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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
1,166,676 |
+G |
intergenic (+150/‑109) |
h16_B1032 → / → h16_B1033 |
conserved hypothetical protein/probable extra‑cytoplasmic solute receptor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 1,166,674 | 1 | . | G | 100.0%
| 115.9
/ NA
| 30 | intergenic (+148/‑111) | h16_B1032/h16_B1033 | conserved hypothetical protein/probable extra‑cytoplasmic solute receptor |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (16/14); total (16/14) |
TGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCA‑GGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGA > AM260480/1166571‑1166796
|
tgtgATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGac > 1:852821/1‑133 (MQ=255)
aaGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGc > 2:380962/1‑134 (MQ=255)
ggCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGt > 2:508754/1‑134 (MQ=255)
aCCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCgg < 1:200425/134‑1 (MQ=255)
cgcgACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGacaa > 2:920095/1‑114 (MQ=255)
cgcgACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGacaa < 1:920095/114‑1 (MQ=255)
gtgtGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGt < 1:896925/134‑1 (MQ=255)
ctctTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCg < 2:999045/134‑1 (MQ=255)
tttCGCCTTGCTGCCGTGGACCCCCCAGAACTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCctc < 1:26980/73‑1 (MQ=255)
tttCGCCTTGCTGCCGTGGACCCCCCAGAACTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCctc > 2:26980/1‑73 (MQ=255)
gCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCga < 2:852821/133‑1 (MQ=255)
gcCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTgag > 1:1004540/1‑133 (MQ=255)
gcCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTgag > 2:778856/1‑133 (MQ=255)
ccccAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCa < 2:800659/134‑1 (MQ=255)
cccAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCaa < 1:994505/134‑1 (MQ=255)
ccAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAAt < 1:508754/134‑1 (MQ=255)
gACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATc > 1:445273/1‑132 (MQ=255)
gACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATc > 1:3009/1‑132 (MQ=255)
gACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATc > 2:590214/1‑132 (MQ=255)
cTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAagag > 2:826312/1‑134 (MQ=255)
cAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAagag > 2:801230/1‑132 (MQ=255)
cAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAagag < 1:801230/132‑1 (MQ=255)
gCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGa > 2:553931/1‑134 (MQ=255)
ggCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGTGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAg > 1:677666/1‑133 (MQ=255)
ggCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAg > 1:911364/1‑133 (MQ=255)
ccGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGaa < 2:3009/134‑1 (MQ=255)
cGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGTGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAg < 2:677666/134‑1 (MQ=255)
tACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGa < 1:590214/134‑1 (MQ=255)
cgAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGt < 1:945332/111‑1 (MQ=255)
cgAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGt > 2:945332/1‑111 (MQ=255)
|
TGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCA‑GGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGA > AM260480/1166571‑1166796
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ 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
GGAGGAACTGACGGCCCGGCATCCCGGACCCAACATGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCA‑GGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGAACCAATAACCTATGGTGGCGCGGATACGC > AM260480/1166536‑1166825
|
GGAGGAACTGACGGCCCGGCATCCCGGACCCAACATGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCC < GWNJ‑0478:712:GW2002102894th:2:1104:16843:90059/149‑1 (MQ=60)
CAGGAACTGACGGCCCGGCATCCCGGACCCAACATGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTC < GWNJ‑0478:712:GW2002102894th:2:1110:18583:76413/150‑1 (MQ=60)
gagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGAACTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCG < GWNJ‑0478:712:GW2002102894th:2:1103:3509:90502/104‑1 (MQ=60)
ATCCCGGACCCAACATGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACA > GWNJ‑0478:712:GW2002102894th:2:2209:9713:38432/1‑149 (MQ=60)
agacagGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATC < GWNJ‑0478:712:GW2002102894th:2:2211:19827:57453/144‑1 (MQ=60)
GACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACG < GWNJ‑0478:712:GW2002102894th:2:1112:20603:80318/150‑1 (MQ=60)
GGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATC < GWNJ‑0478:712:GW2002102894th:2:2208:15945:14343/150‑1 (MQ=60)
CTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGA > GWNJ‑0478:712:GW2002102894th:2:2215:10369:34793/1‑149 (MQ=60)
catacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaggtGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATC < GWNJ‑0478:712:GW2002102894th:2:2107:16286:82662/96‑1 (MQ=60)
GCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCA > GWNJ‑0478:712:GW2002102894th:2:1213:9705:97263/1‑148 (MQ=60)
GCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCA > GWNJ‑0478:712:GW2002102894th:2:1101:6822:24473/1‑148 (MQ=60)
CCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGAC < GWNJ‑0478:712:GW2002102894th:2:2214:16915:81168/150‑1 (MQ=60)
ggctcggagatgtgtataagagacaGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACA < GWNJ‑0478:712:GW2002102894th:2:2208:15742:82214/125‑1 (MQ=60)
CCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACA < GWNJ‑0478:712:GW2002102894th:2:1216:19109:41088/150‑1 (MQ=60)
CCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGTGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGG > GWNJ‑0478:712:GW2002102894th:2:2110:15361:50837/1‑149 (MQ=60)
CCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGA < GWNJ‑0478:712:GW2002102894th:2:2203:20397:94937/150‑1 (MQ=60)
CCTCAATTGCCGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGG > GWNJ‑0478:712:GW2002102894th:2:2211:17421:4868/1‑149 (MQ=60)
aagagacagGTGTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAG < GWNJ‑0478:712:GW2002102894th:2:2212:6314:6428/141‑1 (MQ=60)
GTGGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACActgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:1104:13718:83067/1‑131 (MQ=60)
GGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACActgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1113:16937:64798/1‑129 (MQ=60)
GGCCGATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGAACCAATAACC > GWNJ‑0478:712:GW2002102894th:2:2110:7261:55710/1‑150 (MQ=60)
ATACCGCGAGCAGGGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGAACCAATAACCTATGG < GWNJ‑0478:712:GW2002102894th:2:2107:3394:5038/150‑1 (MQ=60)
GTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCAGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGctgtctcttatacacatctccgagcccacgagacg > GWNJ‑0478:712:GW2002102894th:2:2207:2259:24712/1‑115 (MQ=60)
|
GGAGGAACTGACGGCCCGGCATCCCGGACCCAACATGTGATGGCGAAGGCGGGACCCGCGACGGTGTGGGTCCCGCTCTTTCGCCTTGCTGCCGTGGACCCCCCAGACCTCAATTGCCGTGTGGCCGATACCGCGAGCA‑GGTTTTCCCTCTGTTTGCGCGAATCGACAACAACTTGGCGTGATCGGTCAAGCCGGTTGACGCGTGGCGATCCGAGAATTGAGAAAAGACGGCAATCAAGAGGTACAGACATGAGGAAGCGAACCAATAACCTATGGTGGCGCGGATACGC > AM260480/1166536‑1166825
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
