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 |
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%
| 61.8
/ NA
| 17 | D170Y (GAC→TAC) | h16_A3441 | periplasmic multimodular transpeptidase/transglycosylase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (11/6); total (11/6) |
CTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGG > AM260479/3720318‑3720516
|
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCgt < 1:1059035/110‑1 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCgt > 2:1059035/1‑110 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCgt < 1:681673/108‑1 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCgt > 2:681673/1‑108 (MQ=255)
cAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCcgcg > 1:478830/1‑69 (MQ=255)
cAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCcgcg < 2:478830/69‑1 (MQ=255)
ccTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGccc > 1:1033443/1‑133 (MQ=255)
ccTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGccc > 2:286210/1‑133 (MQ=255)
cTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg < 1:1046586/97‑1 (MQ=255)
cTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg > 2:1046586/1‑97 (MQ=255)
tGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCg > 2:240502/1‑134 (MQ=255)
atctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAAccc > 1:471795/1‑134 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGcgccgc < 2:697139/39‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGcgccgc > 1:697139/1‑39 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCgg > 1:918484/1‑134 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCgg > 1:136724/1‑134 (MQ=255)
tctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCg < 2:1033443/130‑1 (MQ=255)
|
CTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGG > AM260479/3720318‑3720516
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
TTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCAAGGTGCGCC > AM260479/3720270‑3720546
|
tagcgagtgtctcgtgggctcggagatgtgtataagagacAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGC < GWNJ‑0478:712:GW2002102894th:2:1113:8993:31447/109‑1 (MQ=60)
ataagagacagCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTC < GWNJ‑0478:712:GW2002102894th:2:2106:5621:53249/138‑1 (MQ=60)
aagagacAGATCTATGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTC < GWNJ‑0478:712:GW2002102894th:2:2210:2074:93378/142‑1 (MQ=60)
cggagatgtgtataagagacAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGC < GWNJ‑0478:712:GW2002102894th:2:2210:2792:28549/129‑1 (MQ=60)
AACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtat > GWNJ‑0478:712:GW2002102894th:2:1213:13525:43163/1‑99 (MQ=60)
GAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCA > GWNJ‑0478:712:GW2002102894th:2:2211:18764:61029/1‑149 (MQ=60)
CTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCG > GWNJ‑0478:712:GW2002102894th:2:1213:8326:8292/1‑150 (MQ=60)
GTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaat > GWNJ‑0478:712:GW2002102894th:2:2108:20927:42212/1‑70 (MQ=60)
GTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGT > GWNJ‑0478:712:GW2002102894th:2:2204:10807:7392/1‑150 (MQ=60)
GTACATGAACAAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGT > GWNJ‑0478:712:GW2002102894th:2:1109:18402:38213/1‑150 (MQ=60)
ATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaacaaaaaaaaaaaaaaaacaaaatatatggcag > GWNJ‑0478:712:GW2002102894th:2:2213:19688:20263/1‑37 (MQ=60)
GGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaagactgataataaaaccggcagcgcaaagct > GWNJ‑0478:712:GW2002102894th:2:1208:7134:28733/1‑43 (MQ=60)
GGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCA > GWNJ‑0478:712:GW2002102894th:2:2207:17848:31512/1‑149 (MQ=60)
CGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCAAGGTGCGCC > GWNJ‑0478:712:GW2002102894th:2:2102:19619:16481/1‑149 (MQ=60)
|
TTCCTGTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCAAGGTGCGCC > AM260479/3720270‑3720546
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
