Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 119 of 120
Found at i:36585027 original size:16 final size:16
Alignment explanation
Indices: 36584986--36585028 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
36584976 ATGGAACGAG
*
36584986 AATAAATTTTTAATTA
1 AATAAAATTTTAATTA
36585002 AAT-AAA-TTTAATTA
1 AATAAAATTTTAATTA
*
36585016 ATTAAAATTTTAA
1 AATAAAATTTTAA
36585029 ACTCTAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.43
15 5 0.22
16 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAAATTTTAATTA
Found at i:36586833 original size:6 final size:6
Alignment explanation
Indices: 36586822--36586855 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
36586812 ATAGGAGATT
36586822 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAAG
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAAG
36586856 AGCGTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.15, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:36595432 original size:16 final size:16
Alignment explanation
Indices: 36595411--36595442 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36595401 CCCTTATAAT
36595411 AATATAATTTTGTAAA
1 AATATAATTTTGTAAA
*
36595427 AATATAATTTTTTAAA
1 AATATAATTTTGTAAA
36595443 TAATTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AATATAATTTTGTAAA
Found at i:36598649 original size:59 final size:59
Alignment explanation
Indices: 36598583--36598835 Score: 375
Period size: 59 Copynumber: 4.3 Consensus size: 59
36598573 GGGTACCCGA
* * *
36598583 GGGTAAAATGGTAATTTTTGGTGAAATCGAGG-TCAAAATGGAATTTTGGAAAGCTCGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGG
* * **
36598641 GGGATAAAAGGGAAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
1 GGG-TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGG
* * *
36598701 GGAT-AAATGGTAATTTTTGGTGAAATCGGGGTTAATAATGGAATTTTGGAAAGTTCTG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGG
* *
36598759 GGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGGAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGG
36598818 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
36598836 CAGACAGTCC
Statistics
Matches: 174, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
58 55 0.32
59 95 0.55
60 24 0.14
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGG
Found at i:36598766 original size:117 final size:118
Alignment explanation
Indices: 36598582--36598835 Score: 379
Period size: 117 Copynumber: 2.2 Consensus size: 118
36598572 TGGGTACCCG
36598582 AGGG-TAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAATGGAATTTTGGAAAGCTCGGGGGAT
1 AGGGATAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAATGGAATTTTGGAAAGCTCGGGGGAT
* *
36598646 AAAAGGGAAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
66 AAAAGGGAAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * * *
36598699 AGGGAT-AAATGGTAATTTTTGGTGAAATCGGGGTTAATAATGGAATTTTGGAAAGTTCTGGGG-
1 AGGGATAAAATGGTAATTTTTGGTGAAATCGAGGTCAA-AATGGAATTTTGGAAAGCTCGGGGGA
* * *
36598762 TAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGGAAGTTC
65 TAAAAGGGAAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
36598816 GGGGGTAAAATGGTAATTTT
1 AGGGATAAAATGGTAATTTT
36598836 CAGACAGTCC
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
117 86 0.70
118 37 0.30
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (118 bp):
AGGGATAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAATGGAATTTTGGAAAGCTCGGGGGAT
AAAAGGGAAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:36598818 original size:29 final size:29
Alignment explanation
Indices: 36598583--36598835 Score: 143
Period size: 29 Copynumber: 8.7 Consensus size: 29
36598573 GGGTACCCGA
36598583 GGGT-AAAATGGTAATTTTTGGTGAA-ATCG
1 GGGTAAAAATGGTAA-TTTTGG-GAAGATCG
* * * *
36598612 AGGTCAAAATGG-AATTTTGGAAAGCTCG
1 GGGTAAAAATGGTAATTTTGGGAAGATCG
* * *
36598640 GGGGATAAAAGGGAAATTTTTGGTGAA-ATCG
1 GGGTA-AAAATGGTAA-TTTTGG-GAAGATCG
* * **
36598671 GGGTTAAAAATGG-AATTTTGGAAAGTTTA
1 GGG-TAAAAATGGTAATTTTGGGAAGATCG
*
36598700 GGG-ATAAATGGTAATTTTTGGTGAA-ATCG
1 GGGTAAAAATGGTAA-TTTTGG-GAAGATCG
* * *
36598729 GGGTTAATAATGG-AATTTTGGAAAGTTCTG
1 GGG-TAAAAATGGTAATTTTGGGAAGATC-G
*
36598759 GGGT-AAAATGGTAATTTTTGGTGAA-ACCG
1 GGGTAAAAATGGTAA-TTTTGG-GAAGATCG
*
36598788 GGGTTAAAAATGG-AATTTTGGGAAGTTCGG
1 GGG-TAAAAATGGTAATTTTGGGAAGATC-G
36598818 GGGT-AAAATGGTAATTTT
1 GGGTAAAAATGGTAATTTT
36598836 CAGACAGTCC
Statistics
Matches: 171, Mismatches: 30, Indels: 46
0.69 0.12 0.19
Matches are distributed among these distances:
27 9 0.05
28 33 0.19
29 60 0.35
30 33 0.19
31 33 0.19
32 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (29 bp):
GGGTAAAAATGGTAATTTTGGGAAGATCG
Found at i:36599996 original size:21 final size:20
Alignment explanation
Indices: 36599950--36599996 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
36599940 TATTTAATAA
*
36599950 ATATTATTAATAAAATCATT
1 ATATTATTAATAAAATAATT
36599970 ATTATTATTTAAT-AAATAATCT
1 A-TATTA-TTAATAAAATAAT-T
36599992 ATATT
1 ATATT
36599997 TAATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTATTAATAAAATAATT
Found at i:36600709 original size:13 final size:13
Alignment explanation
Indices: 36600691--36600718 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36600681 ATTCGGGCCC
36600691 TTGTAAATGGACT
1 TTGTAAATGGACT
36600704 TTGTAAATGGACT
1 TTGTAAATGGACT
36600717 TT
1 TT
36600719 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (13 bp):
TTGTAAATGGACT
Found at i:36600781 original size:17 final size:17
Alignment explanation
Indices: 36600756--36600799 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
36600746 TAAATTTGAT
* *
36600756 TAAACTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
36600773 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
36600790 TAAATTTAAA
1 TAAATTTAAA
36600800 ACCCTCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:36612340 original size:20 final size:20
Alignment explanation
Indices: 36612290--36612343 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
36612280 TACGCACTTA
* *
36612290 TCCTGTAGGCACTACGGTGC
1 TCCTGTATGCACTTCGGTGC
* * *
36612310 TTCTATTTGCACTTCGGTGC
1 TCCTGTATGCACTTCGGTGC
36612330 TCCTGTATGCACTT
1 TCCTGTATGCACTT
36612344 TCGTTGCATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (20 bp):
TCCTGTATGCACTTCGGTGC
Found at i:36617254 original size:3 final size:3
Alignment explanation
Indices: 36617246--36617277 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36617236 AAAAACAATC
36617246 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36617278 CAACGCACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:36620139 original size:191 final size:191
Alignment explanation
Indices: 36619810--36620192 Score: 685
Period size: 191 Copynumber: 2.0 Consensus size: 191
36619800 AGCATATCAG
*
36619810 TCTCTCGAGTTCACCTTTCTCTCAATACTCATCATCGGGGGTGGCTTGGGCAAGATGTCGAGGCT
1 TCTCTCGAGTTCACCTTTCTCTCAATACTCATCACCGGGGGTGGCTTGGGCAAGATGTCGAGGCT
* * *
36619875 CTTGACCTGGCTGAGGATTTAAGTGCGCATAACATTCAAGAGGGTGTAAGCCTCAAACCTTCCTT
66 CTTGACCTAGCTGAGGATGTAAGTGCGCATAACATTCAAGAGGGTGTAAGCCTCAAACCTTCCCT
* * * *
36619940 AGGGAGCGTATCTTCTGGTGTGTTCTTACTGGGGGTCTCTAGAGATCCCTGAGGTTACCAC
131 AAGGAGCGTATCTCCTAGTGTGTTCTTACTGAGGGTCTCTAGAGATCCCTGAGGTTACCAC
36620001 TCTCTCGAGTTCACCTTTCTCTCAATACTCATCACCGGGGGTGGCTTGGGCAAGATGTCGAGGCT
1 TCTCTCGAGTTCACCTTTCTCTCAATACTCATCACCGGGGGTGGCTTGGGCAAGATGTCGAGGCT
*
36620066 CTTGACCTAGCTGAGGATGTAAGTGCGCGTAACATTCAAGAGGGTGTAAGCCTCAAACCTTCCCT
66 CTTGACCTAGCTGAGGATGTAAGTGCGCATAACATTCAAGAGGGTGTAAGCCTCAAACCTTCCCT
36620131 AAGGAGCGTATCTCCTAGTGTGTTCTTACTGAGGGTCTCTAGAGATCCCTGAGGTTACCAC
131 AAGGAGCGTATCTCCTAGTGTGTTCTTACTGAGGGTCTCTAGAGATCCCTGAGGTTACCAC
36620192 T
1 T
36620193 TTAGGCCTAA
Statistics
Matches: 183, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
191 183 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (191 bp):
TCTCTCGAGTTCACCTTTCTCTCAATACTCATCACCGGGGGTGGCTTGGGCAAGATGTCGAGGCT
CTTGACCTAGCTGAGGATGTAAGTGCGCATAACATTCAAGAGGGTGTAAGCCTCAAACCTTCCCT
AAGGAGCGTATCTCCTAGTGTGTTCTTACTGAGGGTCTCTAGAGATCCCTGAGGTTACCAC
Found at i:36622136 original size:29 final size:29
Alignment explanation
Indices: 36622100--36622163 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
36622090 ATAGAGCATT
*
36622100 AACACATAACATGATGTAACATAGATAAA
1 AACACATAACATGATGTAACACAGATAAA
36622129 AACACATAACATGATGTAACACAGATAAA
1 AACACATAACATGATGTAACACAGATAAA
36622158 AACACA
1 AACACA
36622164 CCTAAAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.56, C:0.17, G:0.09, T:0.17
Consensus pattern (29 bp):
AACACATAACATGATGTAACACAGATAAA
Found at i:36627749 original size:38 final size:39
Alignment explanation
Indices: 36627707--36627786 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
36627697 ATTTACATTA
*
36627707 TTTATTAAATTATT-TCAAAAC-GAATAGAAAAATTAATT
1 TTTATAAAATTATTATCAAAACAGAATA-AAAAATTAATT
* * * *
36627745 TTTATAAAATTTTTATTAACACAGATTAAAAAATTAATT
1 TTTATAAAATTATTATCAAAACAGAATAAAAAATTAATT
36627784 TTT
1 TTT
36627787 TAATTTGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 12 0.34
39 19 0.54
40 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (39 bp):
TTTATAAAATTATTATCAAAACAGAATAAAAAATTAATT
Found at i:36636785 original size:23 final size:24
Alignment explanation
Indices: 36636741--36636786 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
36636731 ATTTCAATTA
36636741 AATAAATTATTTAAAAAATATAAT
1 AATAAATTATTTAAAAAATATAAT
*
36636765 AATAAATTA-TTAAAAACTATAA
1 AATAAATTATTTAAAAAATATAA
36636787 AATCGATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAAATTATTTAAAAAATATAAT
Found at i:36639361 original size:2 final size:2
Alignment explanation
Indices: 36639354--36639421 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
36639344 ACTAGAAGGC
36639354 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
36639396 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
36639422 TTTGATTATC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:36645873 original size:16 final size:16
Alignment explanation
Indices: 36645829--36645877 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
36645819 AAGGGTTGTA
*
36645829 TCGAGTTTGGATTTTT
1 TCGAGTTTGGATTATT
* *
36645845 TCTAGTATGGATTATT
1 TCGAGTTTGGATTATT
*
36645861 TCGAGTTTAGATTATT
1 TCGAGTTTGGATTATT
36645877 T
1 T
36645878 GAAGGATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.53
Consensus pattern (16 bp):
TCGAGTTTGGATTATT
Found at i:36651131 original size:77 final size:77
Alignment explanation
Indices: 36651004--36651156 Score: 288
Period size: 77 Copynumber: 2.0 Consensus size: 77
36650994 ATAATAACAT
*
36651004 ATTTAGTTCTCAATACTTACATATTATATCAATTTGATCTTAATTCTAAATAATTCAATAAATTA
1 ATTTAGTCCTCAATACTTACATATTATATCAATTTGATCTTAATTCTAAATAATTCAATAAATTA
36651069 ATTATGTCATCC
66 ATTATGTCATCC
*
36651081 ATTTAGTCCTCAATACTTATATATTATATCAATTTGATCTTAATTCTAAATAATTCAATAAATTA
1 ATTTAGTCCTCAATACTTACATATTATATCAATTTGATCTTAATTCTAAATAATTCAATAAATTA
36651146 ATTATGTCATC
66 ATTATGTCATC
36651157 GTTTTCGTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (77 bp):
ATTTAGTCCTCAATACTTACATATTATATCAATTTGATCTTAATTCTAAATAATTCAATAAATTA
ATTATGTCATCC
Found at i:36653834 original size:4 final size:4
Alignment explanation
Indices: 36653825--36653851 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36653815 CTCTGTCTAT
36653825 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
36653852 TTCTCCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:36655359 original size:119 final size:119
Alignment explanation
Indices: 36655148--36655461 Score: 574
Period size: 119 Copynumber: 2.6 Consensus size: 119
36655138 TATAATCTTG
36655148 GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATTTTATAGTTAATCTTTCTACTCTTTTG
1 GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATTTTATAGTTAATCTTTCTACTCTTTTG
* * * *
36655213 AATTGATAATTAAACTACAGTCAATGACATTATTGAAAGATTTTTTTTTAATTA
66 TATTGATAATTAAACTACAATCAATGACATTATTGAAAGAATTTTCTTTAATTA
36655267 GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATTTTATAGTTAATCTTTCTACTCTTTTG
1 GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATTTTATAGTTAATCTTTCTACTCTTTTG
*
36655332 TATTGATAATTAAACTACAATCAATGACATTATTGAAAGAATTTTCTTTAATTG
66 TATTGATAATTAAACTACAATCAATGACATTATTGAAAGAATTTTCTTTAATTA
*
36655386 GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATATTATAGTTAATCTTTCTACTCTTTTG
1 GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATTTTATAGTTAATCTTTCTACTCTTTTG
36655451 TATTGATAATT
66 TATTGATAATT
36655462 GAAGAATATG
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 189 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.48
Consensus pattern (119 bp):
GTCTAATTTTACTTTTAGTCCCCATACTCTTCATATATTTTATAGTTAATCTTTCTACTCTTTTG
TATTGATAATTAAACTACAATCAATGACATTATTGAAAGAATTTTCTTTAATTA
Found at i:36662107 original size:43 final size:43
Alignment explanation
Indices: 36662046--36662183 Score: 190
Period size: 43 Copynumber: 3.3 Consensus size: 43
36662036 TCGCCGCAAA
* * *
36662046 AAATGTCGCTATAGAACATGGTCTTTAACGGCGCTTTTCCCAC
1 AAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * *
36662089 AAATGCCGCTAAAAAACATGGTCTTTAGCGACGCTTTCCCCAC
1 AAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* *
36662132 AAACGCCGTTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCAC
1 AAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
36662174 AAATG-CGCTA
1 AAATGCCGCTA
36662184 TAAATAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 4 0.05
42 11 0.13
43 67 0.82
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
AAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:36664378 original size:41 final size:40
Alignment explanation
Indices: 36664333--36664419 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
36664323 TAATGCTCTG
* * *
36664333 ACCTTTAGCGACATTTTTTCTATAAACG-TCGCTATTGCTTT
1 ACCTTTAGCGACA-TTTATCAAAAAACGCT-GCTATTGCTTT
* * *
36664374 ACCTTTTGCGGCATTTATGAAAAAACGCTGCTATTGCTTT
1 ACCTTTAGCGACATTTATCAAAAAACGCTGCTATTGCTTT
36664414 ACCTTT
1 ACCTTT
36664420 TGCGGCGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
40 27 0.69
41 12 0.31
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (40 bp):
ACCTTTAGCGACATTTATCAAAAAACGCTGCTATTGCTTT
Found at i:36667194 original size:12 final size:13
Alignment explanation
Indices: 36667171--36667197 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36667161 ATTATTAGAA
36667171 ATTTGAAAAAAAT
1 ATTTGAAAAAAAT
36667184 ATTTGAAAAAAAT
1 ATTTGAAAAAAAT
36667197 A
1 A
36667198 AGAAATAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
ATTTGAAAAAAAT
Found at i:36674188 original size:25 final size:25
Alignment explanation
Indices: 36674141--36674190 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
36674131 CTAAATCTTA
* *
36674141 AAAAAAAAAACCTATTTAACTAATT
1 AAAAAAAAAACATATATAACTAATT
* *
36674166 AAAAAAATAACATATATATCTAATT
1 AAAAAAAAAACATATATAACTAATT
36674191 TAACTGGATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAAAAAAACATATATAACTAATT
Found at i:36702868 original size:16 final size:16
Alignment explanation
Indices: 36702832--36702870 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
36702822 CTAGCATTTA
*
36702832 ATATTTATTTTTTATC
1 ATATTTAATTTTTATC
*
36702848 A-ATTTAATTTTTATT
1 ATATTTAATTTTTATC
36702863 ATATTTAA
1 ATATTTAA
36702871 ACTAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTAATTTTTATC
Found at i:36703033 original size:17 final size:19
Alignment explanation
Indices: 36703006--36703052 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
36702996 TTATCACATT
*
36703006 AATAAATTATTT-AAATTC
1 AATAAAATATTTCAAATTC
36703024 -ATAAAATATTTCAAATTC
1 AATAAAATATTTCAAATTC
*
36703042 AAAAAAATATT
1 AATAAAATATT
36703053 AAAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
18 6 0.24
19 9 0.36
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAATATTTCAAATTC
Found at i:36703050 original size:19 final size:17
Alignment explanation
Indices: 36703013--36703052 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
36703003 ATTAATAAAT
*
36703013 TATTTAAATTCATAAAA
1 TATTTAAATTCAAAAAA
36703030 TATTTCAAATTCAAAAAAA
1 TATTT-AAATTC-AAAAAA
36703049 TATT
1 TATT
36703053 AAAAATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
TATTTAAATTCAAAAAA
Found at i:36705390 original size:86 final size:86
Alignment explanation
Indices: 36705283--36705455 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
36705273 TCTCGAGACA
* *
36705283 CACCATTGAAATTTGATAATAGAGTTTAAATACAAGTTCTAGTTCTTCAATTGACGTGGTATCAC
1 CACCATTGAAATTTGATAATAGAGTTTAAATACAAATTCTAATTCTTCAATTGACGTGGTATCAC
36705348 AAAATAAAATTTTAATAGTCT
66 AAAATAAAATTTTAATAGTCT
* *
36705369 CACCATTGAATTTTGATAATAGAGTTTAAATACAAATTTTAATTCTTCAATTGACGTGGTATCAC
1 CACCATTGAAATTTGATAATAGAGTTTAAATACAAATTCTAATTCTTCAATTGACGTGGTATCAC
36705434 AAAATAAAATTTTAATAGTCT
66 AAAATAAAATTTTAATAGTCT
36705455 C
1 C
36705456 GATTTAATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (86 bp):
CACCATTGAAATTTGATAATAGAGTTTAAATACAAATTCTAATTCTTCAATTGACGTGGTATCAC
AAAATAAAATTTTAATAGTCT
Found at i:36712083 original size:85 final size:83
Alignment explanation
Indices: 36711892--36712213 Score: 340
Period size: 85 Copynumber: 3.9 Consensus size: 83
36711882 TATATGTATG
* * * ** * * *
36711892 TATAGGGATAGTCTTCTCTGGCTCATATAGGA-GAAAGAAATACGATTTATTGGAACCTAAACTG
1 TATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAAA-AAATATGATTTATTGAAACCTAAAATG
* *
36711956 TTCTTTTGGAAATTACATA
65 TTCTTTTGGAAATCATATA
36711975 TATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAACAAAATATGATTTATTGAAACCTAAAATG
1 TATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAA-AAAATATGATTTATTGAAACCTAAAATG
36712040 TTCTTTTTGGAAATCATATA
65 TTC-TTTTGGAAATCATATA
* **
36712060 TATAGGGATAGTCTTCTGTGGTTTGTATAGGAGG-----A-AT-A-TTATTGAAACCTAAAATGT
1 TATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAAAAAATATGATTTATTGAAACCTAAAATGT
36712117 TCTTTTGGAAATTC-TATA
66 TCTTTTGGAAA-TCATATA
* * * *** *
36712135 TATAGGGGATATTCTACTACAGTTTGTATAGGAGGAGTGGAATATGATTTATTGAAACGTAAAAT
1 TATA-GGGATAGTCTACTCCGGTTTGTATAGGAGGA-AAAAATATGATTTATTGAAACCTAAAAT
36712200 GTTCTTTTGGAAAT
64 GTTCTTTTGGAAAT
36712214 TGTACATAAT
Statistics
Matches: 206, Mismatches: 19, Indels: 27
0.82 0.08 0.11
Matches are distributed among these distances:
75 17 0.08
76 48 0.23
77 1 0.00
78 2 0.01
79 1 0.00
82 1 0.00
83 29 0.14
84 32 0.16
85 75 0.36
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (83 bp):
TATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAAAAAATATGATTTATTGAAACCTAAAATGT
TCTTTTGGAAATCATATA
Found at i:36712114 original size:76 final size:76
Alignment explanation
Indices: 36712022--36712170 Score: 221
Period size: 76 Copynumber: 2.0 Consensus size: 76
36712012 AAAATATGAT
* ***
36712022 TTATTGAAACCTAAAATGTTCTTTTTGGAAA-TCATATATATA-GGGATAGTCTTCTGTGGTTTG
1 TTATTGAAACCTAAAATGTTC-TTTTGGAAATTC-TATATATAGGGGATAGTCTACTACAGTTTG
36712085 TATAGGAGGAATA
64 TATAGGAGGAATA
*
36712098 TTATTGAAACCTAAAATGTTCTTTTGGAAATTCTATATATAGGGGATATTCTACTACAGTTTGTA
1 TTATTGAAACCTAAAATGTTCTTTTGGAAATTCTATATATAGGGGATAGTCTACTACAGTTTGTA
36712163 TAGGAGGA
66 TAGGAGGA
36712171 GTGGAATATG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
75 17 0.26
76 49 0.74
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (76 bp):
TTATTGAAACCTAAAATGTTCTTTTGGAAATTCTATATATAGGGGATAGTCTACTACAGTTTGTA
TAGGAGGAATA
Found at i:36715764 original size:40 final size:40
Alignment explanation
Indices: 36715720--36715798 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
36715710 AACAAATGTC
*
36715720 AAAAATGAAATTGGACTACCTAATGGTTAGAACATAGTCG
1 AAAAATGAAATTGGACTACCAAATGGTTAGAACATAGTCG
36715760 AAAAATGAAATTGGACTACCAAATGGTTAGAACATAGTC
1 AAAAATGAAATTGGACTACCAAATGGTTAGAACATAGTC
36715799 AGTCCATCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAAATGAAATTGGACTACCAAATGGTTAGAACATAGTCG
Found at i:36727408 original size:6 final size:6
Alignment explanation
Indices: 36727397--36727468 Score: 63
Period size: 6 Copynumber: 12.0 Consensus size: 6
36727387 ATGAGGGAAA
* * * * * *
36727397 ACATAT ACATAT ACATAT ACATGT ACATAT ACATAC ATACAT ACACAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
36727445 ACATAT ATATAT ATATAT ATATAT
1 ACATAT ACATAT ACATAT ACATAT
36727469 TTACTATATA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:36733781 original size:3 final size:3
Alignment explanation
Indices: 36733773--36733802 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
36733763 TAAAAAGTAA
36733773 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
36733803 GAAACACTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36734979 original size:18 final size:18
Alignment explanation
Indices: 36734942--36734999 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
36734932 TTACAAAAAT
* *
36734942 AATTTAAAATAATTTTTAA
1 AATTCAAAAT-ATTTATAA
36734961 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTAT-AA
36734980 AATTTCAAAA-ATTATATAA
1 AA-TTCAAAATATT-TATAA
36734999 A
1 A
36735000 TAAAGTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 5 0.15
19 19 0.56
20 10 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:36735000 original size:18 final size:20
Alignment explanation
Indices: 36734942--36735000 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 20
36734932 TTACAAAAAT
36734942 AATTT-AAAATAATTT-T-TA
1 AATTTCAAAAT-ATTTATATA
* *
36734960 AAATTCAAAATATTTATAAA
1 AATTTCAAAATATTTATATA
36734980 AATTTCAAAA-A-TTATATA
1 AATTTCAAAATATTTATATA
36734998 AAT
1 AAT
36735001 AAAGTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 17 0.50
19 7 0.21
20 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTCAAAATATTTATATA
Found at i:36738686 original size:16 final size:15
Alignment explanation
Indices: 36738662--36738705 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 15
36738652 GATATTATTC
36738662 AAATTTATTGTGATTT
1 AAATTTATTGTG-TTT
*
36738678 AATTTTATT-T-TTT
1 AAATTTATTGTGTTT
36738691 AAATTTATTGTGTTT
1 AAATTTATTGTGTTT
36738706 TATATTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 1 0.04
15 4 0.17
16 8 0.33
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
AAATTTATTGTGTTT
Found at i:36741011 original size:126 final size:125
Alignment explanation
Indices: 36740753--36741058 Score: 355
Period size: 126 Copynumber: 2.4 Consensus size: 125
36740743 GATTGAACTG
* * * * *
36740753 ATTGGTTGATTTTTAACTATATTATGATTATGATTGTTGTTATTGCGTTATTGCTACTCTTGTTT
1 ATTGGTTAATTTTTAACTATATTATGATTATGATTGTTGTCATTGTGTTATT-TTACTATTGTTT
* * *
36740818 GACGCCTACTACTTAATTTAAGTATTAGGGTTTAATTCTCAGCTTAACTATTATCCAATTC
65 GACGCCTACTACTTAATTTAAGTATTAAGGTTTAATTCTCAGCTTAACTATTATCAAAATC
* * *
36740879 ACTGGTTAATTTTTAACTACAATATGATTATGATTGTTGTCATTGTGTTATTTTACTATTGTTTG
1 ATTGGTTAATTTTTAACTATATTATGATTATGATTGTTGTCATTGTGTTATTTTACTATTGTTTG
* * * * * *
36740944 ATGCGTACTACTTAGTTTCAGGGT-TTAAGGTTTAATTCTCAGTTTAACTATTATTAAAATC
66 ACGCCTACTACTTAATTT-A-AGTATTAAGGTTTAATTCTCAGCTTAACTATTATCAAAATC
* * * * * *
36741005 TTTGGTTAATGTTTAGCTTTATTATGATTGTGATTGTTG-CTATTGTGTTGTTTT
1 ATTGGTTAATTTTTAACTATATTATGATTATGATTGTTGTC-ATTGTGTTATTTT
36741059 GCTCGTGTGT
Statistics
Matches: 151, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
125 27 0.18
126 122 0.81
127 2 0.01
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (125 bp):
ATTGGTTAATTTTTAACTATATTATGATTATGATTGTTGTCATTGTGTTATTTTACTATTGTTTG
ACGCCTACTACTTAATTTAAGTATTAAGGTTTAATTCTCAGCTTAACTATTATCAAAATC
Found at i:36751915 original size:21 final size:21
Alignment explanation
Indices: 36751891--36751938 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
36751881 TTTTTTTTTA
**
36751891 AAAAAAATTT-ATTTGTAAA-
1 AAAAAAATTTCATCGGTAAAT
36751910 ATAAAAAATTTCATCGGTAAAT
1 A-AAAAAATTTCATCGGTAAAT
36751932 AAAAAAA
1 AAAAAAA
36751939 AAGATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 9 0.38
21 13 0.54
22 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (21 bp):
AAAAAAATTTCATCGGTAAAT
Found at i:36755140 original size:29 final size:29
Alignment explanation
Indices: 36755101--36755169 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 29
36755091 ATTTGACGTG
36755101 TATATATAA-T-TACACCAAATAAAAATT
1 TATATATAATTATACACCAAATAAAAATT
*
36755128 TATATATCAAATTATACACCAAATCAAAATT
1 TATATAT--AATTATACACCAAATAAAAATT
*
36755159 TATACATAATT
1 TATATATAATT
36755170 GTAAGATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 7 0.19
29 6 0.17
30 1 0.03
31 22 0.61
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (29 bp):
TATATATAATTATACACCAAATAAAAATT
Found at i:36759434 original size:12 final size:12
Alignment explanation
Indices: 36759417--36759445 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
36759407 TATCCTAATT
36759417 TTAATATAAAAA
1 TTAATATAAAAA
36759429 TTAATATAAAAA
1 TTAATATAAAAA
36759441 TTAAT
1 TTAAT
36759446 TAGTACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATATAAAAA
Found at i:36767040 original size:20 final size:20
Alignment explanation
Indices: 36767017--36767073 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
36767007 TAAGAAATTG
36767017 ATTTTCAATATATATTATGC
1 ATTTTCAATATATATTATGC
* * *
36767037 ATTTT-AATAGTATTTTTTGT
1 ATTTTCAATA-TATATTATGC
*
36767057 A-TTTCAAAATATATTAT
1 ATTTTCAATATATATTAT
36767074 AATTAATCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTCAATATATATTATGC
Found at i:36767872 original size:33 final size:33
Alignment explanation
Indices: 36767825--36767888 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
36767815 TATATTAAAT
*
36767825 TTATTAGCGTATCAAATACGAGCTAATAATTCA
1 TTATTAGCGCATCAAATACGAGCTAATAATTCA
* *
36767858 TTATTAGTGCATCAAATACGAGCTCATAATT
1 TTATTAGCGCATCAAATACGAGCTAATAATT
36767889 TAAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (33 bp):
TTATTAGCGCATCAAATACGAGCTAATAATTCA
Found at i:36768260 original size:3 final size:3
Alignment explanation
Indices: 36768252--36768287 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
36768242 TAGTTACTAA
* *
36768252 CAT CAT CAT CAT CAT CAT CAT CAT CAG CAC CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
36768288 AGGCCATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (3 bp):
CAT
Found at i:36775559 original size:2 final size:2
Alignment explanation
Indices: 36775552--36775590 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
36775542 ATCTTTTTAT
36775552 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
36775591 GCTTCAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36776677 original size:12 final size:12
Alignment explanation
Indices: 36776660--36776695 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
36776650 CGAATCTGAC
36776660 AAAAAAATGAAG
1 AAAAAAATGAAG
*
36776672 AAAAAAAAGAAG
1 AAAAAAATGAAG
36776684 AAGAAAAATGAA
1 AA-AAAAATGAA
36776696 CAAATGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (12 bp):
AAAAAAATGAAG
Found at i:36777964 original size:31 final size:28
Alignment explanation
Indices: 36777903--36777965 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 28
36777893 TCAATTTGGC
*
36777903 ACCTAAACTTGTTTTGGTCCAATTAGGT
1 ACCTAAACTTGTTTTGGTCAAATTAGGT
36777931 ACCTAAACTTGGCTTTTTGGTTCAAATTA-GT
1 ACCTAAACTT-G--TTTTGG-TCAAATTAGGT
36777962 ACCT
1 ACCT
36777966 GAACATGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.33
29 1 0.03
31 12 0.40
32 7 0.23
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (28 bp):
ACCTAAACTTGTTTTGGTCAAATTAGGT
Found at i:36778148 original size:60 final size:59
Alignment explanation
Indices: 36778082--36778269 Score: 184
Period size: 60 Copynumber: 3.2 Consensus size: 59
36778072 CAATTTTTAG
* * * *
36778082 GTACCTAATTGGACCAAAATAAACTTTGGGTACCAACTTAAACCTTAAAGCCAAGTTCAA
1 GTACCTAATTGGA-CAAAATAAACTTTAGGTACCAACTTGAACCATAAAGCTAAGTTCAA
* * * * * * * *
36778142 GTACCTAATTGG--GAAA-AAACCTTAGGTACCGACATGAACCATGAAGTTAAGTTTAG
1 GTACCTAATTGGACAAAATAAACTTTAGGTACCAACTTGAACCATAAAGCTAAGTTCAA
* * * * *
36778198 GTATCAAATTGAACTAAAATAAACTTTAGGTACCAAATTGAACCATAAAACTAAGTTCAA
1 GTACCTAATTGGAC-AAAATAAACTTTAGGTACCAACTTGAACCATAAAGCTAAGTTCAA
36778258 GTACCTAATTGG
1 GTACCTAATTGG
36778270 GAAAAATCTT
Statistics
Matches: 96, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
56 38 0.40
57 3 0.03
59 3 0.03
60 52 0.54
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (59 bp):
GTACCTAATTGGACAAAATAAACTTTAGGTACCAACTTGAACCATAAAGCTAAGTTCAA
Found at i:36781819 original size:26 final size:26
Alignment explanation
Indices: 36781790--36781843 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
36781780 ATTTTATTAA
36781790 TTATAAAAGAATTAAAAGTTAAAATT
1 TTATAAAAGAATTAAAAGTTAAAATT
36781816 TTATAAAAGAATTAAAAGTTAAAATT
1 TTATAAAAGAATTAAAAGTTAAAATT
36781842 TT
1 TT
36781844 CATTTTAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (26 bp):
TTATAAAAGAATTAAAAGTTAAAATT
Found at i:36783177 original size:39 final size:39
Alignment explanation
Indices: 36783123--36783213 Score: 173
Period size: 39 Copynumber: 2.3 Consensus size: 39
36783113 ACACACACAC
36783123 AAGCTGTGGGATTCTTTTTTTTCTGTTCATAGTATATAT
1 AAGCTGTGGGATTCTTTTTTTTCTGTTCATAGTATATAT
*
36783162 AAGCTGCGGGATTCTTTTTTTTCTGTTCATAGTATATAT
1 AAGCTGTGGGATTCTTTTTTTTCTGTTCATAGTATATAT
36783201 AAGCTGTGGGATT
1 AAGCTGTGGGATT
36783214 TGAACATAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (39 bp):
AAGCTGTGGGATTCTTTTTTTTCTGTTCATAGTATATAT
Found at i:36793316 original size:26 final size:26
Alignment explanation
Indices: 36793267--36793320 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
36793257 TGCTTTTTTA
*
36793267 TTTCTCTTTTTTTATGATTTTTCTAGT
1 TTTCTATTTTTTTAT-ATTTTTCTAGT
36793294 TTTCTATTTTTTTAT-TTTGTTCTAGT
1 TTTCTATTTTTTTATATTT-TTCTAGT
36793320 T
1 T
36793321 GAACAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 3 0.12
26 8 0.32
27 14 0.56
ACGTcount: A:0.11, C:0.09, G:0.07, T:0.72
Consensus pattern (26 bp):
TTTCTATTTTTTTATATTTTTCTAGT
Found at i:36801457 original size:29 final size:30
Alignment explanation
Indices: 36801420--36801483 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
36801410 TAAGGACCTC
*
36801420 ATCAATTTAGTCCCTCTACTATT-AAATGA
1 ATCAATTTAGTCCCTCTACTATTAAAAAGA
* *
36801449 ATCAATTTAGTCCTTGTACTATTAAAAAGA
1 ATCAATTTAGTCCCTCTACTATTAAAAAGA
36801479 ATCAA
1 ATCAA
36801484 ACAAGGCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (30 bp):
ATCAATTTAGTCCCTCTACTATTAAAAAGA
Found at i:36803023 original size:15 final size:15
Alignment explanation
Indices: 36803005--36803057 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 15
36802995 ATAAATAATT
36803005 TAAAAATTATAAAAA
1 TAAAAATTATAAAAA
* *
36803020 TAAATATT-CAAAAA
1 TAAAAATTATAAAAA
36803034 TAAAAATTTCATAAAAA
1 TAAAAA-TT-ATAAAAA
36803051 TTAAAAA
1 -TAAAAA
36803058 AATGTACATG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.33
15 9 0.30
17 5 0.17
18 6 0.20
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATTATAAAAA
Found at i:36806263 original size:22 final size:23
Alignment explanation
Indices: 36806226--36806281 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
36806216 TCATTAAGAC
*
36806226 TCAAATTTTTTCAATTAAGTCT-T
1 TCAAAATTTTTCAATTAAG-CTAT
*
36806249 TCAAAATTTTT-AATTATGCTAT
1 TCAAAATTTTTCAATTAAGCTAT
*
36806271 TCCAAATTTTT
1 TCAAAATTTTT
36806282 TTTTTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 17 0.59
23 10 0.34
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (23 bp):
TCAAAATTTTTCAATTAAGCTAT
Found at i:36806282 original size:23 final size:23
Alignment explanation
Indices: 36806226--36806282 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
36806216 TCATTAAGAC
36806226 TCAAATTTTTTCAATTAAGTCTT
1 TCAAATTTTTTCAATTAAGTCTT
* *
36806249 TCAAAATTTTT-AATTATG-CTAT
1 TCAAATTTTTTCAATTAAGTCT-T
36806271 TCCAAATTTTTT
1 T-CAAATTTTTT
36806283 TTTTTTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 8 0.28
23 19 0.66
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.53
Consensus pattern (23 bp):
TCAAATTTTTTCAATTAAGTCTT
Found at i:36815447 original size:27 final size:28
Alignment explanation
Indices: 36815415--36815539 Score: 83
Period size: 28 Copynumber: 4.4 Consensus size: 28
36815405 CAAAAATGCG
** *
36815415 ATTTTTGGATGCCCGGGGTAAAATGATA
1 ATTTTTGGAAACCCAGGGTAAAATGATA
**
36815443 ATTTTTGGAAATTCAGGGTAAAATGATA
1 ATTTTTGGAAACCCAGGGTAAAATGATA
* ** *
36815471 ATTTTTGAAAAGTTCAGGGTTAAAAAATG-GA
1 ATTTTTGGAAA-CCCAGGG-T--AAAATGATA
* * *
36815502 ATTTTTGGAAATTCGAGGGTAAAATGGTA
1 ATTTTTGGAAA-CCCAGGGTAAAATGATA
36815531 A-TTTTGGAA
1 ATTTTTGGAA
36815540 GTTCGAGGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
28 47 0.59
29 9 0.11
30 2 0.03
31 16 0.20
32 6 0.08
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (28 bp):
ATTTTTGGAAACCCAGGGTAAAATGATA
Found at i:36815582 original size:58 final size:56
Alignment explanation
Indices: 36815442--36815830 Score: 267
Period size: 58 Copynumber: 6.7 Consensus size: 56
36815432 GTAAAATGAT
* * * * *
36815442 AATTTTTGGAAATTCAGGGTAAAATGATAATTTTTGAAAAGTTCAGGGTTAAAAAATGG
1 AATTTTTGGAAATTTAGGGTAAAATGGTAA-TTTTG-GAAGTTGAGGG-TCAAAAATGG
*
36815501 AATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTGGAAGTTCGAGGG-CAAAAATGG
1 AATTTTTGGAAATT-TAGGGTAAAATGGTAATTTTGGAAGTT-GAGGGTCAAAAATGG
* * * * *
36815558 GATTTTCGTGAAGTTTGGGGGT-AAATGGTAATTTTTGGAAAGTTTAGGGTC-AAAATGG
1 AATTTTTG-GAAATTT-AGGGTAAAATGGTAA-TTTTGG-AAGTTGAGGGTCAAAAATGG
* * *
36815616 AATTTTTGGAAATTTAGGGTAAAATGGTAATTTTAAGAAAGTTTG-GGGTTAAGAATGG
1 AATTTTTGGAAATTTAGGGTAAAATGGTAATTTT--GGAAG-TTGAGGGTCAAAAATGG
* **
36815674 AATTTTTGGAAATTTTAGGGT-AAATGGTAATTTTTGGAAGTTTAGGG--GGAAATGGG
1 AATTTTTGGAAA-TTTAGGGTAAAATGGTAA-TTTTGGAAGTTGAGGGTCAAAAAT-GG
* * * * * *
36815730 ATTTTTTGGAAGTTTAGGGGTAAAAAT-GTAATTTTTGTAAAATTTGGGGGGT-AAAAATGT
1 AATTTTTGGAAATTTA-GGGT-AAAATGGTAA-TTTTG--GAAGTT-GAGGGTCAAAAATGG
*
36815790 ATTTTTTGTGAAATTTGAGGGTAGAAAT-GTAACTTTTGGAA
1 AATTTTTG-GAAATTT-AGGGTA-AAATGGTAA-TTTTGGAA
36815831 AATTTAAGGT
Statistics
Matches: 268, Mismatches: 36, Indels: 52
0.75 0.10 0.15
Matches are distributed among these distances:
55 7 0.03
56 26 0.10
57 62 0.23
58 71 0.26
59 47 0.18
60 27 0.10
61 27 0.10
62 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (56 bp):
AATTTTTGGAAATTTAGGGTAAAATGGTAATTTTGGAAGTTGAGGGTCAAAAATGG
Found at i:36815764 original size:30 final size:28
Alignment explanation
Indices: 36815429--36815898 Score: 251
Period size: 28 Copynumber: 16.1 Consensus size: 28
36815419 TTGGATGCCC
* *
36815429 GGGGTAAAATGATAATTTTTGGAAATTCA
1 GGGGTAAAATG-TAATTTTTGGAAGTTTA
* *
36815458 -GGGTAAAATGATAATTTTTGAAAAGTTCA
1 GGGGTAAAATG-TAATTTTTG-GAAGTTTA
* * * *
36815487 GGGTTAAAAAATGGAATTTTTGGAA-ATTC
1 GGGGT--AAAATGTAATTTTTGGAAGTTTA
*
36815516 GAGGGTAAAATGGTAA-TTTTGGAAGTTCGA
1 G-GGGTAAAAT-GTAATTTTTGGAAGTT-TA
** ** * *
36815546 GGGCAAAAATGGGATTTTCGTGAAGTTTG
1 GGGGTAAAATGTAATTTTTG-GAAGTTTA
36815575 GGGGT-AAATGGTAATTTTTGGAAAGTTTA
1 GGGGTAAAAT-GTAATTTTTGG-AAGTTTA
* *
36815604 -GGGTCAAAATGGAATTTTTGGAAATTTA
1 GGGGT-AAAATGTAATTTTTGGAAGTTTA
* *
36815632 -GGGTAAAATGGTAATTTTAAGAAAGTTT-
1 GGGGTAAAAT-GTAATTTT-TGGAAGTTTA
* *
36815660 GGGGTTAAGAATGGAATTTTTGGAAATTTTA
1 GGGG-TAA-AATGTAATTTTTGG-AAGTTTA
36815691 -GGGT-AAATGGTAATTTTTGGAAGTTTA
1 GGGGTAAAAT-GTAATTTTTGGAAGTTTA
* * *
36815718 GGGG-GAAATGGGATTTTTTGGAAGTTTA
1 GGGGTAAAAT-GTAATTTTTGGAAGTTTA
* * *
36815746 GGGGTAAAAATGTAATTTTTGTAAAATTTGG
1 GGGGT-AAAATGTAATTTTTG-GAAGTTT-A
* *
36815777 GGGGTAAAAATGTATTTTTTGTGAAATTT-
1 GGGGT-AAAATGTAATTTTTG-GAAGTTTA
* *
36815806 GAGGGTAGAAATGTAACTTTTGGAAAATTTA
1 G-GGGTA-AAATGTAATTTTTGG-AAGTTTA
* * *
36815837 AGGTTAAAATGTAATTTTTAGAAAGTTTA
1 GGGGTAAAATGTAATTTTT-GGAAGTTTA
* * * *
36815866 AGTGTCAAAATATAATTTTTAGATAGTTTA
1 GGGGT-AAAATGTAATTTTTGGA-AGTTTA
36815896 GGG
1 GGG
36815899 ACCTATTGGG
Statistics
Matches: 344, Mismatches: 62, Indels: 69
0.72 0.13 0.15
Matches are distributed among these distances:
27 14 0.04
28 100 0.29
29 93 0.27
30 93 0.27
31 38 0.11
32 6 0.02
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.37
Consensus pattern (28 bp):
GGGGTAAAATGTAATTTTTGGAAGTTTA
Found at i:36815773 original size:86 final size:87
Alignment explanation
Indices: 36815430--36815818 Score: 323
Period size: 86 Copynumber: 4.4 Consensus size: 87
36815420 TGGATGCCCG
* * ** * * *
36815430 GGGTAAAATGATAATTTTTGGAAATTCAGGGTAAAATGATAATTTTTGAAAAGTTCAGGGTTAAA
1 GGGTAAAATGGTAATTTTTGGAAATTTAGGGTAAAATGGGATTTTTTGAAAAGTTTAGGGGT-AA
**
36815495 AAATGGAATTTTTGGAAATTCGA
65 AAATGGAATTTTTGGAAATTTTA
* * * * *
36815518 GGGTAAAATGGTAA-TTTTGGAAGTTCGAGGGCAAAAATGGGATTTTCGTG--AAGTTTGGGGGT
1 GGGTAAAATGGTAATTTTTGGAAATT-TAGGG-TAAAATGGGATTTT-TTGAAAAGTTTAGGGGT
*
36815580 --AAATGGTAATTTTTGGAAAGTTTA
63 AAAAATGG-AATTTTTGGAAATTTTA
* * *
36815604 GGGTCAAAATGG-AATTTTTGGAAATTTAGGGTAAAATGGTA-ATTTTAAGAAAGTTT-GGGGTT
1 GGGT-AAAATGGTAATTTTTGGAAATTTAGGGTAAAATGGGATTTTTTGA-AAAGTTTAGGGG-T
*
36815666 AAGAATGGAATTTTTGGAAATTTTA
63 AAAAATGGAATTTTTGGAAATTTTA
* ** *
36815691 GGGT-AAATGGTAATTTTTGGAAGTTTAGGGGGAAATGGGATTTTTTG-GAAGTTTAGGGGTAAA
1 GGGTAAAATGGTAATTTTTGGAAATTTAGGGTAAAATGGGATTTTTTGAAAAGTTTAGGGGTAAA
* * **
36815754 AATGTAATTTTTGTAAAATTTGGG
66 AATGGAATTTTTG-GAAATTT-TA
*
36815778 GGGTAAAAAT-GTATTTTTTGTGAAATTTGAGGGTAGAAATG
1 GGGT-AAAATGGTAATTTTTG-GAAATTT-AGGGTA-AAATG
36815819 TAACTTTTGG
Statistics
Matches: 240, Mismatches: 39, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
83 1 0.00
84 2 0.01
85 45 0.19
86 66 0.28
87 55 0.23
88 40 0.17
89 20 0.08
90 6 0.03
91 5 0.02
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.36
Consensus pattern (87 bp):
GGGTAAAATGGTAATTTTTGGAAATTTAGGGTAAAATGGGATTTTTTGAAAAGTTTAGGGGTAAA
AATGGAATTTTTGGAAATTTTA
Found at i:36815784 original size:31 final size:30
Alignment explanation
Indices: 36815746--36815855 Score: 123
Period size: 31 Copynumber: 3.7 Consensus size: 30
36815736 TGGAAGTTTA
36815746 GGGGTAAAAATGTAATTTTTGTAAAATTTGG
1 GGGGTAAAAATGTAATTTTTGTAAAATTT-G
* *
36815777 GGGGTAAAAATGTATTTTTTGTGAAATTTG
1 GGGGTAAAAATGTAATTTTTGTAAAATTTG
* * * *
36815807 AGGGTAGAAATGTAACTTTTGGAAAATTT-
1 GGGGTAAAAATGTAATTTTTGTAAAATTTG
** *
36815836 AAGGTTAAAATGTAATTTTT
1 GGGGTAAAAATGTAATTTTT
36815856 AGAAAGTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 16 0.24
30 24 0.36
31 27 0.40
ACGTcount: A:0.35, C:0.01, G:0.24, T:0.40
Consensus pattern (30 bp):
GGGGTAAAAATGTAATTTTTGTAAAATTTG
Found at i:36815865 original size:29 final size:29
Alignment explanation
Indices: 36815433--36815895 Score: 191
Period size: 29 Copynumber: 15.9 Consensus size: 29
36815423 ATGCCCGGGG
* *
36815433 TAAAATGATAATTTTTGGAAA--TTCAGGG
1 TAAAATG-TAATTTTTGGAAAGTTTAAGGT
* * *
36815461 TAAAATGATAATTTTTGAAAAGTTCAGGGT
1 TAAAATG-TAATTTTTGGAAAGTTTAAGGT
* ** *
36815491 TAAAAAATGGAATTTTTGGAAA-TTCGAGGG
1 T--AAAATGTAATTTTTGGAAAGTTTAAGGT
* * *
36815521 TAAAATGGTAA-TTTTGG-AAGTTCGAGGGC
1 TAAAAT-GTAATTTTTGGAAAGTT-TAAGGT
* ** * ** *
36815550 AAAAATGGGATTTTCGTG-AAGTTTGGGGG
1 TAAAATGTAATTTTTG-GAAAGTTTAAGGT
*
36815579 T-AAATGGTAATTTTTGGAAAGTTTAGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTAAGGT
* * *
36815608 CAAAATGGAATTTTTGGAAA-TTT-AGGG
1 TAAAATGTAATTTTTGGAAAGTTTAAGGT
** **
36815635 TAAAATGGTAATTTTAAGAAAGTTTGGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTAAGGT
* * *
36815665 TAAGAATGGAATTTTTGGAAA-TTTTAGGG
1 TAA-AATGTAATTTTTGGAAAGTTTAAGGT
*
36815694 T-AAATGGTAATTTTTGG-AAGTTT-AGGG
1 TAAAAT-GTAATTTTTGGAAAGTTTAAGGT
** * * *
36815721 GGAAATGGGATTTTTTGG-AAGTTTAGGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTA-AGGT
* * * **
36815751 AAAAATGTAATTTTTGTAAAATTTGGGGGGT
1 TAAAATGTAATTTTTGGAAAGTTT--AAGGT
* * * *
36815782 AAAAATGTATTTTTTGTGAAA-TTTGAGGG
1 TAAAATGTAATTTTTG-GAAAGTTTAAGGT
* *
36815811 TAGAAATGTAACTTTTGGAAAATTTAAGGT
1 TA-AAATGTAATTTTTGGAAAGTTTAAGGT
*
36815841 TAAAATGTAATTTTTAGAAAGTTTAAGTGT
1 TAAAATGTAATTTTTGGAAAGTTTAAG-GT
* * * *
36815871 CAAAATATAATTTTTAGATAGTTTA
1 TAAAATGTAATTTTTGGAAAGTTTA
36815896 GGGACCTATT
Statistics
Matches: 335, Mismatches: 72, Indels: 54
0.73 0.16 0.12
Matches are distributed among these distances:
27 18 0.05
28 88 0.26
29 93 0.28
30 91 0.27
31 36 0.11
32 9 0.03
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
TAAAATGTAATTTTTGGAAAGTTTAAGGT
Found at i:36817773 original size:17 final size:17
Alignment explanation
Indices: 36817751--36817816 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 17
36817741 TTTTTTAACT
36817751 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
36817768 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
36817785 AATTTAAACTCAAAATA
1 AATTTAAATTTAAAATA
*
36817802 AATTCAAATTTAAAA
1 AATTTAAATTTAAAA
36817817 ATTTGGACTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:36818051 original size:23 final size:24
Alignment explanation
Indices: 36818017--36818061 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
36818007 TTATAGTCCG
* *
36818017 AAAAATATAAGTA-ATAAATTACC
1 AAAAATAAAAGTACAAAAATTACC
36818040 AAAAATAAAAGTACAAAAATTA
1 AAAAATAAAAGTACAAAAATTA
36818062 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAATAAAAGTACAAAAATTACC
Found at i:36821595 original size:24 final size:24
Alignment explanation
Indices: 36821568--36821621 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
36821558 CTTAATACTC
* *
36821568 TTAAAAACCCAAACCTATTAAAAT
1 TTAAAAACCAAAACCAATTAAAAT
* * *
36821592 TTAAAATCCAAAATCAATTAATAT
1 TTAAAAACCAAAACCAATTAAAAT
36821616 TTAAAA
1 TTAAAA
36821622 CCTAAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (24 bp):
TTAAAAACCAAAACCAATTAAAAT
Found at i:36823402 original size:2 final size:2
Alignment explanation
Indices: 36823397--36823423 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36823387 TTTTTTTCTT
36823397 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
36823424 TTAAAATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36830287 original size:21 final size:21
Alignment explanation
Indices: 36830238--36830288 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
36830228 CCTTTTTAAA
*
36830238 AAATACAA-A-AAAATATTTT
1 AAATACAATATAAAATATATT
** *
36830257 AAATTTAATATAATATATATT
1 AAATACAATATAAAATATATT
36830278 AAATACAATAT
1 AAATACAATAT
36830289 GTTTTCAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 17 0.71
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATACAATATAAAATATATT
Found at i:36830434 original size:29 final size:27
Alignment explanation
Indices: 36830401--36830467 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
36830391 TTCACCTTTC
*
36830401 TATTAAAAAATAGATAAATTAATTTTTT
1 TATTAAAAAAAAG-TAAATTAATTTTTT
*
36830429 ATATTAAATCAAAAAGTAAATTGATTTTTT
1 -TATTAAA--AAAAAGTAAATTAATTTTTT
*
36830459 TGTTAAAAA
1 TATTAAAAA
36830468 TTTCATTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
29 13 0.39
30 13 0.39
31 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (27 bp):
TATTAAAAAAAAGTAAATTAATTTTTT
Found at i:36837472 original size:147 final size:145
Alignment explanation
Indices: 36837207--36837495 Score: 343
Period size: 147 Copynumber: 2.0 Consensus size: 145
36837197 CAAAAATTAG
* * * ** * * * *
36837207 GAAAATGAGAATAGTGGTTTGCTTGGCAGAGTAGAAAAAAGGGAAGAAATGGATATAGGATGGTG
1 GAAAACGAGAATAGTAGTTTGCTTGGCAGAGTAAAAAAAACAGAAGAAATGAATAAAAGACGGTG
** * *
36837272 AAAAACCAAAAAGATCATAAATGTTTGAGTGTGTTTGGTAGGGAAGAAAATTCTCGCTT-ACTTA
66 AAAAACCAAAAAGATCATAAATGTTTGAGCATGTTTGGTAGGGAAAAAAATTCTC-ATTCACTTA
36837336 ACTGCATTACAAAGAT
130 ACTGCATTACAAAGAT
*
36837352 GAAAACGAGATTAGTAGTTTGCTTGGCAGAGTGAAAAAAAAAACAGAAG-AATGAATAAAAGACG
1 GAAAACGAGAATAGTAGTTTGCTTGGCAGAGT---AAAAAAAACAGAAGAAATGAATAAAAGACG
* *
36837416 GTGAAAAACTAAAAAGAAT-ATGAATGTTTGAGCATGTTTGGTA-GGAAAAAGAATTCTCATTCA
63 GTGAAAAACCAAAAAG-ATCATAAATGTTTGAGCATGTTTGGTAGGGAAAAA-AATTCTCATTCA
*
36837479 CTTAGCTGCATTACAAA
126 CTTAACTGCATTACAAA
36837496 AGATTAGCAT
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
145 29 0.24
146 8 0.07
147 71 0.59
148 13 0.11
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.25
Consensus pattern (145 bp):
GAAAACGAGAATAGTAGTTTGCTTGGCAGAGTAAAAAAAACAGAAGAAATGAATAAAAGACGGTG
AAAAACCAAAAAGATCATAAATGTTTGAGCATGTTTGGTAGGGAAAAAAATTCTCATTCACTTAA
CTGCATTACAAAGAT
Found at i:36841650 original size:31 final size:32
Alignment explanation
Indices: 36841607--36841677 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
36841597 TTTTCCTCTA
36841607 AACTTGTCC-AAAAGTACCTAGTTGGTACCTG
1 AACTTGTCCAAAAAGTACCTAGTTGGTACCTG
* * *
36841638 AACTTGTTCAAAAAGTAGCTAGTTGGTATCTG
1 AACTTGTCCAAAAAGTACCTAGTTGGTACCTG
36841670 AACTTGTC
1 AACTTGTC
36841678 TAGAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (32 bp):
AACTTGTCCAAAAAGTACCTAGTTGGTACCTG
Found at i:36859671 original size:45 final size:48
Alignment explanation
Indices: 36859606--36859717 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 48
36859596 GAGGGAGGAC
* * *
36859606 TAGTTGGCGGCGGAGCTGCTGCGGCTGGTGGT-G-GT-GTAGGAGTGT
1 TAGTTGGCGGCGGAGTTGCTGCGGCTGGTGGTGGCGTGGAAGGAGTGG
* *
36859651 TAGTTGGCGGCGGAGTTGCTGTGGTTGGTGGTGGCGTGGAAGGAGTGG
1 TAGTTGGCGGCGGAGTTGCTGCGGCTGGTGGTGGCGTGGAAGGAGTGG
36859699 TAGTTGGCGGCGGAGTTGC
1 TAGTTGGCGGCGGAGTTGC
36859718 AGTGGATGGC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
45 29 0.49
46 1 0.02
47 2 0.03
48 27 0.46
ACGTcount: A:0.10, C:0.12, G:0.52, T:0.27
Consensus pattern (48 bp):
TAGTTGGCGGCGGAGTTGCTGCGGCTGGTGGTGGCGTGGAAGGAGTGG
Found at i:36859695 original size:48 final size:45
Alignment explanation
Indices: 36859606--36859722 Score: 153
Period size: 48 Copynumber: 2.5 Consensus size: 45
36859596 GAGGGAGGAC
* * * *
36859606 TAGTTGGCGGCGGAGCTGCTGCGGCTGGTGGTGGTGTAGGAGTGT
1 TAGTTGGCGGCGGAGTTGCTGTGGCTGGTGGTGGTGAAGGAGTGG
*
36859651 TAGTTGGCGGCGGAGTTGCTGTGGTTGGTGGTGGCGTGGAAGGAGTGG
1 TAGTTGGCGGCGGAGTTGCTGTGGCTGGTGGT-G-GT-GAAGGAGTGG
*
36859699 TAGTTGGCGGCGGAGTTGCAGTGG
1 TAGTTGGCGGCGGAGTTGCTGTGG
36859723 ATGGCGGCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 29 0.46
46 1 0.02
47 2 0.03
48 31 0.49
ACGTcount: A:0.10, C:0.11, G:0.52, T:0.26
Consensus pattern (45 bp):
TAGTTGGCGGCGGAGTTGCTGTGGCTGGTGGTGGTGAAGGAGTGG
Found at i:36859721 original size:24 final size:24
Alignment explanation
Indices: 36859646--36859722 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
36859636 GTGGTGTAGG
*
36859646 AGTGTTAGTTGGCGGCGGAGTTGC
1 AGTGGTAGTTGGCGGCGGAGTTGC
* * * * ** *
36859670 TGTGGTTGGTGGTGGCGTG-GAAGG
1 AGTGGTAGTTGGCGGCG-GAGTTGC
36859694 AGTGGTAGTTGGCGGCGGAGTTGC
1 AGTGGTAGTTGGCGGCGGAGTTGC
36859718 AGTGG
1 AGTGG
36859723 ATGGCGGCGA
Statistics
Matches: 36, Mismatches: 15, Indels: 4
0.65 0.27 0.07
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.12, C:0.09, G:0.52, T:0.27
Consensus pattern (24 bp):
AGTGGTAGTTGGCGGCGGAGTTGC
Found at i:36859741 original size:48 final size:48
Alignment explanation
Indices: 36859643--36859761 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
36859633 GTGGTGGTGT
* * * * * *
36859643 AGGAGTGTTAGTTGGCGGCGGAGTTGCTGTGGTTGGTGGTGGCGTGGA
1 AGGAGTGCTAGTTGGCGGCGGAGTTGCAGTGGATGGCGGCGACGTGGA
* *
36859691 AGGAGTGGTAGTTGGCGGCGGAGTTGCAGTGGATGGCGGCGATG-GAGA
1 AGGAGTGCTAGTTGGCGGCGGAGTTGCAGTGGATGGCGGCGACGTG-GA
*
36859739 AGGAG-GACTACTTGGCGGCGGAG
1 AGGAGTG-CTAGTTGGCGGCGGAG
36859762 CTCCGGCTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
47 2 0.03
48 58 0.97
ACGTcount: A:0.16, C:0.11, G:0.51, T:0.22
Consensus pattern (48 bp):
AGGAGTGCTAGTTGGCGGCGGAGTTGCAGTGGATGGCGGCGACGTGGA
Found at i:36862614 original size:2 final size:2
Alignment explanation
Indices: 36862607--36862646 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
36862597 ACTGCCCATA
36862607 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
36862647 TTGAAGGTAA
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:36874158 original size:17 final size:17
Alignment explanation
Indices: 36874134--36874182 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
36874124 TATTATTGAA
36874134 TTTT-TTATTTATATA-T
1 TTTTATTATTTATA-AGT
36874150 TTTTATTATTTATAAGT
1 TTTTATTATTTATAAGT
*
36874167 TTTATAATATTTATAA
1 TTT-TATTATTTATAA
36874183 ATAAGAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.17
17 13 0.45
18 11 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATTATTTATAAGT
Found at i:36874161 original size:21 final size:24
Alignment explanation
Indices: 36874113--36874162 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 24
36874103 ATATAATTTT
*
36874113 TTTATTTATTATATTATTGAATTT
1 TTTATTTATTATATTATTGAATTA
*
36874137 TTTATTTA-TATATT-TT-TATTA
1 TTTATTTATTATATTATTGAATTA
36874158 TTTAT
1 TTTAT
36874163 AAGTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 2 0.08
23 6 0.25
24 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTTATTATATTATTGAATTA
Found at i:36877129 original size:3 final size:3
Alignment explanation
Indices: 36877123--36877179 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
36877113 GGTTGAAAAC
36877123 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36877171 ATA ATA ATA
1 ATA ATA ATA
36877180 TTATTATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36877184 original size:3 final size:3
Alignment explanation
Indices: 36877178--36877209 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36877168 ATAATAATAA
36877178 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
36877210 AAATTTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:36879751 original size:44 final size:44
Alignment explanation
Indices: 36879701--36879790 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
36879691 TATATGATGC
36879701 ATTGTAGGTAAACATCTACACCACATCTCTTTATAGGTGAAATA
1 ATTGTAGGTAAACATCTACACCACATCTCTTTATAGGTGAAATA
36879745 ATTGTAGGTAAACATCTACACCACATCTCTTTATAGGTGAAATA
1 ATTGTAGGTAAACATCTACACCACATCTCTTTATAGGTGAAATA
36879789 AT
1 AT
36879791 AAATAGCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (44 bp):
ATTGTAGGTAAACATCTACACCACATCTCTTTATAGGTGAAATA
Found at i:36885863 original size:17 final size:18
Alignment explanation
Indices: 36885841--36885874 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36885831 AATAAGCATC
*
36885841 AATTGGGTTT-AAATTTT
1 AATTGGATTTGAAATTTT
36885858 AATTGGATTTGAAATTT
1 AATTGGATTTGAAATTT
36885875 GGGTTTAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (18 bp):
AATTGGATTTGAAATTTT
Found at i:36887404 original size:13 final size:15
Alignment explanation
Indices: 36887378--36887419 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
36887368 ATTTATCTTA
36887378 CAATAA-TCATTAAT
1 CAATAATTCATTAAT
36887392 CAAT-ATT-ATTAAT
1 CAATAATTCATTAAT
*
36887405 TAATAATTCATTAAT
1 CAATAATTCATTAAT
36887420 TAAGCATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 8 0.33
15 6 0.25
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
CAATAATTCATTAAT
Found at i:36890922 original size:28 final size:29
Alignment explanation
Indices: 36890868--36890922 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
36890858 AAACTTTTCA
**
36890868 AACAATGTAATAATTTATATTTCATTATT
1 AACAATGTAATAATTTATAGCTCATTATT
36890897 AACAATGT-ATAATTTTATAGCT-ATTA
1 AACAATGTAATAA-TTTATAGCTCATTA
36890923 ACAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (29 bp):
AACAATGTAATAATTTATAGCTCATTATT
Found at i:36896976 original size:149 final size:149
Alignment explanation
Indices: 36896749--36897484 Score: 1204
Period size: 149 Copynumber: 4.9 Consensus size: 149
36896739 TCTCACAGCC
* * ** *
36896749 ACAGGTATCCCTTGTGTTTGATCTTTACTTGCCTAATTGCCTCTTTGCATTGGAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
* *
36896814 CTCTGTAACTGTTCTCTAGGGCCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
36896879 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
* * * *
36896898 ACAGGTATCCCTCATGTTTGATCTTTAATTGCCTGATTGCATCTTCACACTGAAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
36896963 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
36897028 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
* * * * *
36897047 ACAGGTATCACTCGTGTTTGATCTTTACTTGCTTGTTTGCCTCTTCACACTGAAACTCTTCTAAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
36897112 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
*
36897177 ATAAATCAAATGGTGGAAA
131 ATAAATCAAATGATGGAAA
*
36897196 ACAGGTATCCCTCGTGTTTGATCTTTACTTGTCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
*
36897261 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATATGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
36897326 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
* ** *
36897345 ACAGGTATCCCTCATGTTTGCA-CTTTACTTGCCTGATTATCTCTTCACACTGGAACTCTTCTAA
1 ACAGGTATCCCTCGTGTTTG-ATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGA
* * * * *
36897409 TCTCTGTAAGTATTCTCTAGGACCGACCTAAGAAATACGAGTCTTTCCATGTCAATGGTGATGAT
65 TCTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGAT
36897474 AATAAATCAAA
130 AATAAATCAAA
36897485 CGACGGAACA
Statistics
Matches: 548, Mismatches: 38, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
149 547 1.00
150 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (149 bp):
ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
ATAAATCAAATGATGGAAA
Found at i:36906828 original size:17 final size:17
Alignment explanation
Indices: 36906806--36906875 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 17
36906796 ATAATTTAAT
36906806 TTTTAAAATTAAATTTA
1 TTTTAAAATTAAATTTA
*
36906823 TTTTAAATTTAAATTTA
1 TTTTAAAATTAAATTTA
* * *
36906840 CTTAAAAATTTAAGTTTA
1 TTTTAAAA-TTAAATTTA
* *
36906858 TTATAAATTTAAATTTA
1 TTTTAAAATTAAATTTA
36906875 T
1 T
36906876 AAATTAAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
17 30 0.71
18 12 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTTAAAATTAAATTTA
Found at i:36908689 original size:162 final size:162
Alignment explanation
Indices: 36908490--36908835 Score: 527
Period size: 162 Copynumber: 2.1 Consensus size: 162
36908480 TTTTAATTGG
*
36908490 TTTTCAATTTAATCCTTTGACTGTTTGACTACACCAGAGGCCGCCACGTGTCACTTTTTGGTTTA
1 TTTTCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCCGCCACGTGTCACTTTTTGGTTTA
* * *
36908555 TTTCTTCATTTAGTCCCTATCATTTTTAATTTGTTTTAATTTAG-TCCTCAAATCAACTTCTGCT
66 TTTATGCATTTAGTCCCTATCATTTTTAATTTGTTTTAATTTAGTTCC-AAAATCAACTTCTGCT
36908619 TAATTACAAAATTGGCCCAAGA-ATTTTTCAAGA
130 TAATTACAAAATTGGCCCAA-ATATTTTTCAAGA
*
36908652 TTTAT-AAATTAATCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTT
1 TTT-TCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCCGCCACGTGTCACTTTTTGGTTT
** * * *
36908716 ATTTATGCATTTAGTGTCTGTCATTTTTAATTTGTTTTAATTTAGTTCCAAAATCAAGTTCTGTT
65 ATTTATGCATTTAGTCCCTATCATTTTTAATTTGTTTTAATTTAGTTCCAAAATCAACTTCTGCT
* *
36908781 TAATTACAAAATTGGCCCAAATTTTTTTTAAGA
130 TAATTACAAAATTGGCCCAAATATTTTTCAAGA
*
36908814 TTTTCAAATTAGTCCTTTGACT
1 TTTTCAAATTAATCCTTTGACT
36908836 TCAGAATGCC
Statistics
Matches: 167, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
161 2 0.01
162 161 0.96
163 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (162 bp):
TTTTCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCCGCCACGTGTCACTTTTTGGTTTA
TTTATGCATTTAGTCCCTATCATTTTTAATTTGTTTTAATTTAGTTCCAAAATCAACTTCTGCTT
AATTACAAAATTGGCCCAAATATTTTTCAAGA
Found at i:36908970 original size:29 final size:28
Alignment explanation
Indices: 36908905--36909337 Score: 172
Period size: 29 Copynumber: 14.7 Consensus size: 28
36908895 CCCCAAACAG
* * *
36908905 TCCAGAAATTACATTTTGACCTCGAAACTT
1 TCCA-AAATTCCATTTTAACCCCG-AACTT
** * *
36908935 TTGAAAATTGCCGTTTTATCCCCGAACTT
1 TCCAAAATT-CCATTTTAACCCCGAACTT
*
36908964 TCCAAAATTCCATTTTTAACCTCG-A-TT
1 TCCAAAATTCCA-TTTTAACCCCGAACTT
*
36908991 TCATCAAAACTTACCATTTTACCCCCGAACTT
1 TC--CAAAA-TT-CCATTTTAACCCCGAACTT
* *
36909023 TCCAAAATTCTATTTTTAA-CCCTAA-TT
1 TCCAAAATTCCA-TTTTAACCCCGAACTT
* *
36909050 TCACCAAAAATTACCATTTTACCCCCAAACTT
1 T--CC-AAAATT-CCATTTTAACCCCGAACTT
* *
36909082 TCCAAAATTCTATTTTTAACCCCG--GTT
1 TCCAAAATTCCA-TTTTAACCCCGAACTT
** *
36909109 TCACCGAAAATTACCATTTTCCCCCCAAACTT
1 T--CC-AAAATT-CCATTTTAACCCCGAACTT
*
36909141 TCCAAAATTCCATTTTTAACCCCG--GTT
1 TCCAAAATTCCA-TTTTAACCCCGAACTT
*
36909168 TCACCGAAAATTACCGTTTT-ACCCTCGAACTT
1 T--CC-AAAATT-CCATTTTAACCC-CGAACTT
* * *
36909200 TCCAAAATCCCGTTTTTAACCTCG-A-TT
1 TCCAAAATTCC-ATTTTAACCCCGAACTT
* ****
36909227 TCACTGAAAATTACCGTTTTATTTTCGAACTT
1 TC-C--AAAATT-CCATTTTAACCCCGAACTT
*
36909259 TCCAAAATTTCATTTTTAACCCCG-A-TT
1 TCCAAAATTCCA-TTTTAACCCCGAACTT
* * * *
36909286 TCATCGAAAATTACCGTCTTACCCCCGACCTT
1 TC--C-AAAATT-CCATTTTAACCCCGAACTT
36909318 TCCAAAATTCCATTTTAACC
1 TCCAAAATTCCATTTTAACC
36909338 TTGGTTTCAC
Statistics
Matches: 301, Mismatches: 57, Indels: 92
0.67 0.13 0.20
Matches are distributed among these distances:
27 21 0.07
28 29 0.10
29 108 0.36
30 102 0.34
31 20 0.07
32 21 0.07
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.36
Consensus pattern (28 bp):
TCCAAAATTCCATTTTAACCCCGAACTT
Found at i:36909146 original size:118 final size:119
Alignment explanation
Indices: 36908937--36909416 Score: 578
Period size: 118 Copynumber: 4.1 Consensus size: 119
36908927 CGAAACTTTT
* * *
36908937 GAAAATTGCCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-AAAAC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCGAAAA-
* *
36909001 TTACCATTTTACCCCCGAACTTTCCAAAATTCT-ATTTTTAACCCTAATTTCACC
65 TTACCATTTTACCCCCAAACTTTCCAAAATTCTCATTTTTAACCCCAATTTCACC
* * * * * *
36909055 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGGTTTCACCGAAAAT
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCGAAAAT
* **
36909120 TACCATTTTCCCCCCAAACTTTCCAAAATTC-CATTTTTAACCCCGGTTTCACC
66 TACCATTTTACCCCCAAACTTTCCAAAATTCTCATTTTTAACCCCAATTTCACC
* * * *
36909173 GAAAATTACCGTTTTACCCTCGAACTTTCCAAAATCCCGTTTTTAACCTCGATTTCACTGAAAAT
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCGAAAAT
* **** * * *
36909238 TACCGTTTTATTTTCGAACTTTCCAAAATT-TCATTTTTAACCCCGATTTCATC
66 TACCATTTTACCCCCAAACTTTCCAAAATTCTCATTTTTAACCCCAATTTCACC
* * * *
36909291 GAAAATTACCGTCTTACCCCCGACCTTTCCAAAATTCCA-TTTTAACCTTGGTTTCACCGAAAAT
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCGAAAAT
* * * *
36909355 TACCGTTTTACCCTCAAACCTTCCAAAA-TCTCATTTTTAACCCTAAATTTC-CC
66 TACCATTTTACCCCCAAACTTTCCAAAATTCTCATTTTTAACCC-CAATTTCACC
*
36909408 CAAAATTAC
1 GAAAATTAC
36909417 ATTTTCCCCC
Statistics
Matches: 307, Mismatches: 50, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
116 1 0.00
117 67 0.22
118 235 0.77
119 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (119 bp):
GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCGAAAAT
TACCATTTTACCCCCAAACTTTCCAAAATTCTCATTTTTAACCCCAATTTCACC
Found at i:36909191 original size:177 final size:178
Alignment explanation
Indices: 36908954--36909426 Score: 595
Period size: 177 Copynumber: 2.7 Consensus size: 178
36908944 GCCGTTTTAT
* * * *
36908954 CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-AAAACTTACCATTTTACCCCCG
1 CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCGAAAA-TTACCGTTTTACCCTCG
36909018 AACTTTCCAAAATTCTATTTTTAACCCT-AATTTCACCAAAAATTACCATTTTACCCCCAAACTT
65 AACTTTCCAAAATTCTATTTTTAACCCTAAATTTCACCAAAAATTACCATTTTACCCCCAAACTT
* * *
36909082 TCCAAAA-TTCTATTTTTAACCCCGGTTTCACCGAAAATTACCATTTTCC
130 TCCAAAATTTC-ATTTTTAACCCCGATTTCACCGAAAATTACCATCTTAC
* *
36909131 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCACCGAAAATTACCGTTTTACCCTCGA
1 CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCGAAAATTACCGTTTTACCCTCGA
* ** ** ** * **** *
36909196 ACTTTCCAAAATCCCGTTTTTAA-CCTCGATTTCACTGAAAATTACCGTTTTATTTTCGAACTTT
66 ACTTTCCAAAATTCTATTTTTAACCCTAAATTTCACCAAAAATTACCATTTTACCCCCAAACTTT
* *
36909260 CCAAAATTTCATTTTTAACCCCGATTTCATCGAAAATTACCGTCTTAC
131 CCAAAATTTCATTTTTAACCCCGATTTCACCGAAAATTACCATCTTAC
* * *
36909308 CCCCGACCTTTCCAAAATTCCA-TTTTAACCTTGGTTTCACCGAAAATTACCGTTTTACCCTCAA
1 CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCGAAAATTACCGTTTTACCCTCGA
* *
36909372 ACCTTCCAAAA-TCTCATTTTTAACCCTAAATTTC-CCCAAAATTA-CATTTT-CCCCC
66 ACTTTCCAAAATTCT-ATTTTTAACCCTAAATTTCACCAAAAATTACCATTTTACCCCC
36909427 TGAGAGTCAA
Statistics
Matches: 250, Mismatches: 41, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
174 1 0.00
175 6 0.02
176 67 0.27
177 169 0.68
178 7 0.03
ACGTcount: A:0.29, C:0.30, G:0.05, T:0.35
Consensus pattern (178 bp):
CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCGAAAATTACCGTTTTACCCTCGA
ACTTTCCAAAATTCTATTTTTAACCCTAAATTTCACCAAAAATTACCATTTTACCCCCAAACTTT
CCAAAATTTCATTTTTAACCCCGATTTCACCGAAAATTACCATCTTAC
Found at i:36909414 original size:59 final size:59
Alignment explanation
Indices: 36908937--36909416 Score: 521
Period size: 59 Copynumber: 8.2 Consensus size: 59
36908927 CGAAACTTTT
* * *
36908937 GAAAATTGCCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCATC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATT-CATTTTTAACCCTCGATTTCACC
* *
36908996 -AAAACTTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCCT-AATTTCACC
1 GAAAA-TTACCGTTTTACCCCCGAACTTTCCAAAATTC-ATTTTTAACCCTCGATTTCACC
* * * *
36909055 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCC-CGGTTTCACC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTC-ATTTTTAACCCTCGATTTCACC
* * * *
36909114 GAAAATTACCATTTTCCCCCCAAACTTTCCAAAATTCCATTTTTAACCC-CGGTTTCACC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATT-CATTTTTAACCCTCGATTTCACC
* * * *
36909173 GAAAATTACCGTTTTACCCTCGAACTTTCCAAAATCCCGTTTTTAA-CCTCGATTTCACT
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAAT-TCATTTTTAACCCTCGATTTCACC
**** *
36909232 GAAAATTACCGTTTTATTTTCGAACTTTCCAAAATTTCATTTTTAACCC-CGATTTCATC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAA-TTCATTTTTAACCCTCGATTTCACC
* * * *
36909291 GAAAATTACCGTCTTACCCCCGACCTTTCCAAAATTCCA-TTTTAA-CCTTGGTTTCACC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATT-CATTTTTAACCCTCGATTTCACC
* * * **
36909349 GAAAATTACCGTTTTACCCTCAAACCTTCCAAAATCTCATTTTTAACCCTAAATTTC-CC
1 GAAAATTACCGTTTTACCCCCGAACTTTCCAAAAT-TCATTTTTAACCCTCGATTTCACC
*
36909408 CAAAATTAC
1 GAAAATTAC
36909417 ATTTTCCCCC
Statistics
Matches: 363, Mismatches: 43, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
57 2 0.01
58 54 0.15
59 289 0.80
60 18 0.05
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (59 bp):
GAAAATTACCGTTTTACCCCCGAACTTTCCAAAATTCATTTTTAACCCTCGATTTCACC
Found at i:36914486 original size:15 final size:15
Alignment explanation
Indices: 36914451--36914495 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
36914441 TAAACCAAAT
**
36914451 AATTAAATGCTAAAA
1 AATTAAATATTAAAA
36914466 AA-TAAATATTAAAA
1 AATTAAATATTAAAA
*
36914480 AATTAAACATTAAAA
1 AATTAAATATTAAAA
36914495 A
1 A
36914496 TAAGTATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (15 bp):
AATTAAATATTAAAA
Found at i:36915327 original size:16 final size:16
Alignment explanation
Indices: 36915294--36915327 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36915284 TTTTAAAAAA
* *
36915294 TTTAAAAAATATTTTT
1 TTTAAAAAAAATTCTT
36915310 TTTAAAAAAAATTCTT
1 TTTAAAAAAAATTCTT
36915326 TT
1 TT
36915328 ATAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAAAAAAATTCTT
Found at i:36915444 original size:3 final size:3
Alignment explanation
Indices: 36915436--36915461 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36915426 AAGGGAATCT
36915436 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
36915462 GCTCTCTCTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36919568 original size:6 final size:6
Alignment explanation
Indices: 36919557--36919584 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
36919547 AATTCCATGG
36919557 CCCCCT CCCCCT CCCCCT CCCCCT CCCC
1 CCCCCT CCCCCT CCCCCT CCCCCT CCCC
36919585 GAGAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.86, G:0.00, T:0.14
Consensus pattern (6 bp):
CCCCCT
Found at i:36931680 original size:2 final size:2
Alignment explanation
Indices: 36931673--36931709 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36931663 TTTACTTTTA
36931673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36931710 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36931714 original size:2 final size:2
Alignment explanation
Indices: 36931709--36931779 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
36931699 ATATATATAT
36931709 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36931751 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36931780 CTTTTTTTTG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36932126 original size:2 final size:2
Alignment explanation
Indices: 36932119--36932146 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36932109 TTACCGTCAA
36932119 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
36932147 TACCCTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36936873 original size:28 final size:30
Alignment explanation
Indices: 36936811--36936879 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
36936801 TATTTAACAG
* * *
36936811 AAATCTATTAAGTAAAGGAATTAAATTCCAG
1 AAATCTA-AAAGTAAAGGAACTAAATTCCAA
*
36936842 AAAT-TAAAAGTAGAGGAACT-AATTCCAA
1 AAATCTAAAAGTAAAGGAACTAAATTCCAA
36936870 AAATCTAAAA
1 AAATCTAAAA
36936880 AGTATAGGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 11 0.33
29 16 0.48
30 2 0.06
31 4 0.12
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.25
Consensus pattern (30 bp):
AAATCTAAAAGTAAAGGAACTAAATTCCAA
Found at i:36942220 original size:30 final size:30
Alignment explanation
Indices: 36942186--36942274 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 30
36942176 ATCAAGTTTT
36942186 GAGAGTCTAATTGAAATTTTCAAAAATT-A
1 GAGAGTCTAATTGAAATTTTCAAAAATTGA
*
36942215 CGAGAG-CTTAA-TGAAAATTTTAAAAAATTTTGA
1 -GAGAGTC-TAATTG-AAATTTTCAAAAA--TTGA
* *
36942248 GAGAGTTTAATTAAAATTTTCAAAAAT
1 GAGAGTCTAATTGAAATTTTCAAAAAT
36942275 ATTCAAGGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
29 3 0.06
30 21 0.44
32 22 0.46
33 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (30 bp):
GAGAGTCTAATTGAAATTTTCAAAAATTGA
Found at i:36942440 original size:18 final size:19
Alignment explanation
Indices: 36942414--36942453 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
36942404 TTATTTTGTA
36942414 TTTATATTTGGT-TTTAATG
1 TTTATATTTGGTATTTAA-G
36942433 TTTA-ATTTGGTATTTAAG
1 TTTATATTTGGTATTTAAG
36942451 TTT
1 TTT
36942454 TTTTGTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (19 bp):
TTTATATTTGGTATTTAAG
Found at i:36955462 original size:114 final size:114
Alignment explanation
Indices: 36955039--36955449 Score: 759
Period size: 114 Copynumber: 3.6 Consensus size: 114
36955029 ATACTTGGTT
* *
36955039 TAAAACATTTCACCACTCGTACAGATGTAGTTAGTGTAATACAAGCAATTTTCCACTATAGAAAC
1 TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACTACAGAAAC
*
36955104 GAGGTTTGTATATACATGCATGCATACATTATTCACATACATGCATACA
66 GAGGTTTGTATATACATGCATGCATACATTACTCACATACATGCATACA
36955153 TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACTACAGAAAC
1 TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACTACAGAAAC
36955218 GAGGTTTGTATATACATGCATGCATACATTACTCACATACATGCATACA
66 GAGGTTTGTATATACATGCATGCATACATTACTCACATACATGCATACA
* * *
36955267 TAAAACATTTCACCACTCGTACATATGTAGTTCGTGTAATACAAGCAATTTTCCACAATAGAAAC
1 TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACTACAGAAAC
36955332 GAGGTTTGTATATACATGCATGCATACATTACTCACATACATGCATACA
66 GAGGTTTGTATATACATGCATGCATACATTACTCACATACATGCATACA
*
36955381 TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACCACAGAAAC
1 TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACTACAGAAAC
36955446 GAGG
66 GAGG
36955450 CCTGTACATA
Statistics
Matches: 288, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 288 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (114 bp):
TAAAACATTTCACCACTCGTACAGATGTAGTTCGTGTAATACAAGCAATTTTCCACTACAGAAAC
GAGGTTTGTATATACATGCATGCATACATTACTCACATACATGCATACA
Found at i:36956556 original size:132 final size:133
Alignment explanation
Indices: 36956332--36956714 Score: 420
Period size: 132 Copynumber: 2.9 Consensus size: 133
36956322 GTGTTAGTTG
* * * * ** * *
36956332 CCCAAAGCCGACAAACCCCTCAACACGTCCAATATTGTCCCCAATCAAGCCAAGATTTTATCTCC
1 CCCAAAGCCAACGAACCCCTCAACACGTCCAATATTGTCCTCGATCGGGCCAAGGTTTTATCTCT
* * *
36956397 CGACTTAATCAGGAGCCCG-AGTACATGAGGCTACCTAAAGAAGCGACAAG-TTTAGAAGTGTCA
66 CGACTTAGTCAAGAG-CCGAAGTACATGAGGCTACCTGAAGAAGCGACAAGATTTAGAAGTGTCA
36956460 TCTA
130 TCTA
* * ** * * *
36956464 CCCAGAGCCGACGTGCCCCTCAACAAGTCCAGTATTGTCCTCGATCGGGCCTAGGTTTTATCTCT
1 CCCAAAGCCAACGAACCCCTCAACACGTCCAATATTGTCCTCGATCGGGCCAAGGTTTTATCTCT
* *
36956529 TGACTTAGTCAAGAGTCGAAGTACATGAGGCTACGC-GAAGAAGCGAC-AGATTTAGAAGTGTCA
66 CGACTTAGTCAAGAGCCGAAGTACATGAGGCTAC-CTGAAGAAGCGACAAGATTTAGAAGTGTCA
36956592 TCTA
130 TCTA
* * * * *
36956596 CCCAAAGCCAACGAACCCCTCAACACTTTCAACATTGTCCTCGATTGGGCCGAGGTTTTATCT-T
1 CCCAAAGCCAACGAACCCCTCAACACGTCCAATATTGTCCTCGATCGGGCCAAGGTTTTATCTCT
* * * *
36956660 CCAACTTAGTCGAGAGCCTGAA-TACATGAGGCTGCCTGAAGAAGTGAC-AGATTTA
66 -CGACTTAGTCAAGAGCC-GAAGTACATGAGGCTACCTGAAGAAGCGACAAGATTTA
36956715 CTGGGTAAGA
Statistics
Matches: 210, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
131 6 0.03
132 200 0.95
133 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (133 bp):
CCCAAAGCCAACGAACCCCTCAACACGTCCAATATTGTCCTCGATCGGGCCAAGGTTTTATCTCT
CGACTTAGTCAAGAGCCGAAGTACATGAGGCTACCTGAAGAAGCGACAAGATTTAGAAGTGTCAT
CTA
Found at i:36963848 original size:60 final size:60
Alignment explanation
Indices: 36963714--36963848 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 60
36963704 TAAATTTAGG
* * *
36963714 ATTGAATCTAAAAAAAGCTTAGATACCAAATTAGGAAAAAAATGCCAAGTTCAGGTACCAA
1 ATTGAGTC-AAAAAAAACTTAGATACCAAATTAGGAAAAAAATACCAAGTTCAGGTACCAA
* * * * * * * * *
36963775 AATGGGGCCAAAAAAATTTAGGTACCAAATTA-GAAAAAAATATCAAGTTCAGGTGCTAA
1 ATTGAGTCAAAAAAAACTTAGATACCAAATTAGGAAAAAAATACCAAGTTCAGGTACCAA
36963834 ATTGAGTCAAAAAAA
1 ATTGAGTCAAAAAAA
36963849 TTAAGAAAAA
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
59 34 0.59
60 20 0.34
61 4 0.07
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (60 bp):
ATTGAGTCAAAAAAAACTTAGATACCAAATTAGGAAAAAAATACCAAGTTCAGGTACCAA
Found at i:36964666 original size:3 final size:3
Alignment explanation
Indices: 36964658--36964698 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
36964648 TTGGATTTGA
36964658 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
36964699 AGTAAAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:36969569 original size:8 final size:8
Alignment explanation
Indices: 36969558--36969592 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
36969548 TTTAAAACCT
36969558 AAATTTTA
1 AAATTTTA
36969566 AAATTTTA
1 AAATTTTA
36969574 AAATTTTA
1 AAATTTTA
36969582 AAATTTTA
1 AAATTTTA
36969590 AAA
1 AAA
36969593 GTAAAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAATTTTA
Found at i:36972483 original size:30 final size:30
Alignment explanation
Indices: 36972433--36972494 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
36972423 ACTTATTTTA
* * *
36972433 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTCAATTTTATTACTATTTTAAAGGCAT
* *
36972463 TTGTCAATTTTGTTACTATTTTAAAGGTAT
1 TTGTCAATTTTATTACTATTTTAAAGGCAT
36972493 TT
1 TT
36972495 AATTGTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTCAATTTTATTACTATTTTAAAGGCAT
Found at i:36972629 original size:19 final size:20
Alignment explanation
Indices: 36972596--36972635 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
36972586 TTTTTAATGC
* *
36972596 ATTATATATATATA-TATAA
1 ATTATATAAAAATATTATAA
36972615 ATTATATAAAAATATTATAA
1 ATTATATAAAAATATTATAA
36972635 A
1 A
36972636 AATTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATATAAAAATATTATAA
Found at i:36973255 original size:25 final size:25
Alignment explanation
Indices: 36973208--36973255 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36973198 TGTCAATTTA
*
36973208 TAATATTCTATTCTACTCTTTTTGT
1 TAATATTCTATTCTACTCATTTTGT
*
36973233 TAATACTTCT-TTCTAGTCATTTT
1 TAATA-TTCTATTCTACTCATTTT
36973256 AGAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.21, C:0.17, G:0.04, T:0.58
Consensus pattern (25 bp):
TAATATTCTATTCTACTCATTTTGT
Found at i:36979937 original size:21 final size:21
Alignment explanation
Indices: 36979913--36979959 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36979903 AGTATACTCT
* *
36979913 CCACCTCCCCCTCCCCCTCCA
1 CCACCTCCACCTCCACCTCCA
*
36979934 CCACCTCCACCTCCACCTCCT
1 CCACCTCCACCTCCACCTCCA
36979955 CCACC
1 CCACC
36979960 ATCTCCACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.72, G:0.00, T:0.15
Consensus pattern (21 bp):
CCACCTCCACCTCCACCTCCA
Found at i:36979946 original size:15 final size:14
Alignment explanation
Indices: 36979911--36979959 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
36979901 CCAGTATACT
36979911 CTCCACCT-C-CCC
1 CTCCACCTCCACCC
*
36979923 CTCCCCCTCCACCAC
1 CTCCACCTCCACC-C
36979938 CTCCACCTCCACCTC
1 CTCCACCTCCACC-C
36979953 CTCCACC
1 CTCCACC
36979960 ATCTCCACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 7 0.23
13 1 0.03
14 2 0.06
15 21 0.68
ACGTcount: A:0.12, C:0.71, G:0.00, T:0.16
Consensus pattern (14 bp):
CTCCACCTCCACCC
Found at i:36979992 original size:6 final size:6
Alignment explanation
Indices: 36979911--36979975 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
36979901 CCAGTATACT
* * *
36979911 CTCCAC CTCCCC CTCCCC CTCCA- --CCAC CTCCAC CTCCAC CTCCTC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
* * *
36979956 CACCAT CTCCAC CGCCAC CT
1 CTCCAC CTCCAC CTCCAC CT
36979976 GTTTATTCAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 3 0.07
6 43 0.93
ACGTcount: A:0.14, C:0.68, G:0.02, T:0.17
Consensus pattern (6 bp):
CTCCAC
Found at i:36980046 original size:30 final size:29
Alignment explanation
Indices: 36980012--36980154 Score: 117
Period size: 30 Copynumber: 5.2 Consensus size: 29
36980002 CTCACCTCCG
36980012 CCACCTTCACCACCCCCACCGGTTTACTCT
1 CCACCTTCACCACCCCCACC-GTTTACTCT
** * *
36980042 CCACCACCACCACCCTCACC---T-C-CA
1 CCACCTTCACCACCCCCACCGTTTACTCT
36980066 CCACCTTCACCACCCCCACCAGTTTACTCT
1 CCACCTTCACCACCCCCACC-GTTTACTCT
** * *
36980096 CCACCACCACCACCCTCACC---T-C-CA
1 CCACCTTCACCACCCCCACCGTTTACTCT
36980120 CCACCTTCACCACCCCCACCAGTTTACTCT
1 CCACCTTCACCACCCCCACC-GTTTACTCT
36980150 CCACC
1 CCACC
36980155 ACCACCCCCG
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
24 36 0.42
25 2 0.02
26 2 0.02
28 2 0.02
29 2 0.02
30 41 0.48
ACGTcount: A:0.21, C:0.59, G:0.03, T:0.17
Consensus pattern (29 bp):
CCACCTTCACCACCCCCACCGTTTACTCT
Found at i:36980061 original size:15 final size:15
Alignment explanation
Indices: 36980043--36980085 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
36980033 GTTTACTCTC
36980043 CACCACCACCACCCT
1 CACCACCACCACCCT
* *
36980058 CACCTCCACCACCTT
1 CACCACCACCACCCT
*
36980073 CACCACCCCCACC
1 CACCACCACCACC
36980086 AGTTTACTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.67, G:0.00, T:0.09
Consensus pattern (15 bp):
CACCACCACCACCCT
Found at i:36980076 original size:21 final size:21
Alignment explanation
Indices: 36980040--36980130 Score: 56
Period size: 21 Copynumber: 4.8 Consensus size: 21
36980030 CCGGTTTACT
**
36980040 CTCCACCACCACCACCCTCAC
1 CTCCACCACCTTCACCCTCAC
36980061 CTCCACCACCTTCA--C-CAC
1 CTCCACCACCTTCACCCTCAC
* * *
36980079 CCCCACCA-GTTTA--CT--C
1 CTCCACCACCTTCACCCTCAC
**
36980095 -TCCACCACCACCACCCTCAC
1 CTCCACCACCTTCACCCTCAC
36980115 CTCCACCACCTTCACC
1 CTCCACCACCTTCACC
36980131 ACCCCCACCA
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
15 6 0.12
16 2 0.04
17 4 0.08
18 12 0.24
19 1 0.02
20 1 0.02
21 25 0.49
ACGTcount: A:0.22, C:0.62, G:0.01, T:0.15
Consensus pattern (21 bp):
CTCCACCACCTTCACCCTCAC
Found at i:36980115 original size:15 final size:15
Alignment explanation
Indices: 36980097--36980139 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
36980087 GTTTACTCTC
36980097 CACCACCACCACCCT
1 CACCACCACCACCCT
* *
36980112 CACCTCCACCACCTT
1 CACCACCACCACCCT
*
36980127 CACCACCCCCACC
1 CACCACCACCACC
36980140 AGTTTACTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.67, G:0.00, T:0.09
Consensus pattern (15 bp):
CACCACCACCACCCT
Found at i:36980133 original size:18 final size:19
Alignment explanation
Indices: 36979991--36980140 Score: 82
Period size: 18 Copynumber: 8.3 Consensus size: 19
36979981 TTCACCTCCA
* *
36979991 CCACCACCATC-CTCACCT
1 CCACCACCTTCACTCACCC
*
36980009 CCGCCACCTTCAC-CACCC
1 CCACCACCTTCACTCACCC
** * * *
36980027 CCACC-GGTTTACTCTCCA
1 CCACCACCTTCACTCACCC
* * *
36980045 CCACCACC-ACCCTCACCT
1 CCACCACCTTCACTCACCC
36980063 CCACCACCTTCAC-CACCC
1 CCACCACCTTCACTCACCC
* * * *
36980081 CCACCA-GTTTACTCTCCA
1 CCACCACCTTCACTCACCC
* * *
36980099 CCACCACC-ACCCTCACCT
1 CCACCACCTTCACTCACCC
36980117 CCACCACCTTCAC-CACCC
1 CCACCACCTTCACTCACCC
36980135 CCACCA
1 CCACCA
36980141 GTTTACTCTC
Statistics
Matches: 93, Mismatches: 32, Indels: 14
0.67 0.23 0.10
Matches are distributed among these distances:
17 8 0.09
18 80 0.86
19 5 0.05
ACGTcount: A:0.21, C:0.61, G:0.03, T:0.15
Consensus pattern (19 bp):
CCACCACCTTCACTCACCC
Found at i:36980194 original size:54 final size:54
Alignment explanation
Indices: 36979929--36980179 Score: 335
Period size: 54 Copynumber: 4.6 Consensus size: 54
36979919 CCCCCTCCCC
* * * * * * *
36979929 CTCCACCACCTCCA-CCTCCACCTCCTCCACCATCTCCACCGCCACCTGTTTATTCAC
1 CTCCACCACCACCACCCT-CACCTCCACCACCTTCACCACCCCCACCAGTTTA--C-T
* * *
36979986 CTCCACCACCACCATCCTCACCTCCGCCACCTTCACCACCCCCACCGGTTTACT
1 CTCCACCACCACCACCCTCACCTCCACCACCTTCACCACCCCCACCAGTTTACT
36980040 CTCCACCACCACCACCCTCACCTCCACCACCTTCACCACCCCCACCAGTTTACT
1 CTCCACCACCACCACCCTCACCTCCACCACCTTCACCACCCCCACCAGTTTACT
36980094 CTCCACCACCACCACCCTCACCTCCACCACCTTCACCACCCCCACCAGTTTACT
1 CTCCACCACCACCACCCTCACCTCCACCACCTTCACCACCCCCACCAGTTTACT
* *
36980148 CTCCACCACCACC-CCCGTCACCCCCGCCACCT
1 CTCCACCACCACCACCC-TCACCTCCACCACCT
36980180 ACTTATCCAT
Statistics
Matches: 180, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
53 3 0.02
54 131 0.73
55 1 0.01
57 42 0.23
58 3 0.02
ACGTcount: A:0.20, C:0.59, G:0.04, T:0.18
Consensus pattern (54 bp):
CTCCACCACCACCACCCTCACCTCCACCACCTTCACCACCCCCACCAGTTTACT
Found at i:37004100 original size:17 final size:16
Alignment explanation
Indices: 37004068--37004099 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37004058 TAAATTTAAG
37004068 TATCAAATTAAAAAAA
1 TATCAAATTAAAAAAA
37004084 TATCAAATTAAAAAAA
1 TATCAAATTAAAAAAA
37004100 AGTGTGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
TATCAAATTAAAAAAA
Found at i:37013492 original size:13 final size:13
Alignment explanation
Indices: 37013474--37013500 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37013464 AAGTAGATTC
37013474 ATCATCATCATCA
1 ATCATCATCATCA
37013487 ATCATCATCATCA
1 ATCATCATCATCA
37013500 A
1 A
37013501 CAACCACCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (13 bp):
ATCATCATCATCA
Found at i:37024322 original size:5 final size:5
Alignment explanation
Indices: 37024312--37024336 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37024302 GTGTGAGGTT
37024312 GTGCA GTGCA GTGCA GTGCA GTGCA
1 GTGCA GTGCA GTGCA GTGCA GTGCA
37024337 TGCCCCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
GTGCA
Found at i:37025177 original size:60 final size:58
Alignment explanation
Indices: 37025074--37025259 Score: 216
Period size: 59 Copynumber: 3.1 Consensus size: 58
37025064 TTAATATAAT
* *
37025074 ATTTGGTA-TCTGAACTTACACTTTTTCCTAATTTGGTATCTAAAGTTTTTTTTGATCCA
1 ATTTGGTACT-TGAACTTACA-TTTTTCCTAATTTGGTACCTAAAGTTTTTTTAGATCCA
*
37025133 ATTTGGTACTTGAACTTGACTTTTTTTCCTAATTTGGTACCTAAACG-TTTTTTAGATCCA
1 ATTTGGTACTTGAACTT-AC-ATTTTTCCTAATTTGGTACCTAAA-GTTTTTTTAGATCCA
* * * * *
37025193 ATTTGGTACCTAAACTTAGCATTTTTCTTAATTTGGTGCCT-AAGCTTTTTTTAGATTCA
1 ATTTGGTACTTGAACTTA-CATTTTTCCTAATTTGGTACCTAAAG-TTTTTTTAGATCCA
37025252 ATTTGGTA
1 ATTTGGTA
37025260 TCTAAATTTA
Statistics
Matches: 111, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 54 0.49
60 53 0.48
61 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (58 bp):
ATTTGGTACTTGAACTTACATTTTTCCTAATTTGGTACCTAAAGTTTTTTTAGATCCA
Found at i:37025196 original size:29 final size:29
Alignment explanation
Indices: 37025103--37025207 Score: 92
Period size: 29 Copynumber: 3.6 Consensus size: 29
37025093 ACTTTTTCCT
* *
37025103 AATTTGGTATCTAAA-GTTTTTTTTGATCC
1 AATTTGGTACCTAAACG-ATTTTTTGATCC
* *
37025132 AATTTGGTACTTGAACTTGACTTTTTT--TCC
1 AATTTGGTACCTAAAC--GA-TTTTTTGATCC
37025162 TAATTTGGTACCTAAACG-TTTTTTAGATCC
1 -AATTTGGTACCTAAACGATTTTTT-GATCC
37025192 AATTTGGTACCTAAAC
1 AATTTGGTACCTAAAC
37025208 TTAGCATTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
27 6 0.10
29 29 0.47
30 6 0.10
31 14 0.23
32 7 0.11
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (29 bp):
AATTTGGTACCTAAACGATTTTTTGATCC
Done.