGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGG > GWNJ‑0478:712:GW2002102894th:2:2215:15854:5659/1‑150 (MQ=60)
GATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGG > GWNJ‑0478:712:GW2002102894th:2:2215:1854:37398/1‑149 (MQ=60)
GACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCAC > GWNJ‑0478:712:GW2002102894th:2:2104:19617:69940/1‑150 (MQ=60)
TCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGC > GWNJ‑0478:712:GW2002102894th:2:1113:17357:43294/1‑150 (MQ=60)
GGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCG > GWNJ‑0478:712:GW2002102894th:2:2206:11789:46475/1‑150 (MQ=60)
GTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGC < GWNJ‑0478:712:GW2002102894th:2:2216:10865:36978/150‑1 (MQ=60)
CCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1209:7867:23004/1‑67 (MQ=60)
TCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGT < GWNJ‑0478:712:GW2002102894th:2:1210:17532:37288/148‑1 (MQ=60)
CTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCaggatctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaagttagtcatggtc > GWNJ‑0478:712:GW2002102894th:2:2111:19215:79130/1‑55 (MQ=60)
|
CCCGAGCTGGAAACCCTGCCGCTGCCGCGCATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGCGCGGTCGCCGATGC > AM260480/978371‑978660
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
