Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 62
Found at i:13141960 original size:65 final size:63
Alignment explanation
Indices: 13141884--13142043 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
13141874 AATTAAATTG
* * *
13141884 AACATAGAATGCATTTCATGCATCGATGCACATTCCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-GCCATGCACCGATGCACTGAGGATATTT-TG-
13141948 A
63 A
* ** *
13141949 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTTTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGCCATGCACCGATGCACTGAGGATATTTTGA
*
13142013 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
13142044 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 49 0.58
66 5 0.06
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGCCATGCACCGATGCACTGAGGATATTTTGA
Found at i:13143877 original size:15 final size:15
Alignment explanation
Indices: 13143857--13143886 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13143847 GTGACTCGAC
13143857 TTTCTAAACCAAAGT
1 TTTCTAAACCAAAGT
13143872 TTTCTAAACCAAAGT
1 TTTCTAAACCAAAGT
13143887 CTACATCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
TTTCTAAACCAAAGT
Found at i:13152275 original size:16 final size:16
Alignment explanation
Indices: 13152254--13152292 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
13152244 ATCTCGACGT
13152254 GAAATTGAAATTAAAA
1 GAAATTGAAATTAAAA
13152270 GAAATTGAAATTAAAA
1 GAAATTGAAATTAAAA
13152286 G-AATTGA
1 GAAATTGA
13152293 GTTTACTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (16 bp):
GAAATTGAAATTAAAA
Found at i:13152439 original size:17 final size:17
Alignment explanation
Indices: 13152417--13152449 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13152407 TATTTGGTCC
*
13152417 TCAATTTTTCCATTTCT
1 TCAATTTCTCCATTTCT
13152434 TCAATTTCTCCATTTC
1 TCAATTTCTCCATTTC
13152450 AATTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (17 bp):
TCAATTTCTCCATTTCT
Found at i:13152931 original size:11 final size:11
Alignment explanation
Indices: 13152911--13152956 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
13152901 ACTTTCAAAA
*
13152911 ATAATGTTATT
1 ATAATATTATT
13152922 ATAATATTATT
1 ATAATATTATT
*
13152933 ATAATTATAATT
1 ATAA-TATTATT
13152945 ATAA-ATT-TT
1 ATAATATTATT
13152954 ATA
1 ATA
13152957 CATTTAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 5 0.16
10 2 0.06
11 14 0.45
12 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATAATATTATT
Found at i:13152946 original size:23 final size:21
Alignment explanation
Indices: 13152919--13152976 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 21
13152909 AAATAATGTT
13152919 ATTATAATATTATTATA-ATTATA
1 ATTATAA-ATT-TTATACATT-TA
13152942 ATTATAAATTTTATACATTTA
1 ATTATAAATTTTATACATTTA
13152963 A-TACT-AATTTTATA
1 ATTA-TAAATTTTATA
13152977 ACAATTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
20 11 0.33
21 9 0.27
22 6 0.18
23 7 0.21
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATAAATTTTATACATTTA
Found at i:13153387 original size:23 final size:23
Alignment explanation
Indices: 13153361--13153408 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13153351 ATAAAGTACA
*
13153361 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
13153384 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
13153407 AT
1 AT
13153409 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:13153920 original size:23 final size:23
Alignment explanation
Indices: 13153885--13153957 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
13153875 ATACTTTACA
* *
13153885 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
13153908 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
13153931 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
13153954 ATAT
1 ATAT
13153958 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:13154356 original size:23 final size:23
Alignment explanation
Indices: 13154330--13154388 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
13154320 AACCACTACT
*
13154330 TATTACATTATATAAATGATACC
1 TATTACATTATATAAACGATACC
* *
13154353 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACC
*
13154376 TATTACATCATAT
1 TATTACATTATAT
13154389 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (23 bp):
TATTACATTATATAAACGATACC
Found at i:13154713 original size:430 final size:431
Alignment explanation
Indices: 13153719--13155021 Score: 2461
Period size: 430 Copynumber: 3.0 Consensus size: 431
13153709 ATGTTTATTG
* *
13153719 TTTTTAATTTAATAATAATATATATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
13153784 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
13153849 TAT-GAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
131 TATAG-ACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
*
13153913 AACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
195 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
13153978 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
260 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
* *
13154043 TTTTTTAATAGTGTTTAATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAA
325 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
13154108 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
13154150 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
13154215 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
13154280 TATAGACAATTTTATAAAAAGGATAGATACTTTACAATATAACCACTACTTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
*
13154345 ATGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
13154410 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
13154474 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
13154539 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
13154580 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
13154645 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
13154710 TATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
*
13154775 ACGATACCTATTACATTATATAAGCTCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
13154840 TGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
13154904 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
325 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
13154969 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
13155011 -TTTAAATTTAA
1 TTTTTAATTTAA
13155022 CAACATTAAC
Statistics
Matches: 855, Mismatches: 14, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
429 1 0.00
430 431 0.50
431 422 0.49
432 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:13154782 original size:23 final size:23
Alignment explanation
Indices: 13154756--13154818 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
13154746 ATATAACCAC
13154756 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* **
13154779 TACCTATTACATTATATAAGCTC
1 TACCTATTACATTATATAAACGA
*
13154802 TACCTATTACATCATAT
1 TACCTATTACATTATAT
13154819 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:13155199 original size:25 final size:25
Alignment explanation
Indices: 13155171--13155235 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
13155161 ACTCAAAAGA
*
13155171 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
13155196 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
13155221 TGTACATACCTAAAT
1 TGTACATACCTAAAT
13155236 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:13157246 original size:183 final size:182
Alignment explanation
Indices: 13156938--13157594 Score: 1242
Period size: 183 Copynumber: 3.6 Consensus size: 182
13156928 CATTGTACCG
13156938 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
1 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
*
13157003 TAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATACCGGTTATATTACAAAATTATCT
66 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATA-CGGTTATATTACAAAATTATCT
13157068 ATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
130 ATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
13157121 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
1 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
*
13157186 TAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATATCGGTTATATTACAAAATTATCT
66 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATA-CGGTTATATTACAAAATTATCT
13157251 ATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
130 ATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
13157304 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
1 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
*
13157369 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACTAGTTATATTACAAAATTATCT
66 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC-GGTTATATTACAAAATTATCT
*
13157434 ATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
130 ATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
*
13157487 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
1 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
13157552 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
66 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
13157595 CGATAGCATT
Statistics
Matches: 466, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
182 1 0.00
183 465 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (182 bp):
GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGAAAGTGTCGATA
TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACGGTTATATTACAAAATTATCTA
TTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
Found at i:13158013 original size:23 final size:23
Alignment explanation
Indices: 13157987--13158045 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
13157977 AACCACTACC
13157987 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
13158010 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
13158033 TATTACATCATAT
1 TATTACATTATAT
13158046 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:13158424 original size:432 final size:427
Alignment explanation
Indices: 13157633--13158683 Score: 1966
Period size: 432 Copynumber: 2.5 Consensus size: 427
13157623 TTATAATATG
*
13157633 TTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
13157698 TCAATTTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
66 TCAATTTTTTTTAA-TAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTGC
13157762 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
13157827 AATATATATCGTAACGTAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC
195 AATATATATCGTAACGTAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC
13157892 ACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAA
260 ACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAA
13157957 GGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTACATTATA
325 GGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTACATTATA
13158022 TAAGCGCTACCTATTACATCATATTTTTACCTATTATA
390 TAAGCGCTACCTATTACATCATATTTTTACCTATTATA
13158060 TTGAAAGTGTCCATACTTTTTATAAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGT
13158125 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTGC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTGC
13158190 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
13158255 AATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
195 AATATATATCGTAACGT---AAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
13158320 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
256 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
*
13158385 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
321 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTACAT
13158450 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
386 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
13158492 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
13158556 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTGCA
* *
13158620 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
13158684 TTAACCAAAG
Statistics
Matches: 612, Mismatches: 6, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
427 24 0.04
428 198 0.32
429 107 0.17
430 46 0.08
431 9 0.01
432 228 0.37
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (427 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
ATATATATCGTAACGTAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAG
GATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTACATTATAT
AAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:13158441 original size:23 final size:23
Alignment explanation
Indices: 13158415--13158477 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
13158405 ATATAACCAC
13158415 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
13158438 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
13158461 TACCTATTACATCATAT
1 TACCTATTACATTATAT
13158478 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:13158861 original size:16 final size:16
Alignment explanation
Indices: 13158836--13158869 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13158826 ATCTATTACA
*
13158836 TTTTTCAATCGACACT
1 TTTTTAAATCGACACT
13158852 TTTTTAAATCGACACT
1 TTTTTAAATCGACACT
13158868 TT
1 TT
13158870 GTTGTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTTAAATCGACACT
Found at i:13160071 original size:3 final size:3
Alignment explanation
Indices: 13160063--13160143 Score: 90
Period size: 3 Copynumber: 27.0 Consensus size: 3
13160053 ACTTGTTTGG
* * *
13160063 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
13160111 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
13160144 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:13160119 original size:36 final size:36
Alignment explanation
Indices: 13160079--13160160 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
13160069 ATCATCATCA
*
13160079 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
13160115 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
13160151 TCATCTTCAT
1 TCATCATCAT
13160161 TGACCGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.38
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:13160144 original size:12 final size:12
Alignment explanation
Indices: 13160067--13160160 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
13160057 GTTTGGATCA
* *
13160067 TCATCATCATCA
1 TCATCGTCATCT
* *
13160079 TCATCATCATCA
1 TCATCGTCATCT
* *
13160091 TCGTCATCATCT
1 TCATCGTCATCT
*
13160103 TCATCGTCAGCT
1 TCATCGTCATCT
*
13160115 TCATCGTCATCA
1 TCATCGTCATCT
13160127 TCATCGTCATCT
1 TCATCGTCATCT
*
13160139 TCATCGTCAGCT
1 TCATCGTCATCT
*
13160151 TCATCTTCAT
1 TCATCGTCAT
13160161 TGACCGCTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 71 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:13160169 original size:18 final size:18
Alignment explanation
Indices: 13160097--13160160 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
13160087 ATCATCGTCA
*
13160097 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* * *
13160115 TCATCGTCATC-ATCATCG
1 TCATCTTCATCGA-CAGCT
*
13160133 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
13160151 TCATCTTCAT
1 TCATCTTCAT
13160161 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.19, C:0.33, G:0.09, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:13161607 original size:24 final size:24
Alignment explanation
Indices: 13161570--13161622 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13161560 CCGTTCTATC
13161570 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
13161594 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
13161618 TATTT
1 TATTT
13161623 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:13161784 original size:17 final size:18
Alignment explanation
Indices: 13161762--13161804 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
13161752 ATATATCCGG
13161762 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
13161779 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
13161799 TATCAT
1 TATCAT
13161805 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:13161822 original size:20 final size:19
Alignment explanation
Indices: 13161767--13161813 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
13161757 TCCGGTATCA
13161767 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
13161786 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
13161807 TTTTACC
1 TTTTACC
13161814 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:13161974 original size:20 final size:20
Alignment explanation
Indices: 13161947--13161993 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13161937 TCCGGTAACG
*
13161947 TTTTACCGGTTTTATCAT-T
1 TTTTACCGATTTTATCATAT
13161966 TTGTTACCGATTTTATCATAT
1 TT-TTACCGATTTTATCATAT
13161987 TTTTACC
1 TTTTACC
13161994 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGATTTTATCATAT
Found at i:13162220 original size:182 final size:180
Alignment explanation
Indices: 13161734--13162205 Score: 730
Period size: 180 Copynumber: 2.6 Consensus size: 180
13161724 CGTACTTACG
* *
13161734 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
13161799 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
*
13161864 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
13161914 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
13161979 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** *
13162044 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
13162096 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
13162160 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
13162206 AATTTGAATC
Statistics
Matches: 266, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
180 104 0.39
181 63 0.24
182 98 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:13162726 original size:229 final size:228
Alignment explanation
Indices: 13162272--13162766 Score: 911
Period size: 229 Copynumber: 2.2 Consensus size: 228
13162262 ATCTACTTTT
13162272 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
13162337 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
*
13162402 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
131 AAATTATTTGATTATTTGATATTTTATAAAATATTATTGAGAATTTAAATTTAACAATATTAACC
* *
13162467 AAATATAATAATAAATATGTTTTCCACAGTGAA
196 AAAGATAATAATAAATATATTTTCCACAGTGAA
13162500 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
13162565 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 A-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
*
13162630 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTGAGAATTTAAATTTAACAATATTAA
130 AAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTGAGAATTTAAATTTAACAATATTAA
13162695 CCAAAGATAATAATAAATATATTTT-CACAGTGAA
194 CCAAAGATAATAATAAATATATTTTCCACAGTGAA
* *
13162729 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
13162767 ACAATATAAC
Statistics
Matches: 259, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
228 66 0.25
229 122 0.47
230 71 0.27
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
AAATTATTTGATTATTTGATATTTTATAAAATATTATTGAGAATTTAAATTTAACAATATTAACC
AAAGATAATAATAAATATATTTTCCACAGTGAA
Found at i:13165125 original size:39 final size:40
Alignment explanation
Indices: 13165082--13165180 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 40
13165072 AGGTTGAACA
*
13165082 AGTTCTTCTCATTATGAACTTCTTCTCCCTCAT-T-GGATG
1 AGTTCTTCTCATTATGAACTTATTCT-CCTCATGTCGGATG
* **
13165121 AGTTCTTCTCATTATAAACTTATTCTCCTTTTGTCGGATG
1 AGTTCTTCTCATTATGAACTTATTCTCCTCATGTCGGATG
* *
13165161 AGTTCTTATCTTTATGAACT
1 AGTTCTTCTCATTATGAACT
13165181 CTCCACTGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.08
39 25 0.49
40 22 0.43
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTATTCTCCTCATGTCGGATG
Found at i:13165201 original size:179 final size:175
Alignment explanation
Indices: 13164943--13165316 Score: 441
Period size: 179 Copynumber: 2.1 Consensus size: 175
13164933 AGGTTGAACA
* * *
13164943 AGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAAATGAATTCTTCTCATTATGAACTCTCTAC
1 AGTTCTTCTCATTATGAACTTATTCTCCCTTATCAAATGAATTCTTATCATTATGAACTCTCCAC
* * *** *
13165008 TGGAAATATTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATG-TGATGAATCGAGCT-
66 TGGAAATATTGATCCCTCAAGCGAGGTGTCACTGATTCAA----A-ATGTTG-TGAATCAAG-TG
* * *
13165071 A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATTGGATG
124 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCACTCTATTGGATG
* * * ** * *
13165121 AGTTCTTCTCATTATAAACTTATTCTCCTTTTGTCGGATGAGTTCTTATCTTTATGAACTCTCCA
1 AGTTCTTCTCATTATGAACTTATTCTCC-CTTATCAAATGAATTCTTATCATTATGAACTCTCCA
* *
13165186 CTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTGTGAATCAAGTGATAGGT
65 CTGGAAATATTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCAAGTGATAGGT
* *
13165251 CGAACAAGCTCTTCTCATTATGAACTTTTTCTTACTCTATTGGATG
130 CGAACAAGCTCTTCTCATTATGAACTTCTTCTCACTCTATTGGATG
13165297 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
13165317 CTCTACTCAA
Statistics
Matches: 167, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
173 1 0.01
174 12 0.07
175 39 0.23
176 27 0.16
178 26 0.16
179 62 0.37
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (175 bp):
AGTTCTTCTCATTATGAACTTATTCTCCCTTATCAAATGAATTCTTATCATTATGAACTCTCCAC
TGGAAATATTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCAAGTGATAGGTC
GAACAAGCTCTTCTCATTATGAACTTCTTCTCACTCTATTGGATG
Found at i:13165368 original size:136 final size:136
Alignment explanation
Indices: 13165124--13165472 Score: 520
Period size: 136 Copynumber: 2.6 Consensus size: 136
13165114 TTGGATGAGT
* * * *
13165124 TCTTCTCATTATAAACTTATTCTC-CTTTTGTCGGATGAGTTCTTATCTTTATGAACTCTCCACT
1 TCTTCTCATTATGAACTTATTCTCAC-TCTATCGGATGAGTTCTTATCATTATGAACTCTCCACT
*
13165188 GGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTGTGAATCAAGTGATAGGTCG
65 GGAAATATTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTGTGAATCAAGTGATAGGTCG
13165253 AACAAGC
130 AACAAGC
* * * * * *
13165260 TCTTCTCATTATGAACTTTTTCTTACTCTATTGGATGAGTTCTTCTCATTATGAACTCTCTACTC
1 TCTTCTCATTATGAACTTATTCTCACTCTATCGGATGAGTTCTTATCATTATGAACTCTCCACTG
* * * *
13165325 AAAATATTGATCCCTCAAGTGAGGTGTCACTGATTTGAAATGTTGTGAATCGAGTGATAGGTCGA
66 GAAATATTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTGTGAATCAAGTGATAGGTCGA
13165390 ACAAGC
131 ACAAGC
* * *
13165396 TCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTATCATTATGATCTCTCCACTG
1 TCTTCTCATTATGAACTTATTCTCACTCTATCGGATGAGTTCTTATCATTATGAACTCTCCACTG
13165461 GAAATATTGATC
66 GAAATATTGATC
13165473 GGTTTATTCT
Statistics
Matches: 187, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
136 186 0.99
137 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (136 bp):
TCTTCTCATTATGAACTTATTCTCACTCTATCGGATGAGTTCTTATCATTATGAACTCTCCACTG
GAAATATTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTGTGAATCAAGTGATAGGTCGA
ACAAGC
Found at i:13166522 original size:42 final size:42
Alignment explanation
Indices: 13166427--13166569 Score: 141
Period size: 42 Copynumber: 3.4 Consensus size: 42
13166417 AGGTCTTATG
* *
13166427 GATGGC-TCGAAGGACTT-ATCATCTTGCTCGAAAGACTTA-T
1 GATGGCAT-GAAGGACTTAAGCATCATGCTCGAAAGACTTACT
* * ** **
13166467 AAATGACCCGAAGGGTTTAAGCATCATGCTCGAAAGACTTACT
1 -GATGGCATGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
**
13166510 GATGGCATGAAGGACTTACTCATCATGCTCGAAAGACTTACT
1 GATGGCATGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
13166552 GATGGC-TCGAAGGACTTA
1 GATGGCAT-GAAGGACTTA
13166570 TGCTGATTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
41 12 0.14
42 70 0.84
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (42 bp):
GATGGCATGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
Found at i:13166527 original size:20 final size:20
Alignment explanation
Indices: 13166494--13166569 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
13166484 TAAGCATCAT
*
13166494 GCTCGAAAGACTTACTGATG
1 GCTCGAAGGACTTACTGATG
* *
13166514 GCAT-GAAGGACTTACTCATCAT
1 GC-TCGAAGGACTTACTGAT--G
*
13166536 GCTCGAAAGACTTACTGATG
1 GCTCGAAGGACTTACTGATG
13166556 GCTCGAAGGACTTA
1 GCTCGAAGGACTTA
13166570 TGCTGATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
20 28 0.62
21 2 0.04
22 15 0.33
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (20 bp):
GCTCGAAGGACTTACTGATG
Found at i:13166793 original size:42 final size:41
Alignment explanation
Indices: 13166682--13166797 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 41
13166672 AAACACCTTT
* * * * * *
13166682 CTCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTG
1 CTCGAAAGACTTATAGATGGCCCGAAGGACTTAGCATCATG
* * * *
13166723 CTCGAAAGACTTATATATGACCCAAAGGATTTAAGCATCATG
1 CTCGAAAGACTTATAGATGGCCCGAAGGACTT-AGCATCATG
13166765 CTCGAAAGACTTACT-GATGGCCCGAAGGACTTA
1 CTCGAAAGACTTA-TAGATGGCCCGAAGGACTTA
13166798 CTCATTAAGA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 25 0.42
42 33 0.56
43 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
CTCGAAAGACTTATAGATGGCCCGAAGGACTTAGCATCATG
Found at i:13167017 original size:53 final size:53
Alignment explanation
Indices: 13166847--13167089 Score: 242
Period size: 52 Copynumber: 4.5 Consensus size: 53
13166837 GTTATCTAAG
*
13166847 AACCCCTAAAAATTAGGCTTAGTTTCCTTTTAAAACTCA-TTGAAAATCATCATCAAGA
1 AACCCCTAAAAATTAGGCTTAGTTT-C-TTTAAAATTCATTTG-AAA--A-CATCAAGA
* * *
13166905 AACCCCTGAAAATCAGGCTTAGTTTC-TAAAAATTCATTTGAAAACATCAAGA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATCAAGA
* * * * *
13166957 AATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTTGAAAACATTAATA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATCAAGA
* ** * *
13167010 AACCCCT-AAAATTAGGATTAACTTCTTTCAAATTCATTT-AGAAACATCGAGA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAATTCATTTGA-AAACATCAAGA
* *
13167062 AACCCCAAAAAAATTAGGATTAGTTTCT
1 AACCCC-TAAAAATTAGGCTTAGTTTCT
13167090 AAAAATATTT
Statistics
Matches: 158, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
51 1 0.01
52 73 0.46
53 29 0.18
54 17 0.11
55 11 0.07
56 3 0.02
57 1 0.01
58 23 0.15
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (53 bp):
AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATCAAGA
Found at i:13167048 original size:105 final size:107
Alignment explanation
Indices: 13166847--13167089 Score: 262
Period size: 105 Copynumber: 2.3 Consensus size: 107
13166837 GTTATCTAAG
13166847 AACCCCTAAAAATTAGGCTTAGTTTCCTTTTAAAACTCATTGAAAATCATCATCAAGAAACCCCT
1 AACCCCTAAAAATTAGGCTTAGTTT-C-TTTAAAACTCATTGAAAATCAT-ATCAAGAAACCCCT
* **
13166912 GAAAATCAGGCTTAGTTTCTAAAAATTCATTT-GAAAACATCAAGA
63 GAAAATCAGGATTAACTTCTAAAAATTCATTTAG-AAACATCAAGA
* * * * *
13166957 AATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTTGAAAA-CAT-T-AATAAACCCCT-A
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAACTCA-TTGAAAATCATATCAAGAAACCCCTGA
* ** *
13167018 AAATTAGGATTAACTTCTTTCAAATTCATTTAGAAACATCGAGA
65 AAATCAGGATTAACTTC-TAAAAATTCATTTAGAAACATCAAGA
* *
13167062 AACCCCAAAAAAATTAGGATTAGTTTCT
1 AACCCC-TAAAAATTAGGCTTAGTTTCT
13167090 AAAAATATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
104 14 0.12
105 36 0.32
106 20 0.18
108 12 0.11
109 8 0.07
110 23 0.20
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (107 bp):
AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAACTCATTGAAAATCATATCAAGAAACCCCTGAA
AATCAGGATTAACTTCTAAAAATTCATTTAGAAACATCAAGA
Found at i:13167144 original size:39 final size:38
Alignment explanation
Indices: 13167096--13167210 Score: 141
Period size: 39 Copynumber: 3.1 Consensus size: 38
13167086 TTCTAAAAAT
* *
13167096 ATTT-TGTTTCGAACGAAACTATCTCAAGCAAGATAAA
1 ATTTCTGTTTCGAATGAAACTATCTCAAGCGAGATAAA
*
13167133 ATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAA
1 AT-TTCTGTTTCGAATGAAACTATCTCAAGCGAGATAAA
13167172 A-TTCAT-TTT--AAGTGAAACTATCTCAAGCGAGATAAA
1 ATTTC-TGTTTCGAA-TGAAACTATCTCAAGCGAGATAAA
13167208 ATT
1 ATT
13167211 CATTTCAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
35 1 0.01
36 25 0.36
37 9 0.13
38 3 0.04
39 31 0.45
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (38 bp):
ATTTCTGTTTCGAATGAAACTATCTCAAGCGAGATAAA
Found at i:13167193 original size:36 final size:36
Alignment explanation
Indices: 13167110--13167477 Score: 281
Period size: 36 Copynumber: 10.1 Consensus size: 36
13167100 TGTTTCGAAC
** * *
13167110 GAAACTATCTCAAGCAAGATAAAATCTTCTGTTTCGAGT
1 GAAACTATCTCAAGGGAGATAAAA--TTC-GTTTCAAGG
* * * *
13167149 GAAACTATCTCAAGCGAGATAAAATTCATTTTAAGT
1 GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
* * *
13167185 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGA
1 GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
* * ** * * *
13167221 GAAACTGTCTTAAGGGAGACGAAATTTGTTCCAAGT
1 GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
* * * *
13167257 GAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGG
1 GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
* * * *
13167293 GAAACTGTCTCAAGAAGAAAAAAAATT-GTTTCAAGG
1 GAAACTATCTCAAG-GGAGATAAAATTCGTTTCAAGG
* * *
13167329 GAAACAATCTCAAGGGAGACAAAATTTGTTTCAAGG
1 GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
* * * *
13167365 GAAACTGTCTCAGGGGAGATAAAATTTGTTTAAAGG
1 GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
* ** *
13167401 GAAAC-AGTCTCAAGGTAGACGAAATTTGTTTCAAGG
1 GAAACTA-TCTCAAGGGAGATAAAATTCGTTTCAAGG
* ** * * *
13167437 GAAACTGTCTCAAGATATACAAAACTTTGTTTCAAGG
1 GAAACTATCTCAAGGGAGATAAAA-TTCGTTTCAAGG
13167474 GAAA
1 GAAA
13167478 TTGTTTCAAG
Statistics
Matches: 280, Mismatches: 44, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
35 9 0.03
36 220 0.79
37 28 0.10
39 23 0.08
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
GAAACTATCTCAAGGGAGATAAAATTCGTTTCAAGG
Found at i:13167268 original size:72 final size:72
Alignment explanation
Indices: 13167139--13167542 Score: 351
Period size: 72 Copynumber: 5.6 Consensus size: 72
13167129 TAAAATCTTC
* * * * * ** * * * *
13167139 TGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATTCATTTTAAGTGAAACTATCTCAAGCGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACAATCTCAAGGGAGA
*
13167204 TAAAATT
66 CAAAATT
** * * ** * * **
13167211 CATTTCAAGAGAAACTGTCTTAAGGGAGACGAAATTTGTTCCAAGTGAAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACAATCTCAAGGGAGA
13167276 CAAAATT
66 CAAAATT
* * *
13167283 TGTTTTAAGGGAAACTGTCTCAA-GAAGAAAAAAAATTGTTTCAAGGGAAACAATCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAG-AAAAAATTTGTTTCAAGGGAAACAATCTCAAGGGAG
13167347 ACAAAATT
65 ACAAAATT
* * * * *
13167355 TGTTTCAAGGGAAACTGTCTCAGGGGAGATAAAATTTGTTTAAAGGGAAACAGTCTCAAGGTAGA
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACAATCTCAAGGGAGA
*
13167420 CGAAATT
66 CAAAATT
** * * *** * **
13167427 TGTTTCAAGGGAAACTGTCTCAAGATATACAAAACTTTGTTTCAAGGGAAATTGTTTCAAGAAAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGA-AAAAATTTGTTTCAAGGGAAACAATCTCAAGGGAG
13167492 ACAAAACTT
65 ACAAAA-TT
** * * *
13167501 TGTTTTGAGTAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
1 TGTTTCAAG-GGAAACTGTCTCAAGGGAGAAAAAATTTGTTT
13167543 TGAGTAAAAA
Statistics
Matches: 269, Mismatches: 58, Indels: 8
0.80 0.17 0.02
Matches are distributed among these distances:
71 3 0.01
72 195 0.72
73 35 0.13
74 19 0.07
75 17 0.06
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.28
Consensus pattern (72 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACAATCTCAAGGGAGA
CAAAATT
Found at i:13167344 original size:108 final size:108
Alignment explanation
Indices: 13167139--13167579 Score: 384
Period size: 108 Copynumber: 4.0 Consensus size: 108
13167129 TAAAATCTTC
* * * * * ** * * * *
13167139 TGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATTCATTTTAAGTGAAACTATCTCAAG-CGAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTCAAGAAGAA
* * * * *
13167203 ATAAAATTCATTTCAAGAGAAACTGTCTTAAGGGAGACGAAATT
66 AAAAAATT-GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
13167247 TGTTCCAAGTGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTCAAGAAGAA
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTCAAGAAGAA
**
13167312 AAAAAATTGTTTCAAGGGAAACAATCTCAAGGGAGACAAAATT
66 AAAAAATTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * * * *
13167355 TGTTTCAAGGGAAACTGTCTCAGGGGAGATAAAATTTGTTTAAAGGGAAACAGTCTCAAGGTAG-
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTCAA-GAAGA
** * ** *
13167419 ACGAAATTTGTTTCAAGGGAAACTGTCTCAAGATATACAAAACTT
65 AAAAAAATTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TT
* * ** * *
13167464 TGTTTCAAGGGAAATTGTTTCAAGAAAGACAAAACTTTGTTTTGAGTAGAAACTGTCTCAAG-AG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAG-GGAAACTGTCTCAAGAAG
* * ** ** * * *
13167528 AGACAAAATTTGTTTTGAGTAAAAATTGTCTCAAGAGAGACAAAACT
64 A-AAAAAAATTGTTTCAAG-GGAAACTGTCTCAAGGGAGACAAAATT
13167575 TGTTT
1 TGTTT
13167580 TGAGTAAAAA
Statistics
Matches: 273, Mismatches: 52, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
108 167 0.61
109 44 0.16
110 10 0.04
111 32 0.12
112 20 0.07
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (108 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTCAAGAAGAA
AAAAAATTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:13167558 original size:37 final size:37
Alignment explanation
Indices: 13167475--13167611 Score: 193
Period size: 37 Copynumber: 3.7 Consensus size: 37
13167465 GTTTCAAGGG
* * *
13167475 AAATTGTTTCAAGAAAGACAAAACTTTGTTTTGAGTAG
1 AAATTGTCTCAAGAGAGACAAAA-TTTGTTTTGAGTAA
*
13167513 AAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
1 AAATTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
*
13167550 AAATTGTCTCAAGAGAGACAAAACTTGTTTTGAGTAA
1 AAATTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
* * *
13167587 AAATTGTTTGAAGTGAGACAAAATT
1 AAATTGTCTCAAGAGAGACAAAATT
13167612 CATTTCAAGG
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
37 69 0.78
38 20 0.22
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (37 bp):
AAATTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
Found at i:13167577 original size:21 final size:21
Alignment explanation
Indices: 13167513--13167577 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 21
13167503 TTTTGAGTAG
13167513 AAAC-TGTCTCAAGAGAGACA
1 AAACTTGTCTCAAGAGAGACA
* ** *
13167533 AAATTTGT-T-TTGAG-TA-A
1 AAACTTGTCTCAAGAGAGACA
13167550 AAA-TTGTCTCAAGAGAGACA
1 AAACTTGTCTCAAGAGAGACA
13167570 AAACTTGT
1 AAACTTGT
13167578 TTTGAGTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 11
0.64 0.14 0.22
Matches are distributed among these distances:
16 4 0.12
17 5 0.16
18 4 0.12
19 4 0.12
20 8 0.25
21 7 0.22
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (21 bp):
AAACTTGTCTCAAGAGAGACA
Found at i:13167790 original size:37 final size:38
Alignment explanation
Indices: 13167666--13167790 Score: 89
Period size: 37 Copynumber: 3.3 Consensus size: 38
13167656 TGTCTCAAGG
* ** * *
13167666 GAGACAAAA-TTTGTTTTGAGTTAAAATTGTCTATAAG-
1 GAGACAAAATTTTGTTTTAAGAGAAAATCGTCT-TCAGT
* * *
13167703 GAGACAAAATTTTGTTTCTTAGAGAAAAACAATC-TCAAGT
1 GAGACAAAATTTTGTTT-TAAGAGAAAATC-GTCTTC-AGT
**
13167743 GAGA-TTAATTTTGTTTTAAG-GAAAATCGTCTTCAGT
1 GAGACAAAATTTTGTTTTAAGAGAAAATCGTCTTCAGT
13167779 GAGACAAAATTT
1 GAGACAAAATTT
13167791 GTTCTTTGGA
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
36 9 0.13
37 22 0.33
38 11 0.16
39 19 0.28
40 6 0.09
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (38 bp):
GAGACAAAATTTTGTTTTAAGAGAAAATCGTCTTCAGT
Found at i:13167792 original size:36 final size:37
Alignment explanation
Indices: 13167666--13167793 Score: 91
Period size: 36 Copynumber: 3.4 Consensus size: 37
13167656 TGTCTCAAGG
* ** * *
13167666 GAGACAAAATTTGTTTTGAGTTAAAATTGTCTATAAG-
1 GAGACAAAATTTGTTTTAAGAGAAAATCGTCT-TCAGT
* * *
13167703 GAGACAAAATTTTGTTTCTTAGAGAAAAACAATC-TCAAGT
1 GAGACAAAA-TTTGTTT-TAAGAGAAAATC-GTCTTC-AGT
** *
13167743 GAGATTAATTTTGTTTTAAG-GAAAATCGTCTTCAGT
1 GAGACAAAATTTGTTTTAAGAGAAAATCGTCTTCAGT
13167779 GAGACAAAATTTGTT
1 GAGACAAAATTTGTT
13167794 CTTTGGAAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
36 17 0.25
37 17 0.25
38 11 0.16
39 16 0.23
40 8 0.12
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (37 bp):
GAGACAAAATTTGTTTTAAGAGAAAATCGTCTTCAGT
Found at i:13167828 original size:36 final size:35
Alignment explanation
Indices: 13167710--13167829 Score: 93
Period size: 36 Copynumber: 3.3 Consensus size: 35
13167700 AAGGAGACAA
* *
13167710 AATTTTGTTTCTTAGAGAAAAACAATCTCAAGTGAGATT
1 AATTTTG-TTCTTAG-G-AAAACTATCTC-AGTGAGATC
*
13167749 AATTTTGTT-TTAAGGAAAA-TCGTCTTCAGTGAGA-C
1 AATTTTGTTCTT-AGGAAAACT-ATC-TCAGTGAGATC
* *
13167784 AAAATTTGTTCTTTGGAAAACTATCTCATGTGAGATC
1 -AATTTTGTTCTTAGGAAAACTATCTCA-GTGAGATC
13167821 AATTTTGTT
1 AATTTTGTT
13167830 TTAAATATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
35 3 0.05
36 43 0.65
37 9 0.14
38 4 0.06
39 7 0.11
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (35 bp):
AATTTTGTTCTTAGGAAAACTATCTCAGTGAGATC
Found at i:13167996 original size:37 final size:37
Alignment explanation
Indices: 13167953--13168066 Score: 142
Period size: 37 Copynumber: 3.1 Consensus size: 37
13167943 ACTCCGAATG
13167953 AAAATGTCTCAAGTGAAACGAAATTTTTTTTAAGATA
1 AAAATGTCTCAAGTGAAACGAAATTTTTTTTAAGATA
* *
13167990 AAAATGTCTCGAGTGAGAA--AAATTTGTTTTTAAGAGA
1 AAAATGTCTCAAGTGA-AACGAAATTT-TTTTTAAGATA
* * *
13168027 AAAATGTCTCAAGTGAGACGACATTTTGTTTCAAGATA
1 AAAATGTCTCAAGTGAAACGAAATTTT-TTTTAAGATA
13168065 AA
1 AA
13168067 CAATACCCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
36 7 0.11
37 41 0.63
38 17 0.26
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (37 bp):
AAAATGTCTCAAGTGAAACGAAATTTTTTTTAAGATA
Found at i:13169469 original size:4 final size:4
Alignment explanation
Indices: 13169460--13169490 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
13169450 GCTTTATTGT
13169460 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
13169491 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:13174524 original size:20 final size:20
Alignment explanation
Indices: 13174499--13174644 Score: 265
Period size: 20 Copynumber: 7.3 Consensus size: 20
13174489 AATGCACTTA
*
13174499 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGCT
13174519 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
13174539 GTACATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
13174559 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
13174579 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
13174599 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
13174619 GTGCATCGATGTATCCTGCT
1 GTGCATCGATGCATCCTGCT
13174639 GTGCAT
1 GTGCAT
13174645 ACATGCACGA
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 122 1.00
ACGTcount: A:0.16, C:0.28, G:0.25, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:13176604 original size:19 final size:19
Alignment explanation
Indices: 13176580--13176622 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
13176570 TTAAAGATAT
13176580 TTTGATTTTGAAAGCAAAA
1 TTTGATTTTGAAAGCAAAA
13176599 TTTGATTTTGAAAGCAAAA
1 TTTGATTTTGAAAGCAAAA
*
13176618 GTTGA
1 TTTGA
13176623 CAACTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (19 bp):
TTTGATTTTGAAAGCAAAA
Found at i:13178013 original size:21 final size:21
Alignment explanation
Indices: 13177987--13178085 Score: 132
Period size: 21 Copynumber: 4.7 Consensus size: 21
13177977 AGGGTGTCAA
13177987 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
13178008 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
13178029 AGTGCATCCATGCA--CCTGCAC
1 AGTGCATCCATGCACCCCTG--C
* *
13178050 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTGC
13178071 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
13178086 TCCATTTCGA
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.06
20 13 0.19
21 37 0.53
22 13 0.19
23 3 0.04
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:13178157 original size:20 final size:20
Alignment explanation
Indices: 13178105--13178150 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13178095 AATGCACTTA
*
13178105 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGCT
*
13178125 GTGTATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
13178145 GTGCAT
1 GTGCAT
13178151 ACATGCACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:13178563 original size:34 final size:32
Alignment explanation
Indices: 13178524--13178593 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
13178514 TTTTGTAAAG
* *
13178524 GGGAAATGTTATAGATTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGATTAGCCCG-G-AAAAACTA
* *
13178558 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGATTAGCCCGGAAAAACTA
13178590 GGGA
1 GGGA
13178594 GCTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTATAGATTAGCCCGGAAAAACTA
Found at i:13180762 original size:21 final size:21
Alignment explanation
Indices: 13180736--13180789 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
13180726 CATTACAAGT
13180736 GTTACCATTTTAGTACCAAAC
1 GTTACCATTTTAGTACCAAAC
*
13180757 GTTACCATTTTAGTACCTAAC
1 GTTACCATTTTAGTACCAAAC
13180778 GTTACCATTTTA
1 GTTACCATTTTA
13180790 TGTGCTCGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (21 bp):
GTTACCATTTTAGTACCAAAC
Found at i:13185020 original size:20 final size:20
Alignment explanation
Indices: 13184984--13185021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13184974 ATCCTATTTC
**
13184984 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
13185004 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
13185022 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:13187621 original size:60 final size:59
Alignment explanation
Indices: 13187502--13187670 Score: 180
Period size: 60 Copynumber: 2.8 Consensus size: 59
13187492 TATACATACT
* * ** *
13187502 CAAATTATGA-TTTTCATTTTAAATTAATCCTTAAACTTTTAAATATTTTAAATTTATCCC
1 CAAATTATGACTTTT-ATTTTAAATTAATCCTTAAACTTTTGAACATTCCAAATTCAT-CC
* *
13187562 CAAATTATGACTTTTATTTTGAATTAATCCTTAAACTTTTGAACATTCCAACTTCATCC
1 CAAATTATGACTTTTATTTTAAATTAATCCTTAAACTTTTGAACATTCCAAATTCATCC
* * * ** *
13187621 CAAACTATGACTCTCATCCTAAATTAA-CCTCCAAACTTTTGAACATTCCA
1 CAAATTATGACTTTTATTTTAAATTAATCCT-TAAACTTTTGAACATTCCA
13187671 GAGACTTCCC
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
58 3 0.03
59 41 0.44
60 45 0.48
61 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.41
Consensus pattern (59 bp):
CAAATTATGACTTTTATTTTAAATTAATCCTTAAACTTTTGAACATTCCAAATTCATCC
Found at i:13198340 original size:21 final size:21
Alignment explanation
Indices: 13198305--13198348 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
13198295 TAAAGGATTG
*
13198305 AAATTAAACTAAATTAAAAGGC
1 AAATCAAACTAAATT-AAAGGC
13198327 AAATCAAA-TAAATTAAAGGC
1 AAATCAAACTAAATTAAAGGC
13198347 AA
1 AA
13198349 TTAATAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (21 bp):
AAATCAAACTAAATTAAAGGC
Found at i:13201223 original size:40 final size:39
Alignment explanation
Indices: 13201155--13201269 Score: 212
Period size: 40 Copynumber: 2.9 Consensus size: 39
13201145 GGTTTATAAT
13201155 ACTTCGGTGTATATGTGGGCACGACCTTATGTGTAATAC
1 ACTTCGGTGTATATGTGGGCACGACCTTATGTGTAATAC
13201194 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCGGTGTATAT-GTGGGCACGACCTTATGTGTAATAC
13201234 ACTTCGGTGTATATAGTGGGCACGACCTTATGTGTA
1 ACTTCGGTGTATAT-GTGGGCACGACCTTATGTGTA
13201270 GCACTACGGT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
39 14 0.19
40 60 0.81
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (39 bp):
ACTTCGGTGTATATGTGGGCACGACCTTATGTGTAATAC
Found at i:13201468 original size:47 final size:45
Alignment explanation
Indices: 13201374--13201499 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
13201364 GTAAGCATAC
* *
13201374 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
13201418 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
*
13201465 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
13201500 GGATTTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:13203502 original size:105 final size:105
Alignment explanation
Indices: 13203308--13203718 Score: 553
Period size: 105 Copynumber: 3.9 Consensus size: 105
13203298 GCAAAAAGTT
* * * *
13203308 GAACAAGTTATTCTCATTATGAACTTTCTCCTTT-GTGGCGAGTTCTTCTCATTATGAACTCTTT
1 GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAG-GGTGAGTTCTTCTCATTATGAACTCTTC
* * * * *
13203372 TGGAAATGTCGATTCACTTCTTTCTGCGGTGGATTTGAAAA
65 TGGAAATGTCGATCCACCTCCTTCTGCTGTGGATTTGAAAG
* *
13203413 GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAGGGAGAGTTCTTCTCATTATGAACTCTCCT
1 GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTATGAACTCTTCT
* *
13203478 GGAAATGTAGATCCACCTCCTTCTGCTGTGGATTTTAAAG
66 GGAAATGTCGATCCACCTCCTTCTGCTGTGGATTTGAAAG
* * *
13203518 GAACAAGTTCTTCTCATTAAGAACTTTCTCCTTTAGGGTGAGTTATTCTCATTATGAACTCTTCT
1 GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTATGAACTCTTCT
* * *
13203583 GGAAATGTTGATCCACCTCATTCTGCTATGGATTTGAAAG
66 GGAAATGTCGATCCACCTCCTTCTGCTGTGGATTTGAAAG
* * **
13203623 GAAC-AA--GTTCTAATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTGCGAACTCTTCT
1 GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTATGAACTCTTCT
*
13203685 GAAAAT-TCCGATCCACCTCCTTCTGCTGTGGATT
66 GGAAATGT-CGATCCACCTCCTTCTGCTGTGGATT
13203719 CACCAAGGTT
Statistics
Matches: 272, Mismatches: 32, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
101 1 0.00
102 78 0.29
104 1 0.00
105 191 0.70
106 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (105 bp):
GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTCGATCCACCTCCTTCTGCTGTGGATTTGAAAG
Found at i:13204056 original size:136 final size:136
Alignment explanation
Indices: 13203808--13204294 Score: 674
Period size: 136 Copynumber: 3.6 Consensus size: 136
13203798 AAACAAGCTA
* * *
13203808 AGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCT-TATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * ** * * ** *
13203872 GAACTCTCTACTGGAAATGTTGATCCCTCGAGTGAAGTGTTGTTGATTCGAAATGTCATGAATTG
66 GAACTCTCCATTTGAAATGTAAATCCCTCAAGTGAGGTGTCATTGATTCGAAATGTCATGAATCG
*
13203937 AGCGAT
131 AGTGAT
* * *
13203943 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCGTTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* ** *
13204008 GAACTCTCCATTTGAAATATAAATCCCTCAAGTGAGGCATCATTGATTCGAAATGTCTTGAATCG
66 GAACTCTCCATTTGAAATGTAAATCCCTCAAGTGAGGTGTCATTGATTCGAAATGTCATGAATCG
13204073 AGTGAT
131 AGTGAT
* *
13204079 AGGTCGAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * *
13204144 GAACTTTTCATTTGAAATGTCAATCCCTCATGTGTGGTGTCACTGATTCGAAATGTCATGAATCG
66 GAACTCTCCATTTGAAATGTAAATCCCTCAAGTGAGGTGTCATTGATTCGAAATGTCATGAATCG
13204209 AGTGAT
131 AGTGAT
* *
13204215 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTC-ATCGGATGATTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
13204279 GAACTCTCCA-TTGAAA
66 GAACTCTCCATTTGAAA
13204295 ATGTTGATTG
Statistics
Matches: 311, Mismatches: 40, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
134 6 0.02
135 66 0.21
136 239 0.77
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (136 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTCCATTTGAAATGTAAATCCCTCAAGTGAGGTGTCATTGATTCGAAATGTCATGAATCG
AGTGAT
Found at i:13205382 original size:42 final size:41
Alignment explanation
Indices: 13205269--13205382 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 41
13205259 GCCCGAAGGT
* *
13205269 CTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCTCGAAGGACTTATCATCATGCTCGAAAGA
* * *
13205310 CTTATAGATGAC-CTGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCTC-GAAGGACTT-ATCATCATGCTCGAAAGA
*
13205352 CTTATTGATGGCTCGAAGGACTTACTCATCA
1 CTTATAGATGGCTCGAAGGACTTA-TCATCA
13205383 AGAAACCCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.02
41 19 0.32
42 39 0.65
43 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (41 bp):
CTTATAGATGGCTCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:13205593 original size:53 final size:53
Alignment explanation
Indices: 13205419--13205980 Score: 625
Period size: 53 Copynumber: 10.5 Consensus size: 53
13205409 TTCTTAGTTG
* * *
13205419 TCAAGGAACCCCTAAAAATTAGGCTTAGATTCCTTTTAAAAAAATTCA-TTGAAAATCATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTT-C-TTT---CAAATTCATTTG-AAA--A-CA
* * * * * ** *
13205480 TCAATAAACCTCTAAAAATCAAGCTTAGTTTC-TAAAAAATCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
* **
13205532 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAATTCAACTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
* * *
13205585 TCAAGAAACCCCTACAAA-TAGGCTTAGCTTCTTTTAAATTCATTAGAAATA-A
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAA-ACA
* * * * *
13205637 TCAAGAAACCCCTGAAAATCAGACTTAGATTCTTTCAAATTCATTTGAAACCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
*
13205690 TCAAGAAACCCCTAAAAAATAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
* * * * *
13205743 TTAAGAAACCCTTAAAAATCAAGCTTAGCTTCTTTCAAATTCATTTGAAAATA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
* * *
13205796 TCAAGAAACCCCTGAAAATCAAGCTTAGCTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
* * *
13205849 TCAAGAAACCCTTAAAAATTAGGCTTAGCTTCTTTTAAATTCATTGGAAATA-A
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAA-ACA
* * *
13205902 TCAAGAAACCCTTGAAAAATCATGC-TAGCTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCT-AAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
*
13205955 TCAAGAAA-CACTAAAAATTAGGCTTA
1 TCAAGAAACCCCTAAAAATTAGGCTTA
13205981 AATTCTTTAA
Statistics
Matches: 432, Mismatches: 60, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
51 9 0.02
52 79 0.18
53 294 0.68
54 10 0.02
55 10 0.02
56 3 0.01
58 1 0.00
60 1 0.00
61 25 0.06
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
Found at i:13208041 original size:9 final size:9
Alignment explanation
Indices: 13208027--13208083 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
13208017 CTCTCTTCTC
*
13208027 TTTTTCCTT
1 TTTTTCCTA
13208036 TTTTTCCTA
1 TTTTTCCTA
13208045 TTTTT-CTA
1 TTTTTCCTA
13208053 TTTTT--TA
1 TTTTTCCTA
13208060 TTTTT--TA
1 TTTTTCCTA
* *
13208067 TTTTTTCTG
1 TTTTTCCTA
13208076 TTTTTCCT
1 TTTTTCCT
13208084 TTCTTTTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
7 14 0.33
8 8 0.19
9 21 0.49
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTCCTA
Found at i:13208057 original size:8 final size:8
Alignment explanation
Indices: 13208022--13208081 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
13208012 TTCTTCTCTC
*
13208022 TTCTCTTT
1 TTCTATTT
*
13208030 TTCCTTTTT
1 TT-CTATTT
13208039 TTCCTATTT
1 TT-CTATTT
13208048 TTCTATTT
1 TTCTATTT
13208056 TT-TATTT
1 TTCTATTT
13208063 TT-TATTTT
1 TTCTA-TTT
*
13208071 TTCTGTTT
1 TTCTATTT
13208079 TTC
1 TTC
13208082 CTTTCTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
7 9 0.20
8 21 0.46
9 16 0.35
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.77
Consensus pattern (8 bp):
TTCTATTT
Found at i:13208070 original size:6 final size:7
Alignment explanation
Indices: 13208043--13208072 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
13208033 CTTTTTTTCC
13208043 TATTTTT
1 TATTTTT
13208050 CTATTTTT
1 -TATTTTT
13208058 TATTTTT
1 TATTTTT
13208065 TATTTTT
1 TATTTTT
13208072 T
1 T
13208073 CTGTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:13208092 original size:11 final size:10
Alignment explanation
Indices: 13208076--13208124 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 10
13208066 ATTTTTTCTG
13208076 TTTTTCCTTT
1 TTTTTCCTTT
13208086 CTTTTTCCTTT
1 -TTTTTCCTTT
13208097 CTTTTTCTTCTTAT
1 -TTTTTC--CTT-T
13208111 TTTTTCCTTT
1 TTTTTCCTTT
13208121 TTTT
1 TTTT
13208125 ATTTCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.14
11 20 0.57
13 9 0.26
14 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCCTTT
Found at i:13208097 original size:24 final size:24
Alignment explanation
Indices: 13208070--13208124 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
13208060 TTTTTTATTT
13208070 TTTCTGTTTT-TCCTT-TCTTTTTCC
1 TTTCT-TTTTCTCCTTAT-TTTTTCC
*
13208094 TTTCTTTTTCTTCTTATTTTTTCC
1 TTTCTTTTTCTCCTTATTTTTTCC
13208118 TTT-TTTT
1 TTTCTTTT
13208125 ATTTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
24 19 0.68
25 1 0.04
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTCTCCTTATTTTTTCC
Found at i:13208132 original size:12 final size:11
Alignment explanation
Indices: 13208045--13208134 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
13208035 TTTTTTCCTA
13208045 TTTTTCTATTTT
1 TTTTTCT-TTTT
*
13208057 TTATTT-TTTAT
1 TT-TTTCTTTTT
13208068 TTTTTCTGTTTT
1 TTTTTCT-TTTT
*
13208080 TCCTTTCTTTTT
1 T-TTTTCTTTTT
**
13208092 CCTTTC--TTT
1 TTTTTCTTTTT
* *
13208101 TTCTTCTTATT
1 TTTTTCTTTTT
*
13208112 TTTTCCTTTTT
1 TTTTTCTTTTT
13208123 TTATTTCTTTTT
1 TT-TTTCTTTTT
13208135 CTATATTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
9 6 0.10
10 3 0.05
11 23 0.39
12 19 0.32
13 8 0.14
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:13208422 original size:2 final size:2
Alignment explanation
Indices: 13208415--13208454 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13208405 ACAACAAGGG
13208415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13208455 GAAAGGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13212037 original size:23 final size:22
Alignment explanation
Indices: 13212009--13212082 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
13211999 TAAAATACAC
13212009 TAATAAAAAGACGAAAATTAAAG
1 TAATAAAAAGA-GAAAATTAAAG
* * *
13212032 TAATAAAAATGAAGGACA-TGAA-
1 TAATAAAAA-G-AGAAAATTAAAG
*
13212054 TAATAAAAA-ATAAAATTAAAG
1 TAATAAAAAGAGAAAATTAAAG
13212075 TAATAAAA
1 TAATAAAA
13212083 TTAAAGGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 8 0.20
22 9 0.22
23 12 0.30
24 4 0.10
25 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (22 bp):
TAATAAAAAGAGAAAATTAAAG
Found at i:13212081 original size:14 final size:14
Alignment explanation
Indices: 13212022--13212088 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 14
13212012 TAAAAAGACG
13212022 AAAATTAAAGTAAT
1 AAAATTAAAGTAAT
* * *
13212036 AAAAATGAAGGACAT
1 AAAATTAAAGTA-AT
*
13212051 GAATAA-TAAA-AAAT
1 -AA-AATTAAAGTAAT
13212065 AAAATTAAAGTAAT
1 AAAATTAAAGTAAT
13212079 AAAATTAAAG
1 AAAATTAAAG
13212089 GATTGAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
12 2 0.05
13 6 0.14
14 24 0.57
15 3 0.07
16 5 0.12
17 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.10, T:0.22
Consensus pattern (14 bp):
AAAATTAAAGTAAT
Found at i:13212097 original size:14 final size:14
Alignment explanation
Indices: 13212022--13212101 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
13212012 TAAAAAGACG
*
13212022 AAAATTAAAGTAAT
1 AAAATTAAAGGAAT
* *
13212036 AAAAATGAAGGACAT
1 AAAATTAAAGGA-AT
*
13212051 GAATAA-TAAA-AAAT
1 -AA-AATTAAAGGAAT
*
13212065 AAAATTAAAGTAAT
1 AAAATTAAAGGAAT
*
13212079 AAAATTAAAGGATT
1 AAAATTAAAGGAAT
*
13212093 GAAATTAAA
1 AAAATTAAA
13212102 CTAAATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 2 0.04
13 6 0.12
14 34 0.65
15 3 0.06
16 5 0.10
17 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.11, T:0.24
Consensus pattern (14 bp):
AAAATTAAAGGAAT
Found at i:13215263 original size:13 final size:12
Alignment explanation
Indices: 13215247--13215303 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 12
13215237 GTGCAAAAGG
13215247 AAAAGAAAAGACA
1 AAAAGAAAAGA-A
13215260 AAAAGAAGAAGAA
1 AAAAGAA-AAGAA
13215273 AAATTCAGAAAAGAA
1 AAA---AGAAAAGAA
13215288 GAAAAGAAAAAGAA
1 -AAAAG-AAAAGAA
13215302 AA
1 AA
13215304 TCAAAAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 15 0.39
14 11 0.29
15 5 0.13
16 7 0.18
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:13219330 original size:13 final size:12
Alignment explanation
Indices: 13219314--13219370 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 12
13219304 GTGCAAAAGG
13219314 AAAAGAAAAGACA
1 AAAAGAAAAGA-A
13219327 AAAAGAAGAAGAA
1 AAAAGAA-AAGAA
13219340 AAATTTAGAAAAGAA
1 AAA---AGAAAAGAA
13219355 GAAAAGAAAAAGAA
1 -AAAAG-AAAAGAA
13219369 AA
1 AA
13219371 TCAAAAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 15 0.39
14 11 0.29
15 5 0.13
16 7 0.18
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:13225670 original size:50 final size:51
Alignment explanation
Indices: 13225588--13225687 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 51
13225578 GCATGAATCA
* *
13225588 ATCTCCCTTTGGCCGAATGGTGATATGTTGGTTCATCTTGGCACCAAAGTT
1 ATCTCCCTTTGGCCGAATGATGATATGATGGTTCATCTTGGCACCAAAGTT
* * * *
13225639 ATCTCCC-TTGTCCGAATGATGTTGTGATGGTTCATCTTGGCGCCAAAGT
1 ATCTCCCTTTGGCCGAATGATGATATGATGGTTCATCTTGGCACCAAAGT
13225688 CTTTATGTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 36 0.84
51 7 0.16
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (51 bp):
ATCTCCCTTTGGCCGAATGATGATATGATGGTTCATCTTGGCACCAAAGTT
Found at i:13229921 original size:17 final size:17
Alignment explanation
Indices: 13229881--13229921 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
13229871 GAAAAAAAAA
*
13229881 AAGACAAAAAGAAGAAT
1 AAGAAAAAAAGAAGAAT
*
13229898 CAGAAAAAAAGAAGAA-
1 AAGAAAAAAAGAAGAAT
13229914 AAGAAAAA
1 AAGAAAAA
13229922 GAAATTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAGAAGAAT
Found at i:13233944 original size:17 final size:19
Alignment explanation
Indices: 13233924--13233964 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
13233914 GAAACATCGA
13233924 ATGCATT-T-CATGCACCG
1 ATGCATTCTCCATGCACCG
*
13233941 ATGCATTCTCCATGCATCG
1 ATGCATTCTCCATGCACCG
13233960 ATGCA
1 ATGCA
13233965 CTCAGGCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 1 0.05
19 13 0.62
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCATTCTCCATGCACCG
Found at i:13235808 original size:3 final size:3
Alignment explanation
Indices: 13235800--13235825 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13235790 TGTGAGAGCA
13235800 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
13235826 ATTCAAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:13241067 original size:21 final size:21
Alignment explanation
Indices: 13241025--13241068 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
13241015 ACCCCGGGAG
*
13241025 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* * *
13241046 CTAGTTTTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
13241067 CT
1 CT
13241069 CCTCCTCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.34, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:13241712 original size:31 final size:31
Alignment explanation
Indices: 13241677--13241738 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13241667 GAAAATTTAA
13241677 GATGTGCTATAGTAAGGGGGAGTAAGTTTTT
1 GATGTGCTATAGTAAGGGGGAGTAAGTTTTT
13241708 GATGTGCTATAGTAAGGGGGAGTAAGTTTTT
1 GATGTGCTATAGTAAGGGGGAGTAAGTTTTT
13241739 CAAAATCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.35, T:0.35
Consensus pattern (31 bp):
GATGTGCTATAGTAAGGGGGAGTAAGTTTTT
Found at i:13242164 original size:19 final size:17
Alignment explanation
Indices: 13242118--13242165 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
13242108 ATTAATTGAA
13242118 ACATCGAATGCATTTCAT
1 ACATCG-ATGCATTTCAT
*
13242136 ACACCGATGCATTCTCCAT
1 ACATCGATGCATT-T-CAT
*
13242155 GCATCGATGCA
1 ACATCGATGCA
13242166 CTCAGGCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (17 bp):
ACATCGATGCATTTCAT
Found at i:13246649 original size:17 final size:17
Alignment explanation
Indices: 13246606--13246707 Score: 75
Period size: 17 Copynumber: 5.9 Consensus size: 17
13246596 AAGAGTTGGA
* * *
13246606 TTAATAAATAAACTATT
1 TTAATTAATGAACTAGT
* *
13246623 TTGATGAATGAACTAGT
1 TTAATTAATGAACTAGT
*
13246640 TTAATTAATGAACTAACT
1 TTAATTAATGAACT-AGT
13246658 TT-ATTCAATGAACT--T
1 TTAATT-AATGAACTAGT
*
13246673 GTAATCTTGAATGAACTAGT
1 TTAA--TT-AATGAACTAGT
13246693 TTAATTAATGAACTA
1 TTAATTAATGAACTA
13246708 CTTAGTTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
15 2 0.03
16 1 0.01
17 37 0.54
18 24 0.35
20 4 0.06
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (17 bp):
TTAATTAATGAACTAGT
Found at i:13246855 original size:26 final size:26
Alignment explanation
Indices: 13246819--13246880 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
13246809 CTTTAAATTC
13246819 TCATGCAAATTCATGCACAAGCATAA
1 TCATGCAAATTCATGCACAAGCATAA
*
13246845 TCATACAAATTCATGCACAAGCATAA
1 TCATGCAAATTCATGCACAAGCATAA
13246871 TCATGCAAAT
1 TCATGCAAAT
13246881 GAATGACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.24
Consensus pattern (26 bp):
TCATGCAAATTCATGCACAAGCATAA
Found at i:13246876 original size:16 final size:16
Alignment explanation
Indices: 13246829--13246877 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
13246819 TCATGCAAAT
13246829 TCATGCACAAGCATAA
1 TCATGCACAAGCATAA
13246845 TCAT--ACAA--AT--
1 TCATGCACAAGCATAA
13246855 TCATGCACAAGCATAA
1 TCATGCACAAGCATAA
13246871 TCATGCA
1 TCATGCA
13246878 AATGAATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
10 4 0.15
12 6 0.22
14 6 0.22
16 11 0.41
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.22
Consensus pattern (16 bp):
TCATGCACAAGCATAA
Found at i:13263075 original size:24 final size:21
Alignment explanation
Indices: 13263041--13263083 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
13263031 TCCACAAGAT
*
13263041 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
13263063 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
13263084 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:13264942 original size:91 final size:91
Alignment explanation
Indices: 13264787--13264969 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 91
13264777 CCTAGAACAC
13264787 CCATGTGCCTTGCATATGACCAGCCCCCATATGCCTTGCATGTGGATCATTTAGGCACAAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCCCATATGCCTTGCATGTGGATCATTTAGGCACAAAGATG
13264852 AAGAGTTCTCTCCCTATTCGGCCAAG
66 AAGAGTTCTCTCCCTATTCGGCCAAG
** * * * * * *
13264878 CCATGTGTTTTGCATGTGATCAGCCCCCATGTGCCTTGCATGTGGTTCATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCCCATATGCCTTGCATGTGGATCATTTAGGCACAAAGATG
*
13264943 AATAGTTCTCTCCCTATTCGGCCAAG
66 AAGAGTTCTCTCCCTATTCGGCCAAG
13264969 C
1 C
13264970 ATCAACTACC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGACCAGCCCCCATATGCCTTGCATGTGGATCATTTAGGCACAAAGATG
AAGAGTTCTCTCCCTATTCGGCCAAG
Found at i:13269495 original size:19 final size:18
Alignment explanation
Indices: 13269473--13269538 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
13269463 TTTTTTTGAA
13269473 TTCTTTTTCTTTTATTTTC
1 TTCTTTTTCTTTT-TTTTC
*
13269492 TTCTTTTCTGATTTTTTTCTC
1 TTCTTTT-T-CTTTTTTT-TC
* * *
13269513 TTCTTTTTATATTTTTCC
1 TTCTTTTTCTTTTTTTTC
13269531 TTCTTTTT
1 TTCTTTTT
13269539 GCACTCTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.22
19 14 0.34
20 5 0.12
21 13 0.32
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.76
Consensus pattern (18 bp):
TTCTTTTTCTTTTTTTTC
Found at i:13269843 original size:19 final size:20
Alignment explanation
Indices: 13269794--13269843 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
13269784 TAATAAAGGG
13269794 AATAATAAT-ATAAGTAATGA
1 AATAA-AATAATAAGTAATGA
*
13269814 AAAATAAATAATAAG-AATGA
1 AATA-AAATAATAAGTAATGA
13269834 AATAAAATAA
1 AATAAAATAA
13269844 AGAAAGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.23
20 14 0.54
21 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATAAAATAATAAGTAATGA
Found at i:13279604 original size:24 final size:21
Alignment explanation
Indices: 13279570--13279612 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
13279560 TCCACAAGAC
*
13279570 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
13279592 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
13279613 ATAATGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:13284196 original size:135 final size:137
Alignment explanation
Indices: 13283954--13284225 Score: 530
Period size: 135 Copynumber: 2.0 Consensus size: 137
13283944 TAAGAAGCAT
13283954 ATGAAAAGACTCAAAAAATGAAAACATTCTCATTAATTTAGCAATAAAATGCACTTGAATGCTTT
1 ATGAAAAGACTCAAAAAATGAAAACATTCTCATTAATTTAGCAATAAAATGCACTTGAATGCTTT
13284019 GTCTTCTTATTTTCAAAGTTGTATGAATATTCTAGATCATTTTGGGATGAATTTAGAC-ATTT-A
66 GTCTTCTTATTTTCAAAGTTGTATGAATATTCTAGATCATTTTGGGATGAATTTAGACAATTTGA
13284082 AGCTGAA
131 AGCTGAA
13284089 ATGAAAAGACTCAAAAAATGAAAACATTCTCATTAATTTAGCAATAAAATGCACTTGAATGCTTT
1 ATGAAAAGACTCAAAAAATGAAAACATTCTCATTAATTTAGCAATAAAATGCACTTGAATGCTTT
13284154 GTCTTCTTATTTTCAAAGTTGTATGAATATTCTAGATCATTTTGGGATGAATTTAGACAATTTGA
66 GTCTTCTTATTTTCAAAGTTGTATGAATATTCTAGATCATTTTGGGATGAATTTAGACAATTTGA
13284219 AGCTGAA
131 AGCTGAA
13284226 TTTGGCCTTA
Statistics
Matches: 135, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
135 123 0.91
136 4 0.03
137 8 0.06
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (137 bp):
ATGAAAAGACTCAAAAAATGAAAACATTCTCATTAATTTAGCAATAAAATGCACTTGAATGCTTT
GTCTTCTTATTTTCAAAGTTGTATGAATATTCTAGATCATTTTGGGATGAATTTAGACAATTTGA
AGCTGAA
Found at i:13293039 original size:18 final size:18
Alignment explanation
Indices: 13293013--13293048 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13293003 CTTGTACTCC
*
13293013 AAAGGTTGTATCCTTTCA
1 AAAGATTGTATCCTTTCA
*
13293031 AAAGATTGTATCTTTTCA
1 AAAGATTGTATCCTTTCA
13293049 CTCTTACTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (18 bp):
AAAGATTGTATCCTTTCA
Found at i:13294845 original size:26 final size:27
Alignment explanation
Indices: 13294795--13294845 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13294785 CTTTCATTCT
*
13294795 TTTTTTCCTCTTTTTCTGAGAGCTTGA
1 TTTTTTCCTCTTTTTCGGAGAGCTTGA
* *
13294822 TTTTTTCTTCTTTTT-GGAGTGCTT
1 TTTTTTCCTCTTTTTCGGAGAGCTT
13294846 CAATTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.61
Consensus pattern (27 bp):
TTTTTTCCTCTTTTTCGGAGAGCTTGA
Found at i:13294851 original size:27 final size:27
Alignment explanation
Indices: 13294795--13294851 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
13294785 CTTTCATTCT
* *
13294795 TTTTTTCCTCTTTTTCTGAGAGCTTGA
1 TTTTTTCCTCTTTTTCGGAGAGCTTAA
* *
13294822 TTTTTTCTTCTTTTT-GGAGTGCTTCAA
1 TTTTTTCCTCTTTTTCGGAGAGCTT-AA
13294849 TTT
1 TTT
13294852 ATTTTGCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.60
Consensus pattern (27 bp):
TTTTTTCCTCTTTTTCGGAGAGCTTAA
Found at i:13295511 original size:22 final size:21
Alignment explanation
Indices: 13295485--13295525 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
13295475 GCTGCGGAAT
13295485 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
13295507 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
13295526 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:13302008 original size:11 final size:12
Alignment explanation
Indices: 13301987--13302014 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13301977 ACCAGAATTC
13301987 TTTTTCTTTTTT
1 TTTTTCTTTTTT
13301999 TTTTTCTTTTTT
1 TTTTTCTTTTTT
13302011 TTTT
1 TTTT
13302015 AATTTTCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:13302020 original size:18 final size:18
Alignment explanation
Indices: 13301984--13302021 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13301974 AAGACCAGAA
*
13301984 TTCTTTTTCTTTTTTTTT
1 TTCTTTTTCTTTTTATTT
*
13302002 TTCTTTTT-TTTTTAATT
1 TTCTTTTTCTTTTTATTT
13302019 TTC
1 TTC
13302022 GGAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (18 bp):
TTCTTTTTCTTTTTATTT
Found at i:13303393 original size:516 final size:516
Alignment explanation
Indices: 13302421--13303455 Score: 2070
Period size: 516 Copynumber: 2.0 Consensus size: 516
13302411 ACAACAAGAA
13302421 CAATCTTGAAATGTCAAGAAAATAGTTCTAAGAAGAACCAATTTGAGAGAATAACTCACAAAGTT
1 CAATCTTGAAATGTCAAGAAAATAGTTCTAAGAAGAACCAATTTGAGAGAATAACTCACAAAGTT
13302486 TTAATTTATCAAAGTCCTAACATGTGGCATGTTCTCCATTAAGGCCTCTCAAGCATAAGTCCATT
66 TTAATTTATCAAAGTCCTAACATGTGGCATGTTCTCCATTAAGGCCTCTCAAGCATAAGTCCATT
13302551 GAAGGAGATGAATAGCTACAAATCCCGTACTTATTTCCAGCATGCACTATCTTCAGTAATTTGAA
131 GAAGGAGATGAATAGCTACAAATCCCGTACTTATTTCCAGCATGCACTATCTTCAGTAATTTGAA
13302616 CATCTCTCGAGATCCACATATCAGACTGATTTGATTCAAAGTGCGTTGGAAATCTAAGAAATATT
196 CATCTCTCGAGATCCACATATCAGACTGATTTGATTCAAAGTGCGTTGGAAATCTAAGAAATATT
13302681 GAAACAAATGTTAAGAAGACTTTATTACCCAAATATGCTTGGAACATGTCCAGAAATGGTGATAA
261 GAAACAAATGTTAAGAAGACTTTATTACCCAAATATGCTTGGAACATGTCCAGAAATGGTGATAA
13302746 ATATGGGTGACGTGAACTGTCCACTGGATAAAACTGGTGCACTGCCATATCCTTTACATTTAACA
326 ATATGGGTGACGTGAACTGTCCACTGGATAAAACTGGTGCACTGCCATATCCTTTACATTTAACA
13302811 TGAAAATGTATGCATAAATAAGTAAATATATTATAAAATAAGGAAGAACTCCATTATAATCAACA
391 TGAAAATGTATGCATAAATAAGTAAATATATTATAAAATAAGGAAGAACTCCATTATAATCAACA
13302876 AGGTAGAATGTCCATGATGTGATAAAATAATGGATAAAACTGGTGCTATTCAGGATCACAT
456 AGGTAGAATGTCCATGATGTGATAAAATAATGGATAAAACTGGTGCTATTCAGGATCACAT
13302937 CAATCTTGAAATGTCAAGAAAATAGTTCTAAGAAGAACCAATTTGAGAGAATAACTCACAAAGTT
1 CAATCTTGAAATGTCAAGAAAATAGTTCTAAGAAGAACCAATTTGAGAGAATAACTCACAAAGTT
13303002 TTAATTTATCAAAGTCCTAACATGTGGCATGTTCTCCATTAAGGCCTCTCAAGCATAAGTCCATT
66 TTAATTTATCAAAGTCCTAACATGTGGCATGTTCTCCATTAAGGCCTCTCAAGCATAAGTCCATT
13303067 GAAGGAGATGAATAGCTACAAATCCCGTACTTATTTCCAGCATGCACTATCTTCAGTAATTTGAA
131 GAAGGAGATGAATAGCTACAAATCCCGTACTTATTTCCAGCATGCACTATCTTCAGTAATTTGAA
13303132 CATCTCTCGAGATCCACATATCAGACTGATTTGATTCAAAGTGCGTTGGAAATCTAAGAAATATT
196 CATCTCTCGAGATCCACATATCAGACTGATTTGATTCAAAGTGCGTTGGAAATCTAAGAAATATT
13303197 GAAACAAATGTTAAGAAGACTTTATTACCCAAATATGCTTGGAACATGTCCAGAAATGGTGATAA
261 GAAACAAATGTTAAGAAGACTTTATTACCCAAATATGCTTGGAACATGTCCAGAAATGGTGATAA
13303262 ATATGGGTGACGTGAACTGTCCACTGGATAAAACTGGTGCACTGCCATATCCTTTACATTTAACA
326 ATATGGGTGACGTGAACTGTCCACTGGATAAAACTGGTGCACTGCCATATCCTTTACATTTAACA
13303327 TGAAAATGTATGCATAAATAAGTAAATATATTATAAAATAAGGAAGAACTCCATTATAATCAACA
391 TGAAAATGTATGCATAAATAAGTAAATATATTATAAAATAAGGAAGAACTCCATTATAATCAACA
13303392 AGGTAGAATGTCCATGATGTGATAAAATAATGGATAAAACTGGTGCTATTCAGGATCACAT
456 AGGTAGAATGTCCATGATGTGATAAAATAATGGATAAAACTGGTGCTATTCAGGATCACAT
13303453 CAA
1 CAA
13303456 GAACTAATGC
Statistics
Matches: 519, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
516 519 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (516 bp):
CAATCTTGAAATGTCAAGAAAATAGTTCTAAGAAGAACCAATTTGAGAGAATAACTCACAAAGTT
TTAATTTATCAAAGTCCTAACATGTGGCATGTTCTCCATTAAGGCCTCTCAAGCATAAGTCCATT
GAAGGAGATGAATAGCTACAAATCCCGTACTTATTTCCAGCATGCACTATCTTCAGTAATTTGAA
CATCTCTCGAGATCCACATATCAGACTGATTTGATTCAAAGTGCGTTGGAAATCTAAGAAATATT
GAAACAAATGTTAAGAAGACTTTATTACCCAAATATGCTTGGAACATGTCCAGAAATGGTGATAA
ATATGGGTGACGTGAACTGTCCACTGGATAAAACTGGTGCACTGCCATATCCTTTACATTTAACA
TGAAAATGTATGCATAAATAAGTAAATATATTATAAAATAAGGAAGAACTCCATTATAATCAACA
AGGTAGAATGTCCATGATGTGATAAAATAATGGATAAAACTGGTGCTATTCAGGATCACAT
Found at i:13307703 original size:19 final size:20
Alignment explanation
Indices: 13307656--13307706 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
13307646 TAAACCCCTT
**
13307656 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
13307676 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
13307695 TGAAGATACATG
1 TGAAAATACATG
13307707 CTCCTGGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:13313438 original size:29 final size:27
Alignment explanation
Indices: 13313387--13313449 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
13313377 GCTTGCTTTC
13313387 TCTTTT-TGATTTTCTTTTTCTTTTAT-
1 TCTTTTCTGATTTTCTTTTTCTTTT-TG
*
13313413 TCTTTTCTGAATTTTTTTTCTTCTTTTTG
1 TCTTTTCTG-ATTTTCTTT-TTCTTTTTG
13313442 TCTTTTCT
1 TCTTTTCT
13313450 TTTCCTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.19
27 2 0.06
28 9 0.28
29 15 0.47
ACGTcount: A:0.06, C:0.14, G:0.05, T:0.75
Consensus pattern (27 bp):
TCTTTTCTGATTTTCTTTTTCTTTTTG
Found at i:13313452 original size:21 final size:22
Alignment explanation
Indices: 13313402--13313453 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
13313392 TTGATTTTCT
*
13313402 TTTTCTTTTATTCTTTTCTGAA
1 TTTTCTTTTCTTCTTTTCTGAA
**
13313424 TTTT-TTTTCTTCTTTT-TGTC
1 TTTTCTTTTCTTCTTTTCTGAA
13313444 TTTTCTTTTC
1 TTTTCTTTTC
13313454 CTTTTGCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTCTTTTCTTCTTTTCTGAA
Found at i:13313734 original size:21 final size:21
Alignment explanation
Indices: 13313695--13313734 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13313685 AAGGAAGATT
*
13313695 AATGAAATGATAAAGATAAGG
1 AATGAAATGATAAAAATAAGG
13313716 AATGAAATGA-AATAAATAA
1 AATGAAATGATAA-AAATAA
13313735 AGGATAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
AATGAAATGATAAAAATAAGG
Found at i:13319424 original size:36 final size:36
Alignment explanation
Indices: 13319376--13319447 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
13319366 CCAAATACTC
*
13319376 GACCAAGCTGTCATAGGATGTACCTTCCCTTGATGT
1 GACCAAGCTGTCATAGGATGTACCTTCCATTGATGT
*
13319412 GACCAAGTTGTCATAGGATGTACCTTCCATTGATGT
1 GACCAAGCTGTCATAGGATGTACCTTCCATTGATGT
13319448 ACCTATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (36 bp):
GACCAAGCTGTCATAGGATGTACCTTCCATTGATGT
Found at i:13323310 original size:19 final size:20
Alignment explanation
Indices: 13323253--13323302 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
13323243 ATAATGGGTT
*
13323253 TAAGAAATGAATAAT-AAT-A
1 TAAGTAATGAA-AATAAATAA
13323272 TAAGTAATGAAAATAAATAA
1 TAAGTAATGAAAATAAATAA
13323292 TAAG-AATGAAA
1 TAAGTAATGAAA
13323303 TGAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.71
20 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (20 bp):
TAAGTAATGAAAATAAATAA
Found at i:13323764 original size:19 final size:20
Alignment explanation
Indices: 13323723--13323773 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
13323713 GAAACCCCTT
*
13323723 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
13323743 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
13323762 TGAAGATACATG
1 TGAAAATACATG
13323774 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:13324723 original size:30 final size:31
Alignment explanation
Indices: 13324683--13324742 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13324673 ACATGCTGCC
**
13324683 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
13324714 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
13324743 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:13327172 original size:8 final size:8
Alignment explanation
Indices: 13327161--13327185 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13327151 TCTTTTTCTT
13327161 TTCTTTTC
1 TTCTTTTC
13327169 TTCTTTTC
1 TTCTTTTC
13327177 TTCTTTTC
1 TTCTTTTC
13327185 T
1 T
13327186 GATTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:13327503 original size:19 final size:20
Alignment explanation
Indices: 13327446--13327495 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
13327436 ATAATGGGTT
*
13327446 TAAGAAATGAATAAT-AAT-A
1 TAAGTAATGAA-AATAAATAA
13327465 TAAGTAATGAAAATAAATAA
1 TAAGTAATGAAAATAAATAA
13327485 TAAG-AATGAAA
1 TAAGTAATGAAA
13327496 TGAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.71
20 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (20 bp):
TAAGTAATGAAAATAAATAA
Found at i:13327954 original size:19 final size:20
Alignment explanation
Indices: 13327916--13327966 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
13327906 GAAACCCCTT
13327916 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
13327936 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
13327955 TGAAGATACATG
1 TGAAAATACATG
13327967 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:13328914 original size:30 final size:31
Alignment explanation
Indices: 13328874--13328933 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13328864 ACATGCTGCC
**
13328874 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
13328905 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
13328934 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:13332194 original size:11 final size:11
Alignment explanation
Indices: 13332178--13332202 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13332168 GTAAGATATA
13332178 AATGACAACGG
1 AATGACAACGG
13332189 AATGACAACGG
1 AATGACAACGG
13332200 AAT
1 AAT
13332203 AGATGAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.24, T:0.12
Consensus pattern (11 bp):
AATGACAACGG
Found at i:13342785 original size:17 final size:18
Alignment explanation
Indices: 13342752--13342792 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
13342742 GCCATCTCTA
*
13342752 TCATTTCTTTATTTTTAT
1 TCATTTCTTTATCTTTAT
13342770 TCATTT-TTTATCTTTAT
1 TCATTTCTTTATCTTTAT
13342787 T-ATTTC
1 TCATTTC
13342793 ACTTATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 11 0.52
18 6 0.29
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (18 bp):
TCATTTCTTTATCTTTAT
Found at i:13343015 original size:10 final size:10
Alignment explanation
Indices: 13342996--13343036 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
13342986 CAACAAAAGC
13342996 AAAA-AAGAA
1 AAAAGAAGAA
*
13343005 AGAAGAAGAA
1 AAAAGAAGAA
13343015 AAAAGAA-AA
1 AAAAGAAGAA
13343024 AAACAGAAGAA
1 AAA-AGAAGAA
13343035 AA
1 AA
13343037 GACTCCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.30
10 15 0.56
11 4 0.15
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAGAAGAA
Found at i:13343031 original size:17 final size:17
Alignment explanation
Indices: 13342990--13343038 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
13342980 GTGATGCAAC
13342990 AAAAGCAAAAAAGAAAGA
1 AAAAG-AAAAAAGAAAGA
*
13343008 AGAAGAAAAAAGAAA-A
1 AAAAGAAAAAAGAAAGA
13343024 AAACAGAAGAAAAGA
1 AAA-AGAA-AAAAGA
13343039 CTCCTACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 14 0.52
18 10 0.37
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAGA
Found at i:13344376 original size:30 final size:31
Alignment explanation
Indices: 13344342--13344401 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
13344332 CTTAGCTTTA
**
13344342 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
13344372 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
13344402 GGAAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:13345172 original size:29 final size:30
Alignment explanation
Indices: 13345140--13345200 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
13345130 CATGTGCACT
13345140 CCATGTGACATCAAATAGGCGCCAAA-ACA
1 CCATGTGACATCAAATAGGCGCCAAAGACA
13345169 CCATGTGACATCAAATAGGCGCCAAAGACA
1 CCATGTGACATCAAATAGGCGCCAAAGACA
13345199 CC
1 CC
13345201 TTCCTCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.13
Consensus pattern (30 bp):
CCATGTGACATCAAATAGGCGCCAAAGACA
Found at i:13345312 original size:19 final size:21
Alignment explanation
Indices: 13345288--13345339 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
13345278 CGGACAAGAG
*
13345288 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
13345307 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
13345328 CATGTATTTTCA
1 CATGTATTTTCA
13345340 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:13346078 original size:7 final size:6
Alignment explanation
Indices: 13346061--13346122 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
13346051 GGAGTGCAAA
* * * *
13346061 AAAAAG AAAAAG ACAAAAG -AAGAG AAAAAT CAAAA- AATAAG -AAAAG
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
13346107 -AAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAA
13346123 TTCAAAAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
5 16 0.36
6 24 0.53
7 5 0.11
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:13346106 original size:34 final size:34
Alignment explanation
Indices: 13346057--13346135 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
13346047 AATTGGAGTG
*
13346057 CAAAAAAAAGAAAAAGACAAA-AGAAGAGAAAAA-T
1 CAAAAAAAAGAAAAAGA-AAAGA-AAAAGAAAAATT
13346091 CAAAAAATAAG-AAAAGAAAAGAAAAAGAAAAATT
1 CAAAAAA-AAGAAAAAGAAAAGAAAAAGAAAAATT
13346125 CAAAAAGAAAG
1 CAAAAA-AAAG
13346136 TAAGCCAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
33 12 0.30
34 24 0.60
35 4 0.10
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (34 bp):
CAAAAAAAAGAAAAAGAAAAGAAAAAGAAAAATT
Found at i:13348566 original size:20 final size:20
Alignment explanation
Indices: 13348541--13348579 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13348531 TATGTTTACA
13348541 TATGTTTT-ATATTCATTTAT
1 TATGTTTTCATA-TCATTTAT
13348561 TATGTTTTCATATCATTTA
1 TATGTTTTCATATCATTTA
13348580 GATATCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (20 bp):
TATGTTTTCATATCATTTAT
Found at i:13358429 original size:12 final size:12
Alignment explanation
Indices: 13358412--13358436 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13358402 GATTTCTTTG
13358412 ACTTTGCACTTC
1 ACTTTGCACTTC
13358424 ACTTTGCACTTC
1 ACTTTGCACTTC
13358436 A
1 A
13358437 TTTTTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (12 bp):
ACTTTGCACTTC
Found at i:13366717 original size:24 final size:24
Alignment explanation
Indices: 13366690--13366788 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
13366680 ATAATGGAAT
13366690 TAATAAAGGGGATAATAATATAAG
1 TAATAAAGGGGATAATAATATAAG
* ** * *
13366714 TAATGAAAAGAAATAATAAGA-ATG
1 TAAT-AAAGGGGATAATAATATAAG
* * ** *
13366738 AAATAAA--TGATTAATAATGGAAT
1 TAATAAAGGGGA-TAATAATATAAG
13366761 TAATAAAGGGGATAATAATATAAG
1 TAATAAAGGGGATAATAATATAAG
13366785 TAAT
1 TAAT
13366789 GAAAAGAAAT
Statistics
Matches: 53, Mismatches: 17, Indels: 10
0.66 0.21 0.12
Matches are distributed among these distances:
21 1 0.02
22 6 0.11
23 10 0.19
24 22 0.42
25 14 0.26
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (24 bp):
TAATAAAGGGGATAATAATATAAG
Done.