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 |
AM260479 |
582,759 |
G→T |
C352F (TGT→TTT) |
h16_A0555 → |
zinc metalloprotease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 582,759 | 0 | G | T | 100.0%
| 73.6
/ NA
| 20 | C352F (TGT→TTT) | h16_A0555 | zinc metalloprotease |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (11/9); total (11/9) |
ATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTGTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGCC > AM260479/582689‑582884
|
aTTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTgcgcgc < 2:993875/134‑1 (MQ=255)
tGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCgcgg > 2:97566/1‑134 (MQ=255)
ggACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGcgcacg > 1:691463/1‑133 (MQ=255)
cgcgTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACt > 1:166350/1‑134 (MQ=255)
cgTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGc < 1:97566/134‑1 (MQ=255)
cAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCa < 2:153362/89‑1 (MQ=255)
cAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCa > 1:153362/1‑89 (MQ=255)
aGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCgg > 2:339301/1‑133 (MQ=255)
aGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCgg > 2:47804/1‑133 (MQ=255)
aGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCgg > 2:481119/1‑133 (MQ=255)
gCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCa > 1:437414/1‑134 (MQ=255)
gcAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTgcgc < 2:437414/134‑1 (MQ=255)
aGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCt < 1:47804/134‑1 (MQ=255)
cacGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTg < 1:581136/88‑1 (MQ=255)
cacGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTg > 2:581136/1‑88 (MQ=255)
cacGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGc < 1:912232/101‑1 (MQ=255)
cacGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGc > 2:912232/1‑101 (MQ=255)
ccTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTa < 1:481119/134‑1 (MQ=255)
gAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACgg > 1:76390/1‑134 (MQ=255)
aTACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGgcc < 2:166350/134‑1 (MQ=255)
|
ATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTGTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGCC > AM260479/582689‑582884
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
GCGGCTGCAGCGCGCATCGGGGACCGCGGAAAATTCGGTCCCGTCTTATGTGCGGACTCACCCGCTGACCTCCGAGCGGATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTGTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGCCTTGCCTTCACCGAGC > AM260479/582610‑582899
|
gtagctccgtctcgtgggctcggagatgtgtataagagacagGTCTTATGTGCGGACTCACCCGCTGACCTCCGAGCGGATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTT < GWNJ‑0478:712:GW2002102894th:2:1106:10899:79960/108‑1 (MQ=60)
CGCGCATCGGGGACCGCGGAAAATTCGGTCCCGTCTTATGTGCGGACTCACCCGCTGACCTCCGAGCGGATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATG < GWNJ‑0478:712:GW2002102894th:2:2215:1621:33426/150‑1 (MQ=60)
ggctcggagatgtgtataagagacagGTCTTATGTGCGGACTCACCCGCTGACCTCCGAGCGGATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCC < GWNJ‑0478:712:GW2002102894th:2:1113:17230:31040/124‑1 (MQ=60)
GATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGC > GWNJ‑0478:712:GW2002102894th:2:2113:19669:51933/1‑149 (MQ=60)
GCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTG > GWNJ‑0478:712:GW2002102894th:2:1110:5298:79306/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacagGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCG < GWNJ‑0478:712:GW2002102894th:2:2104:9244:66819/118‑1 (MQ=60)
CATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1111:8579:100082/1‑119 (MQ=60)
agatgtgtataagagacagGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCAC < GWNJ‑0478:712:GW2002102894th:2:2211:18219:41312/131‑1 (MQ=60)
GCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCAC < GWNJ‑0478:712:GW2002102894th:2:1106:19632:54528/150‑1 (MQ=60)
GCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCAC > GWNJ‑0478:712:GW2002102894th:2:1213:17494:65605/1‑150 (MQ=60)
ggctcggagatgtgtataagagacagGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGC < GWNJ‑0478:712:GW2002102894th:2:2103:9469:84281/124‑1 (MQ=60)
AAGGTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTAC < GWNJ‑0478:712:GW2002102894th:2:1102:6968:25912/150‑1 (MQ=60)
GTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAActgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaaagaaaatc > GWNJ‑0478:712:GW2002102894th:2:2108:18484:64465/1‑57 (MQ=60)
GTCGCCAACACGCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGC > GWNJ‑0478:712:GW2002102894th:2:1107:5464:20021/1‑150 (MQ=60)
GCCTGAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGCCTTGCCTTCAC < GWNJ‑0478:712:GW2002102894th:2:1214:11468:8917/150‑1 (MQ=60)
GAATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaa > GWNJ‑0478:712:GW2002102894th:2:2111:3093:55868/1‑79 (MQ=60)
AATACGAGTTTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGCCTTGCCTTCACCGAGC > GWNJ‑0478:712:GW2002102894th:2:1209:19039:20247/1‑150 (MQ=60)
|
GCGGCTGCAGCGCGCATCGGGGACCGCGGAAAATTCGGTCCCGTCTTATGTGCGGACTCACCCGCTGACCTCCGAGCGGATTGCCGACATGCAGGACCGCGTCAGCCATGCCAGCAAGCGCAAGGTCGCCAACACGCCTGAATACGAGTGTGCGCGGATGCGGGCCCGCGTGATCCAGGAATCGTCGCCCAGCGACCTGCAGAACCTGCGCGCGGCGCTGCGCACGCAACTGCCGGGAGCAACGGCACTGCGCGCTCCGGCGCTGCACTACGGCCTTGCCTTCACCGAGC > AM260479/582610‑582899
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
