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 |
1,464,365 |
Δ1 bp |
coding (49/552 nt) |
h16_A1354 → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,464,365 | 0 | A | . | 100.0%
| 104.9
/ NA
| 24 | coding (49/552 nt) | h16_A1354 | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (11/13); total (11/13) |
CGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGGGCTGC > AM260479/1464251‑1464492
|
cgGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCt < 1:768226/134‑1 (MQ=255)
agcaCAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGc < 2:273095/134‑1 (MQ=255)
caATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTg > 2:362612/1‑134 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCacac < 2:515473/102‑1 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCacac > 1:515473/1‑102 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACg > 2:954158/1‑103 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACg < 1:954158/103‑1 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCAt > 2:1156581/1‑134 (MQ=255)
gcgcCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCacac < 1:282586/97‑1 (MQ=255)
gcgcCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCacac > 2:282586/1‑97 (MQ=255)
cgccgcGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCg < 1:1156581/134‑1 (MQ=255)
ggAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcg > 2:42572‑M1/1‑132 (MQ=255)
gagaTGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgc < 2:559925‑M1/134‑4 (MQ=255)
tGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggc > 1:486839‑M1/1‑122 (MQ=255)
cGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcg < 1:362612‑M1/134‑17 (MQ=255)
tgACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgc < 1:509573‑M1/132‑21 (MQ=255)
gACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCAc > 1:501444/1‑54 (MQ=255)
gACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCAc < 2:501444/54‑1 (MQ=255)
tcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtaccaga < 2:577823‑M1/134‑35 (MQ=255)
tggGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtacca < 2:284647‑M1/124‑33 (MQ=255)
tggGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtacca > 1:284647‑M1/1‑92 (MQ=255)
gTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtaccagagcacggcattgggtgagc > 1:387850‑M1/1‑82 (MQ=255)
gTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggat > 2:1031781‑M1/1‑82 (MQ=255)
gTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggat < 1:1031781‑M1/108‑27 (MQ=255)
|
CGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGGGCTGC > AM260479/1464251‑1464492
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCGGCGATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGGGCTGCG > AM260479/1464233‑1464493
|
catacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCAC < GWNJ‑0478:712:GW2002102894th:2:1202:12897:5312/98‑1 (MQ=60)
cggagatgtgtataagagacagGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCC < GWNJ‑0478:712:GW2002102894th:2:1116:5977:92102/127‑1 (MQ=60)
atgtgtataagagacaGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCT < GWNJ‑0478:712:GW2002102894th:2:2209:8500:19485/134‑1 (MQ=60)
GCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCAT < GWNJ‑0478:712:GW2002102894th:2:2113:14244:17007/150‑1 (MQ=60)
GTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCctgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:1215:9564:24545/1‑132 (MQ=60)
CCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAG < GWNJ‑0478:712:GW2002102894th:2:2216:11087:47606/150‑1 (MQ=60)
TGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCT > GWNJ‑0478:712:GW2002102894th:2:1213:8705:82300/1‑150 (MQ=60)
GCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttg > GWNJ‑0478:712:GW2002102894th:2:1212:12302:55887/1‑84 (MQ=60)
ACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACC < GWNJ‑0478:712:GW2002102894th:2:1204:12546:96763/150‑1 (MQ=60)
GTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAG < GWNJ‑0478:712:GW2002102894th:2:1212:6698:97536/148‑1 (MQ=60)
ataagagacagGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgc < GWNJ‑0478:712:GW2002102894th:2:2211:7513:52768/138‑3 (MQ=60)
TGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgcat > GWNJ‑0478:712:GW2002102894th:2:1201:17187:4157/1‑146 (MQ=60)
GCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgcattgggtgagcc > GWNJ‑0478:712:GW2002102894th:2:1206:20207:46547/1‑136 (MQ=60)
|
GCGGCGATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGGGCTGCG > AM260479/1464233‑1464493
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
