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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
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%
| 90.9
/ NA
| 24 | D170Y (GAC→TAC) | h16_A3441 | periplasmic multimodular transpeptidase/transglycosylase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (13/11); total (13/11) |
AAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACC > AM260479/3720283‑3720525
|
aaaaGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgc > 1:1076432/1‑134 (MQ=255)
ccTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCcgcg < 1:703446/134‑1 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACACGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGa > 1:604419/1‑134 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACg > 1:124490/1‑134 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACg > 2:499995/1‑134 (MQ=255)
gATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg < 2:175187/134‑1 (MQ=255)
ggCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAgg > 2:514025/1‑134 (MQ=255)
cAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGgccg > 1:460722/1‑134 (MQ=255)
cTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCAt < 2:460722/134‑1 (MQ=255)
aaGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTggc < 1:514025/134‑1 (MQ=255)
aGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGcgccgc < 2:689109/73‑1 (MQ=255)
aGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGcgccgc > 1:689109/1‑73 (MQ=255)
tCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAg > 2:646176/1‑134 (MQ=255)
cTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGcc > 2:1067418/1‑134 (MQ=255)
tGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCg < 1:1067418/134‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg < 2:1008667/80‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg > 1:1008667/1‑80 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACa < 2:412125/128‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACa > 1:412125/1‑128 (MQ=255)
atctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCggtg > 2:681537/1‑134 (MQ=255)
gggCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGgccg < 2:211836/82‑1 (MQ=255)
gggCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGgccg > 1:211836/1‑82 (MQ=255)
gggCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCTGGTGGTc < 1:646176/132‑1 (MQ=255)
gCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAAcc < 2:604419/134‑1 (MQ=255)
|
AAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACC > AM260479/3720283‑3720525
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ 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
AACTTCTTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCC > AM260479/3720264‑3720536
|
GACTTCTTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGAC < GWNJ‑0478:712:GW2002102894th:2:1211:10910:92338/150‑1 (MQ=60)
TCTTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCG > GWNJ‑0478:712:GW2002102894th:2:2213:11043:78762/1‑150 (MQ=60)
cccctctggtactctttcctggcagtttacgattcttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGC < GWNJ‑0478:712:GW2002102894th:2:1209:7638:87950/39‑1 (MQ=60)
ACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGC < GWNJ‑0478:712:GW2002102894th:2:2109:11606:5022/150‑1 (MQ=60)
ATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCtgtctctttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2215:14756:99036/1‑117 (MQ=60)
ATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACACGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGAC > GWNJ‑0478:712:GW2002102894th:2:2103:19701:96876/1‑150 (MQ=60)
CTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGT > GWNJ‑0478:712:GW2002102894th:2:1108:7873:63202/1‑150 (MQ=60)
GTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGC > GWNJ‑0478:712:GW2002102894th:2:1210:14046:37553/1‑150 (MQ=60)
AGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCtgtctcttatacacatctccgagcccacgagacactcgctaatctc > GWNJ‑0478:712:GW2002102894th:2:2108:16553:22801/1‑104 (MQ=60)
CAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGC < GWNJ‑0478:712:GW2002102894th:2:1215:9558:5452/150‑1 (MQ=60)
GTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCctgtctcttatacacatctccgagcccacgagacactcgc > GWNJ‑0478:712:GW2002102894th:2:2211:15917:24407/1‑110 (MQ=60)
GTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGT > GWNJ‑0478:712:GW2002102894th:2:1208:8453:80142/1‑150 (MQ=60)
ATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTC < GWNJ‑0478:712:GW2002102894th:2:2213:17748:33115/150‑1 (MQ=60)
AACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCctgtctcttatacacatctccgagcccacgagacactc > GWNJ‑0478:712:GW2002102894th:2:1112:3582:33989/1‑112 (MQ=60)
GGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCTGGTGGTCAACCCGCGCCGCGCC < GWNJ‑0478:712:GW2002102894th:2:2104:13041:63578/148‑1 (MQ=60)
|
AACTTCTTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCC > AM260479/3720264‑3720536
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
