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 |
1,081,530 |
T→C |
L30L (TTG→CTG) |
h16_A0990 → |
outer membrane protein and related peptidoglycan‑associated (lipo)proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,081,530 | 0 | T | C | 100.0%
| 51.6
/ NA
| 15 | L30L (TTG→CTG) | h16_A0990 | outer membrane protein and related peptidoglycan‑associated (lipo)proteins |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/6); total (9/6) |
CCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGG > AM260479/1081435‑1081617
|
ccTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAgggc > 1:574140/1‑132 (MQ=255)
cGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc > 1:1019978/1‑133 (MQ=255)
cTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc > 1:1037890/1‑127 (MQ=255)
cTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc > 1:263791/1‑127 (MQ=255)
cTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc > 1:95344/1‑127 (MQ=255)
aTGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTg < 2:574140/134‑1 (MQ=255)
ggACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACg > 1:428175/1‑134 (MQ=255)
gATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCt > 1:289879/1‑104 (MQ=255)
gATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCt < 2:289879/104‑1 (MQ=255)
tACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAgg < 2:1037890/134‑1 (MQ=255)
tACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAgg < 2:263791/134‑1 (MQ=255)
gTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTgg > 1:487990/1‑63 (MQ=255)
gTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTgg < 2:487990/63‑1 (MQ=255)
gCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCgg < 1:807555/87‑1 (MQ=255)
gCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCgg > 2:807555/1‑87 (MQ=255)
|
CCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGG > AM260479/1081435‑1081617
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ 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
AGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCCG > AM260479/1081384‑1081664
|
AGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTG < GWNJ‑0478:712:GW2002102894th:2:2116:15205:53309/150‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacagcCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACG < GWNJ‑0478:712:GW2002102894th:2:2101:21071:84593/102‑1 (MQ=60)
GCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGGCG > GWNJ‑0478:712:GW2002102894th:2:1216:20560:98335/1‑150 (MQ=60)
GCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:2208:12090:89388/1‑149 (MQ=60)
C‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:1107:17676:96318/1‑143 (MQ=60)
C‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:1114:17832:99045/1‑143 (MQ=60)
C‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:2211:10953:83368/1‑143 (MQ=60)
cgtgggctcggagatgtgtataagagacagCGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCAT < GWNJ‑0478:712:GW2002102894th:2:2115:7883:12265/117‑1 (MQ=60)
GGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGG > GWNJ‑0478:712:GW2002102894th:2:1209:7920:77504/1‑150 (MQ=60)
GGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1201:5037:37373/1‑136 (MQ=60)
gtccaggggccttGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:1213:7259:87627/14‑93 (MQ=60)
GCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCCG > GWNJ‑0478:712:GW2002102894th:2:1108:2577:46114/1‑150 (MQ=60)
|
AGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCCG > AM260479/1081384‑1081664
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
