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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,720,402 |
G→T |
D170Y (GAC→TAC) |
h16_A3441 → |
periplasmic multimodular transpeptidase/transglycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,720,402 | 0 | G | T | 100.0%
| 97.8
/ NA
| 26 | D170Y (GAC→TAC) | h16_A3441 | periplasmic multimodular transpeptidase/transglycosylase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (18/8); total (18/8) |
CTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGC > AM260479/3720290‑3720528
|
cTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCcgcgc > 1:359565/1‑134 (MQ=255)
gATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCg > 2:758212/1‑134 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACg > 2:521646/1‑134 (MQ=255)
cGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGt > 1:396624/1‑133 (MQ=255)
aTCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccggc > 1:840199/1‑134 (MQ=255)
ggCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCgg < 2:379045/110‑1 (MQ=255)
ggCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCgg > 1:379045/1‑110 (MQ=255)
cAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCgg < 1:1111768/107‑1 (MQ=255)
cAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCgg > 2:1111768/1‑107 (MQ=255)
cAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCt > 2:1022963/1‑134 (MQ=255)
aGCTGTACATGAACCAGATCTATCTGGGGCAGAGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGgcg < 1:791384/134‑1 (MQ=255)
gCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGgcgc < 1:1022963/134‑1 (MQ=255)
tGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCg > 2:753860/1‑134 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGc > 1:639493/1‑123 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGc < 2:639493/123‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCgg > 1:258518/1‑134 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCgg > 2:900384/1‑134 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCgg > 2:197885/1‑134 (MQ=255)
atctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg > 2:160295/1‑78 (MQ=255)
atctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg < 1:160295/78‑1 (MQ=255)
gggCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCaa > 1:155671/1‑134 (MQ=255)
gCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAAcc < 2:155671/134‑1 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGgcg > 2:322287/1‑103 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGgcg < 1:322287/103‑1 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACccgc > 1:243056/1‑134 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACccgc > 1:247385/1‑134 (MQ=255)
|
CTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGC > AM260479/3720290‑3720528
|
| 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
GCGCGCAACTTCTTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCAAGGTGCGCCAGG > AM260479/3720258‑3720549
|
ttttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGG < GWNJ‑0478:712:GW2002102894th:2:2106:11450:19869/63‑1 (MQ=60)
TTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2111:4760:97819/1‑138 (MQ=60)
GTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCG > GWNJ‑0478:712:GW2002102894th:2:1204:14911:48248/1‑150 (MQ=60)
ACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTG > GWNJ‑0478:712:GW2002102894th:2:1206:8569:60850/1‑149 (MQ=60)
gtataagagacagGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGC < GWNJ‑0478:712:GW2002102894th:2:2214:13051:56728/137‑1 (MQ=60)
CTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCC > GWNJ‑0478:712:GW2002102894th:2:2114:5149:52099/1‑150 (MQ=60)
GGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCtgtctctt > GWNJ‑0478:712:GW2002102894th:2:1207:9802:60649/1‑141 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGC < GWNJ‑0478:712:GW2002102894th:2:1111:3318:48317/108‑1 (MQ=60)
atgtgtataagagacagGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAAC < GWNJ‑0478:712:GW2002102894th:2:1202:18947:22343/133‑1 (MQ=60)
GAGCTGTACATGAACCAGATCTATCTGGGGCAGAGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAAC < GWNJ‑0478:712:GW2002102894th:2:2112:9384:7678/150‑1 (MQ=60)
AGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACC < GWNJ‑0478:712:GW2002102894th:2:2211:20121:5043/150‑1 (MQ=60)
GTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGT > GWNJ‑0478:712:GW2002102894th:2:2105:1679:58640/1‑150 (MQ=60)
GTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGT > GWNJ‑0478:712:GW2002102894th:2:1114:11585:52200/1‑150 (MQ=60)
AACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAAC > GWNJ‑0478:712:GW2002102894th:2:1111:12171:23845/1‑150 (MQ=60)
GATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCG > GWNJ‑0478:712:GW2002102894th:2:1115:2303:74582/1‑150 (MQ=60)
GATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCG > GWNJ‑0478:712:GW2002102894th:2:1115:13876:96299/1‑150 (MQ=60)
ATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaactgggtccgtcaacagccgagcacc > GWNJ‑0478:712:GW2002102894th:2:2103:18850:25579/1‑47 (MQ=60)
CCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCAAGGTGCGCCAGG < GWNJ‑0478:712:GW2002102894th:2:2110:1563:12903/150‑1 (MQ=60)
|
GCGCGCAACTTCTTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCAAGGTGCGCCAGG > AM260479/3720258‑3720549
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
