Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 253 of 292
Found at i:73369014 original size:15 final size:15
Alignment explanation
Indices: 73368994--73369024 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
73368984 ATTTCAAAGG
73368994 ACCAAAAACAAACCA
1 ACCAAAAACAAACCA
*
73369009 ACCAAAACCAAACCA
1 ACCAAAAACAAACCA
73369024 A
1 A
73369025 ACACAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (15 bp):
ACCAAAAACAAACCA
Found at i:73376724 original size:19 final size:20
Alignment explanation
Indices: 73376687--73376725 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
73376677 TTTTAAAAAC
* *
73376687 ATTTTTATTTGGAATTTTAA
1 ATTTTTATTTGAAAATTTAA
73376707 ATTTTT-TTTGAAAATTTAA
1 ATTTTTATTTGAAAATTTAA
73376726 GATTATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
ATTTTTATTTGAAAATTTAA
Found at i:73376848 original size:15 final size:16
Alignment explanation
Indices: 73376828--73376860 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
73376818 AACATAATCC
73376828 AAAAACAAAAA-AAAA
1 AAAAACAAAAACAAAA
73376843 AAAAACAAAAACAAAA
1 AAAAACAAAAACAAAA
73376859 AA
1 AA
73376861 TGACATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAACAAAA
Found at i:73377253 original size:8 final size:8
Alignment explanation
Indices: 73377240--73377285 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
73377230 CGTTATAGTT
*
73377240 TTTTTTTG
1 TTTTTTTA
73377248 TTTTTTTA
1 TTTTTTTA
73377256 --TTTTTA
1 TTTTTTTA
*
73377262 TTTTTTCA
1 TTTTTTTA
*
73377270 TTTTTATA
1 TTTTTTTA
73377278 TTTTTTTA
1 TTTTTTTA
73377286 ACATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
6 6 0.19
8 25 0.81
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:73377265 original size:14 final size:14
Alignment explanation
Indices: 73377238--73377283 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
73377228 TTCGTTATAG
*
73377238 TTTT-TTTTTGTTT
1 TTTTATTTTTATTT
73377251 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
73377265 TTTCATTTTTATATT
1 TTTTATTTTTAT-TT
73377280 TTTT
1 TTTT
73377284 TAACATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 4 0.14
14 19 0.68
15 5 0.18
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:73377611 original size:2 final size:2
Alignment explanation
Indices: 73377604--73377630 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
73377594 AATTACTCAA
73377604 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 A
73377631 GAATAATTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73384941 original size:115 final size:114
Alignment explanation
Indices: 73384703--73385046 Score: 577
Period size: 116 Copynumber: 3.0 Consensus size: 114
73384693 AAATAGGAGA
73384703 TAAAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT-CAACCAAAAAAAAAAT
1 TAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAAAT
* *
73384766 TCGAATTTTTTAGAGCAAAAAAAATTTTTTTACTCTCTAAAAATACGAGTTT
66 TCGAATTTTTT---TCAAAAAAAAATTTTTTACTCTCTAAAAATACGAGTTT
*
73384818 TAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCCGCACCCAGTACAA-CAAAAAAAAAAT
1 TAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAAA-
73384882 TTCGAATTTTTTTCAAAAAAAAATTTTTTACTCTCTAAAAATACGAGTTT
65 TTCGAATTTTTTTCAAAAAAAAATTTTTTACTCTCTAAAAATACGAGTTT
73384932 TAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAAA
1 TAAAAAAAAAA-TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAAA
*
73384997 TTCGAATTTTTTTCAAAAAAAATATTTTTTGCTCTCTAAAAATACGAGTT
65 TTCGAATTTTTTTCAAAAAAAA-ATTTTTTACTCTCTAAAAATACGAGTT
73385047 GTTGGAGTTT
Statistics
Matches: 218, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
114 47 0.22
115 73 0.33
116 83 0.38
117 15 0.07
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (114 bp):
TAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAAAT
TCGAATTTTTTTCAAAAAAAAATTTTTTACTCTCTAAAAATACGAGTTT
Found at i:73385516 original size:119 final size:118
Alignment explanation
Indices: 73385182--73385542 Score: 554
Period size: 119 Copynumber: 3.1 Consensus size: 118
73385172 GTAAAATATG
* *
73385182 AATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTATTTTTTGAAAAAAATTTGAA
1 AATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAA-AATTTTTTGAAAAAAATTCGAA
73385247 ATTTTTTTTTGGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAAA
65 A-TTTTTTTTGGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAA
* *
73385301 ATTTTTTTTTTTAAAACTCGTATTTTTAGAGAG-AAAAAAAGAA--TTTTGAAAAAAATTCGAAA
1 AATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTTTTGAAAAAAATTCGAAA
* *
73385363 TTTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAAAAA
66 TTTTTTTTGGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAA
* * *
73385416 AAATTTTCTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTTTTGCTCTAAAAAATTCG
1 AATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTTTTG---AAAAAAATTCG
73385481 -AATTTTTTTTGGTTG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAA
63 AAATTTTTTTTGGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAA
73385535 AATTTTTT
1 AATTTTTT
73385543 AATCTCATAT
Statistics
Matches: 220, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
114 44 0.20
115 54 0.25
116 9 0.04
117 1 0.00
118 12 0.05
119 76 0.35
120 14 0.06
121 10 0.05
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (118 bp):
AATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTTTTGAAAAAAATTCGAAA
TTTTTTTTGGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAA
Found at i:73388204 original size:35 final size:35
Alignment explanation
Indices: 73388160--73388326 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
73388150 TCCTCATTGA
** *
73388160 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
73388195 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
73388235 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
73388270 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
73388305 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
73388327 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:73388243 original size:75 final size:73
Alignment explanation
Indices: 73388155--73388326 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
73388145 GGTTTTCCTC
** * * **
73388155 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
73388219 TCAGTATGG
65 TCAGTATGG
*
73388228 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
73388293 CTCAGTATGG
64 CTCAGTATGG
73388303 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
73388327 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:73395697 original size:35 final size:35
Alignment explanation
Indices: 73395653--73395819 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
73395643 TCCTCATTGA
** *
73395653 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
73395688 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
73395728 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
73395763 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
73395798 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
73395820 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:73395736 original size:75 final size:73
Alignment explanation
Indices: 73395648--73395819 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
73395638 GGTTTTCCTC
** * * **
73395648 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
73395712 TCAGTATGG
65 TCAGTATGG
*
73395721 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
73395786 CTCAGTATGG
64 CTCAGTATGG
73395796 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
73395820 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:73397393 original size:11 final size:10
Alignment explanation
Indices: 73397344--73397394 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
73397334 AGGTTAATGT
73397344 TAATTAATTA
1 TAATTAATTA
*
73397354 TTGATTAATTA
1 -TAATTAATTA
*
73397365 -AACTAATTA
1 TAATTAATTA
*
73397374 TGATTAATTA
1 TAATTAATTA
73397384 TAAGTTAATTA
1 TAA-TTAATTA
73397395 AAGGCATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.22
10 9 0.28
11 16 0.50
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (10 bp):
TAATTAATTA
Found at i:73398638 original size:43 final size:42
Alignment explanation
Indices: 73398530--73398687 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 42
73398520 TTATTTTAAA
* * *
73398530 AAAACGCCGCTAAAGAGCATGACTTTTAGCGGCACTTTTTTTTTC
1 AAAACGCCGCTAAAGATCATGACCTTTAGCGGCAC---TTTTCTC
* * *
73398575 -AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
1 AAAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCTC
*
73398616 GAAAACGCCTCTAAAGATCATGACCTTTAGCGGCACTTTTCTC
1 -AAAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCTC
* * *
73398659 ACAGACGCCGCTAAAAATCATGAACTTTA
1 A-AAACGCCGCTAAAGATCATGACCTTTA
73398688 AAAAATTTAT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 5 0.05
42 1 0.01
43 60 0.62
44 31 0.32
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
AAAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCTC
Found at i:73398733 original size:26 final size:23
Alignment explanation
Indices: 73398685--73398733 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 23
73398675 ATCATGAACT
*
73398685 TTAAAAAATTTATTTTATTTTAA
1 TTAAAAAATTTATTTTATGTTAA
73398708 TTAAATAATATTTATTTTTATGTTAA
1 TTAAA-AA-ATTTA-TTTTATGTTAA
73398734 ATATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 2 0.09
25 5 0.23
26 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTAAAAAATTTATTTTATGTTAA
Found at i:73398736 original size:22 final size:23
Alignment explanation
Indices: 73398708--73398750 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
73398698 TTTATTTTAA
*
73398708 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
73398730 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
73398751 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:73403966 original size:17 final size:18
Alignment explanation
Indices: 73403933--73403966 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73403923 TATCTCTTAA
73403933 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
73403951 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
73403967 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:73404190 original size:13 final size:13
Alignment explanation
Indices: 73404172--73404196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73404162 TTTCCAACAG
73404172 TAAACCCTAAACC
1 TAAACCCTAAACC
73404185 TAAACCCTAAAC
1 TAAACCCTAAAC
73404197 TATAAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:73404202 original size:20 final size:20
Alignment explanation
Indices: 73404179--73404222 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
73404169 CAGTAAACCC
73404179 TAAACCTAAACCCTAAACTA
1 TAAACCTAAACCCTAAACTA
* * *
73404199 TAAACCTATATCCTAAACTC
1 TAAACCTAAACCCTAAACTA
73404219 TAAA
1 TAAA
73404223 TATATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAACCTAAACCCTAAACTA
Found at i:73404228 original size:20 final size:20
Alignment explanation
Indices: 73404190--73404229 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
73404180 AAACCTAAAC
*
73404190 CCTAAACTATAAACCTATAT
1 CCTAAACTATAAACATATAT
* *
73404210 CCTAAACTCTAAATATATAT
1 CCTAAACTATAAACATATAT
73404230 ATATATTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (20 bp):
CCTAAACTATAAACATATAT
Found at i:73404411 original size:14 final size:14
Alignment explanation
Indices: 73404394--73404432 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
73404384 GTAAAACAAA
*
73404394 AAACCACAAACTCT
1 AAACCAAAAACTCT
*
73404408 AAACCATAAACTCT
1 AAACCAAAAACTCT
73404422 AAACCAAAAAC
1 AAACCAAAAAC
73404433 AATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:73404856 original size:29 final size:29
Alignment explanation
Indices: 73404801--73404857 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
73404791 TTTATATTGA
*
73404801 ATAAATATAAATATTTATGTATACAATAT
1 ATAAATATAAATATTGATGTATACAATAT
73404830 ATAAATATAAA-A-TGATGTTATATCAATA
1 ATAAATATAAATATTGATG-TATA-CAATA
73404858 ATTGTGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 5 0.20
29 16 0.64
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
ATAAATATAAATATTGATGTATACAATAT
Found at i:73405182 original size:41 final size:41
Alignment explanation
Indices: 73405137--73405280 Score: 234
Period size: 41 Copynumber: 3.5 Consensus size: 41
73405127 TTTTTACGGT
* * *
73405137 GTTTTTCCAAAAGCGCCGCTAAAATCACGATCTATAGCGGC
1 GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
* *
73405178 GTTTTTCCAAAAGCGCCACTAAAACCTCAACCTATAGCGGC
1 GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
*
73405219 ATTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
1 GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
73405260 GTTTTTCCAAAAGCGCCGCTA
1 GTTTTTCCAAAAGCGCCGCTA
73405281 TTGTTCAGTT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (41 bp):
GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
Found at i:73405375 original size:41 final size:41
Alignment explanation
Indices: 73405253--73405384 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 41
73405243 CCTCGACCTA
** * *
73405253 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* **
73405293 TAGCGGTGTTTGGACCAAAAACGCTACTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* *
73405334 TAG-GGCGTTTGGATCAAAAACGCCGCTCTTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* *
73405374 TTGCAGCGTTT
1 TAGCGGCGTTT
73405385 TATTGCAAAC
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 44 0.58
41 32 0.42
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:73406352 original size:17 final size:17
Alignment explanation
Indices: 73406330--73406401 Score: 135
Period size: 17 Copynumber: 4.2 Consensus size: 17
73406320 CTAATTTGAG
73406330 TCTTGATTAATGCTTAA
1 TCTTGATTAATGCTTAA
73406347 TCTTGATTAATGCTTAA
1 TCTTGATTAATGCTTAA
*
73406364 TATTGATTAATGCTTAA
1 TCTTGATTAATGCTTAA
73406381 TCTTGATTAATGCTTAA
1 TCTTGATTAATGCTTAA
73406398 TCTT
1 TCTT
73406402 AGTTTGGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (17 bp):
TCTTGATTAATGCTTAA
Found at i:73406895 original size:19 final size:20
Alignment explanation
Indices: 73406873--73406914 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
73406863 ATGGTATCGA
73406873 TACC-AAAAGAAAGTATCAG
1 TACCTAAAAGAAAGTATCAG
*
73406892 TACCTAAAGGAAAGTATCAG
1 TACCTAAAAGAAAGTATCAG
73406912 TAC
1 TAC
73406915 TTCAAACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (20 bp):
TACCTAAAAGAAAGTATCAG
Found at i:73407880 original size:26 final size:26
Alignment explanation
Indices: 73407843--73407978 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
73407833 TGATACAAAT
* *
73407843 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
73407869 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
** *
73407895 TGATAATATGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
73407921 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
73407947 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
73407973 TGATAA
1 TGATAA
73407979 GAATATCATG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:73409974 original size:136 final size:137
Alignment explanation
Indices: 73409729--73410014 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
73409719 GAGTAGTCTC
73409729 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
73409794 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
73409859 ACTGTTA
131 ACTGTTA
*
73409866 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
73409930 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
73409995 ACTGTTA
131 ACTGTTA
**
73410002 CCTGAATGGGCTT
1 CCCAAATGGGCTT
73410015 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 126 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:73413740 original size:26 final size:26
Alignment explanation
Indices: 73413653--73413786 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
73413643 TGATACAAAT
73413653 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
73413679 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
73413703 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
73413729 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
73413755 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
73413781 TGATAA
1 TGATAA
73413787 GAATTTCATG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:73415810 original size:134 final size:137
Alignment explanation
Indices: 73415569--73415852 Score: 520
Period size: 134 Copynumber: 2.1 Consensus size: 137
73415559 GAGTAGTCTC
73415569 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
73415634 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTA-C
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
73415697 ACTGTTA
131 ACTGTTA
*
73415704 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
73415768 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
73415833 ACTGTTA
131 ACTGTTA
**
73415840 CCTGAATGGGCTT
1 CCCAAATGGGCTT
73415853 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 95 0.66
135 30 0.21
136 19 0.13
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:73425971 original size:20 final size:18
Alignment explanation
Indices: 73425922--73425978 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
73425912 ATTTCACACT
73425922 ATATTATAATTGATTTATA
1 ATATTA-AATTGATTTATA
73425941 ATATTAAATTGATATTA-A
1 ATATTAAATTGAT-TTATA
73425959 ATTATTGAAATTGAATTTAT
1 A-TATT-AAATTG-ATTTAT
73425979 TGAAAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 9 0.27
19 13 0.39
20 9 0.27
21 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
ATATTAAATTGATTTATA
Found at i:73428322 original size:6 final size:6
Alignment explanation
Indices: 73428313--73428346 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
73428303 TTCTTTTTCT
*
73428313 TTTTAG TTTTAG TTTTAG TTTTAA TTTTAG TTTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTT
73428347 CTTGTTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (6 bp):
TTTTAG
Found at i:73428322 original size:12 final size:12
Alignment explanation
Indices: 73428307--73428346 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
73428297 TTTTTTTTCT
*
73428307 TTTTCTTTTTAG
1 TTTTATTTTTAG
*
73428319 TTTTAGTTTTAG
1 TTTTATTTTTAG
*
73428331 TTTTAATTTTAG
1 TTTTATTTTTAG
73428343 TTTT
1 TTTT
73428347 CTTGTTTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:73428328 original size:18 final size:18
Alignment explanation
Indices: 73428307--73428349 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
73428297 TTTTTTTTCT
*
73428307 TTTTCTTTTTAGTTTTAG
1 TTTTCTTTTTAATTTTAG
**
73428325 TTTTAGTTTTAATTTTAG
1 TTTTCTTTTTAATTTTAG
73428343 TTTTCTT
1 TTTTCTT
73428350 GTTTCCTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTTAATTTTAG
Found at i:73431339 original size:6 final size:6
Alignment explanation
Indices: 73431328--73431367 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
73431318 TGCTGGATAT
* **
73431328 TGTTAC TGTTAC CGTTAC CATTAC TGTTAC TGTTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTT
73431368 TCGGATTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
TGTTAC
Found at i:73431413 original size:6 final size:6
Alignment explanation
Indices: 73431402--73431429 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
73431392 CTGTGTACCG
73431402 TACTGT TACTGT TACTGT TACTGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACT
73431430 ATTTCGGCTT
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:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:73433809 original size:53 final size:53
Alignment explanation
Indices: 73433728--73433873 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
73433718 CTTACACGGT
* *
73433728 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
73433783 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
73433836 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
73433874 AACAGGCACA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:73440517 original size:26 final size:26
Alignment explanation
Indices: 73440436--73440555 Score: 201
Period size: 26 Copynumber: 4.7 Consensus size: 26
73440426 GATAATAGGT
73440436 GGTAAATG-TTCATGATAATGGGTTA
1 GGTAAATGTTTCATGATAATGGGTTA
*
73440461 GG-AAATGTTTCATGATAAT-AGTTA
1 GGTAAATGTTTCATGATAATGGGTTA
*
73440485 GGTAAATGTTCCATGATAATGGGTTA
1 GGTAAATGTTTCATGATAATGGGTTA
73440511 GGTAAATGTTTCATGATAATGGGTTA
1 GGTAAATGTTTCATGATAATGGGTTA
73440537 GGTAAATGTTTCATGATAA
1 GGTAAATGTTTCATGATAA
73440556 GAATATCATG
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
24 11 0.12
25 29 0.33
26 48 0.55
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
GGTAAATGTTTCATGATAATGGGTTA
Found at i:73446344 original size:26 final size:25
Alignment explanation
Indices: 73446250--73446382 Score: 205
Period size: 26 Copynumber: 5.2 Consensus size: 25
73446240 TGATACAAAT
73446250 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
73446276 TGATAATGGTTAGGTAAATGTT-CA
1 TGATAATGGTTAGGTAAATGTTCCA
*
73446300 TGATAATAGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
73446325 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
73446351 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
73446377 TGATAA
1 TGATAA
73446383 GAATTCATGT
Statistics
Matches: 102, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
24 23 0.23
25 24 0.24
26 55 0.54
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:73448435 original size:135 final size:136
Alignment explanation
Indices: 73448157--73448439 Score: 525
Period size: 135 Copynumber: 2.1 Consensus size: 136
73448147 AGTAGTCTCC
73448157 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
73448222 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
73448287 CTGTTA
131 CTGTTA
*
73448293 CCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
73448357 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAAT-TGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
73448421 CTGTTA
131 CTGTTA
*
73448427 CCTGAATGGGCTT
1 CC-AAATGGGCTT
73448440 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
134 33 0.23
135 92 0.64
136 19 0.13
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:73451983 original size:15 final size:16
Alignment explanation
Indices: 73451963--73451999 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
73451953 ATAGGTACTA
*
73451963 ATATATATA-ATATAT
1 ATATATATACATACAT
73451978 ATATATATACATACAT
1 ATATATATACATACAT
73451994 A-ATATA
1 ATATATA
73452000 GTTAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:73452237 original size:23 final size:22
Alignment explanation
Indices: 73452211--73452267 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
73452201 TGTATATTCG
*
73452211 TAATATATATAAAAATATGTATA
1 TAATATATATAAAAATAT-TACA
*
73452234 TAATATAATATTAAAATATTACA
1 TAATAT-ATATAAAAATATTACA
*
73452257 TAATATGTATA
1 TAATATATATA
73452268 CACACATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 15 0.52
24 11 0.38
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
TAATATATATAAAAATATTACA
Found at i:73455336 original size:26 final size:26
Alignment explanation
Indices: 73455286--73455442 Score: 234
Period size: 26 Copynumber: 6.2 Consensus size: 26
73455276 TGATACAAAT
73455286 TGATAATAGGTTAGGTAAATG-----
1 TGATAATAGGTTAGGTAAATGTTTCA
*
73455307 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
73455333 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
73455359 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
73455385 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
73455411 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
73455437 TGATAA
1 TGATAA
73455443 GAATTTCATG
Statistics
Matches: 125, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
21 21 0.17
26 104 0.83
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:73460648 original size:22 final size:22
Alignment explanation
Indices: 73460623--73460672 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
73460613 AAAATTATAT
*
73460623 TAATTATATATATATTAAATAA
1 TAATTATATATATATCAAATAA
* * *
73460645 TAATTTTATATTTATCCAATAA
1 TAATTATATATATATCAAATAA
73460667 TAATTA
1 TAATTA
73460673 AATTTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTATATATATATCAAATAA
Found at i:73460840 original size:39 final size:38
Alignment explanation
Indices: 73460749--73460839 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 38
73460739 AAAAATTATA
* * *
73460749 TTTAATACAATACAATATTTATTGTATTTATTTGTATTT
1 TTTAATATAATA-AATATTTATTATATTTATTAGTATTT
*
73460788 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTTT
1 TTTAATATAAT-AAATATTTATTATATTTAT--TAGT-ATTT
73460830 TTTAATATAA
1 TTTAATATAA
73460840 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
39 27 0.61
40 1 0.02
41 3 0.07
42 13 0.30
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (38 bp):
TTTAATATAATAAATATTTATTATATTTATTAGTATTT
Found at i:73461138 original size:19 final size:19
Alignment explanation
Indices: 73461102--73461140 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
73461092 TAAAATGCCT
*
73461102 TTTTCTATATTTTTAATTA
1 TTTTCTATATTTTAAATTA
73461121 TTTTC-ATATTTTAAAATTA
1 TTTTCTATATTTT-AAATTA
73461140 T
1 T
73461141 AATTTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCTATATTTTAAATTA
Found at i:73467545 original size:26 final size:26
Alignment explanation
Indices: 73467516--73467623 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
73467506 TAGTACAAAT
73467516 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
73467542 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73467568 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
73467594 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73467620 TGAT
1 TGAT
73467624 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:73471987 original size:25 final size:26
Alignment explanation
Indices: 73471950--73472001 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
73471940 TCAAACATGC
73471950 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
73471976 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
73472001 A
1 A
73472002 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:73473519 original size:26 final size:26
Alignment explanation
Indices: 73473483--73473566 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
73473473 CATGAAATTC
73473483 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
73473509 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
73473535 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
73473561 TTATCA
1 TTATCA
73473567 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:73474119 original size:61 final size:58
Alignment explanation
Indices: 73473995--73474162 Score: 164
Period size: 61 Copynumber: 2.9 Consensus size: 58
73473985 CTTAATATTA
* * * * * *
73473995 AATTAATATAATACTTATTAAGATAAATATTAGATTAATTTTAATATTAAATCTATTC
1 AATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTTAAAATTAAATATAATC
73474053 AATTAATAGAATACTTATCTACAAGATAAATATTAAATTAAATTTAAAATT-AATATAATC
1 AATTAATAGAATACTTAT-T--AAGATAAATATTAAATTAAATTTAAAATTAAATATAATC
* * * * *
73474113 ACATTAATATTAA-A-TTAATAAAAT-ACTATTAAATTAAATTTAATATTAAA
1 A-ATTAATA-GAATACTTATTAAGATAAATATTAAATTAAATTTAAAATTAAA
73474163 ACTTTAAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
56 21 0.23
57 6 0.06
58 17 0.18
59 2 0.02
60 11 0.12
61 34 0.37
62 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (58 bp):
AATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTTAAAATTAAATATAATC
Found at i:73474143 original size:25 final size:24
Alignment explanation
Indices: 73474089--73474157 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 24
73474079 TAAATATTAA
*
73474089 ATTAAATTTAAAATTAATATAATCAC
1 ATTAAA-TT-AAATTAATAAAATCAC
73474115 ATTAATATTAAATTAATAAAAT-AC
1 ATTAA-ATTAAATTAATAAAATCAC
73474139 TATTAAATTAAATTTAATA
1 -ATTAAATTAAA-TTAATA
73474158 TTAAAACTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 8 0.21
25 23 0.59
26 7 0.18
27 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAAATTAAATTAATAAAATCAC
Found at i:73475269 original size:139 final size:139
Alignment explanation
Indices: 73475019--73475293 Score: 401
Period size: 139 Copynumber: 2.0 Consensus size: 139
73475009 ATGATATCCT
* *
73475019 TGATACATTTGAGTTAAATTCGTTCACTCAATATAGTCCTATTTTATCTCATTGTCACCATTATG
1 TGATACATTTGAGTTAAATTCGTTCACTCAATACAATCCTATTTTATCTCATTGTCACCATTATG
* *
73475084 TCTTCTTAATGATTAATATGCTTACTGTCAACAAATAACTATGATAAATTT-CTCGTTCGAGAAC
66 TCTTCTTAATGATTAATATGATCACTGTCAACAAATAACTATGAT-AATTTGCTCGTTCGAGAAC
73475148 AAGCAACCCG
130 AAGCAACCCG
* * * *
73475158 TGATACATTTGAGTTAAATTCTTTCGCTTAATACAATCCTATTTTA-CTTCATTGTCACCATTGT
1 TGATACATTTGAGTTAAATTCGTTCACTCAATACAATCCTATTTTATC-TCATTGTCACCATTAT
* * * * *
73475222 GTCTTCTTAATTATTAATATGATCATTGTCAACAAATTACTGTGATAATTTGCTCGTTTGAGAAC
65 GTCTTCTTAATGATTAATATGATCACTGTCAACAAATAACTATGATAATTTGCTCGTTCGAGAAC
73475287 AAGCAAC
130 AAGCAAC
73475294 TCGAGGTCAC
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
138 6 0.05
139 115 0.95
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (139 bp):
TGATACATTTGAGTTAAATTCGTTCACTCAATACAATCCTATTTTATCTCATTGTCACCATTATG
TCTTCTTAATGATTAATATGATCACTGTCAACAAATAACTATGATAATTTGCTCGTTCGAGAACA
AGCAACCCG
Found at i:73476278 original size:22 final size:22
Alignment explanation
Indices: 73476236--73476278 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
73476226 TATTTATGTT
*
73476236 TAATTTAAAAAATTATATTTAA
1 TAATTTAAAAAATAATATTTAA
73476258 TAATTTAAGAAAATAAT-TTTA
1 TAATTTAA-AAAATAATATTTA
73476279 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATTTAAAAAATAATATTTAA
Found at i:73477206 original size:17 final size:17
Alignment explanation
Indices: 73477186--73477218 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
73477176 AATTTTTTTT
*
73477186 CTTTTATATTTTTTAAA
1 CTTTTATACTTTTTAAA
73477203 CTTTTATACTTTTTAA
1 CTTTTATACTTTTTAA
73477219 TTCTTTTCTC
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:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTTTATACTTTTTAAA
Found at i:73478357 original size:112 final size:114
Alignment explanation
Indices: 73478232--73478435 Score: 295
Period size: 114 Copynumber: 1.8 Consensus size: 114
73478222 GCGTTTTTTT
* * * * *
73478232 AAAAACGATGCAATAGATCGAGCTTTAGTGGCG-TTTTACCAAAACGCCGC-AAAAGGTTAAGCA
1 AAAAACGACGCAATAGATCAAACTTTAGTGGCGTTTTTACAAAAACGCCACTAAAAGGTTAAGCA
73478295 AAACGACGCCGTTTTACATGAGCTTCATTGGCAGTAACGGCGTTTTCCC
66 AAACGACGCCGTTTTACATGAGCTTCATTGGCAGTAACGGCGTTTTCCC
* * *
73478344 AAAAACGCCGCAATAGATCAAACTTTAGTGGCGTTTTTTCAAAAACGCCACTAAAATGTTAAGCA
1 AAAAACGACGCAATAGATCAAACTTTAGTGGCGTTTTTACAAAAACGCCACTAAAAGGTTAAGCA
* **
73478409 AAACGACGTCGTTTTTTATGAGCTTCA
66 AAACGACGCCGTTTTACATGAGCTTCA
73478436 ATGACATTAG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 29 0.37
113 14 0.18
114 36 0.46
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (114 bp):
AAAAACGACGCAATAGATCAAACTTTAGTGGCGTTTTTACAAAAACGCCACTAAAAGGTTAAGCA
AAACGACGCCGTTTTACATGAGCTTCATTGGCAGTAACGGCGTTTTCCC
Found at i:73478462 original size:114 final size:113
Alignment explanation
Indices: 73478231--73478473 Score: 292
Period size: 114 Copynumber: 2.2 Consensus size: 113
73478221 GGCGTTTTTT
** * * * *
73478231 TAAAAACGATGCAATAGATCGAGCTTTAGTGGCGTTTTACCAAAACGCCGCAAAAGGTTAAGCAA
1 TAAAAACGCCGCAATAGATCAAACTTTAGTGGCGTTTTACAAAAACGCCACAAAAGGTTAAGCAA
* * * *
73478296 AACGACGCCGTTTTACATGAGCTTCATTGGCAGTAACGGCGTTTTCCC
66 AACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGTCTGCCC
* *
73478344 -AAAAACGCCGCAATAGATCAAACTTTAGTGGCGTTTTTTCAAAAACGCCACTAAAATGTTAAGC
1 TAAAAACGCCGCAATAGATCAAACTTTAGTGGCG-TTTTACAAAAACGCCAC-AAAAGGTTAAGC
* ** * *
73478408 AAAACGACGTCGTTTTTTATGAGCTTCAATGACATTAGCGGCG-CTGCCC
64 AAAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGTCTGCCC
*
73478457 TAAAAACTCCGCAATAG
1 TAAAAACGCCGCAATAG
73478474 CTTGCACTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
112 29 0.27
113 18 0.17
114 62 0.57
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (113 bp):
TAAAAACGCCGCAATAGATCAAACTTTAGTGGCGTTTTACAAAAACGCCACAAAAGGTTAAGCAA
AACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGTCTGCCC
Found at i:73478639 original size:155 final size:156
Alignment explanation
Indices: 73478368--73478657 Score: 379
Period size: 155 Copynumber: 1.9 Consensus size: 156
73478358 AGATCAAACT
* * * **
73478368 TTAGTGGCGTTTTTTCAAAAACGCCACTAAAATGTTAAGCAAAACGACGTCGTTTTTTATGAGCT
1 TTAGCGGCGTTTTTACAAAAACGCCACTAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCT
* * * *
73478433 TCAATGACATTAGCGGCGCTGCCCTAAAAACTCCGCAATAGCTTGCACTTTAGCGGCATTTTTGT
66 TCAATGACATTAGCGGCGCTGCACTAAAAACGCCGCAATAGCATGCACTTTAACGGCATTTTTGT
73478498 AAAAAATGCTGCTATAGGTCTCCCCA
131 AAAAAATGCTGCTATAGGTCTCCCCA
* * * *
73478524 TTAGCGGCG-TTTTACAAAAACGCCGCTAATAGGTTAATCAAAACGACGTCGTTTTAAATTAGCT
1 TTAGCGGCGTTTTTACAAAAACGCCACTAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCT
* ** *
73478588 TCAATGGCATTAGCGGCGCTTTACTAAAAACGCCGCAATA-CAT-CAATCTTTAACGGCGTTTTT
66 TCAATGACATTAGCGGCGCTGCACTAAAAACGCCGCAATAGCATGC-A-CTTTAACGGCATTTTT
*
73478651 TTAAAAA
129 GTAAAAA
73478658 CGCCACTAAA
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
153 1 0.01
154 3 0.03
155 102 0.89
156 8 0.07
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (156 bp):
TTAGCGGCGTTTTTACAAAAACGCCACTAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCT
TCAATGACATTAGCGGCGCTGCACTAAAAACGCCGCAATAGCATGCACTTTAACGGCATTTTTGT
AAAAAATGCTGCTATAGGTCTCCCCA
Found at i:73479371 original size:15 final size:14
Alignment explanation
Indices: 73479353--73479395 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
73479343 TTTAATATTT
73479353 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
73479368 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
73479383 TTATGATTTAGGG
1 TTATGGTTTAGGG
73479396 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:73479402 original size:14 final size:14
Alignment explanation
Indices: 73479379--73479434 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
73479369 TATGGGTTTA
73479379 AGGGTT-ATGATTT
1 AGGGTTGATGATTT
73479392 AGGGTTGATGATTT
1 AGGGTTGATGATTT
* * *
73479406 ATGTTTTATGATTT
1 AGGGTTGATGATTT
73479420 AGGGTTTGATG-TTT
1 AGGG-TTGATGATTT
73479434 A
1 A
73479435 TAATTTAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
13 6 0.17
14 24 0.69
15 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
AGGGTTGATGATTT
Found at i:73479406 original size:28 final size:28
Alignment explanation
Indices: 73479374--73479434 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
73479364 GGGGTTATGG
73479374 GTTTAAGGGTTATGATTTAGGG-TTGAT
1 GTTTAAGGGTTATGATTTAGGGTTTGAT
* **
73479401 GATTTATGTTTTATGATTTAGGGTTTGAT
1 G-TTTAAGGGTTATGATTTAGGGTTTGAT
73479430 GTTTA
1 GTTTA
73479435 TAATTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 22 0.76
29 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (28 bp):
GTTTAAGGGTTATGATTTAGGGTTTGAT
Found at i:73479441 original size:28 final size:28
Alignment explanation
Indices: 73479383--73479441 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
73479373 GGTTTAAGGG
**
73479383 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGATGATTTATAAT
73479411 TTATGATTTAGGGTTTGATG-TTTATAAT
1 TTATGATTTAGGG-TTGATGATTTATAAT
73479439 TTA
1 TTA
73479442 GAATGTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATGATTTATAAT
Found at i:73479817 original size:21 final size:21
Alignment explanation
Indices: 73479793--73479832 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73479783 GGTTAATTAA
73479793 GGTTTAGGGTCTAGTGTTTGG
1 GGTTTAGGGTCTAGTGTTTGG
* *
73479814 GGTTTAGGGTTTGGTGTTT
1 GGTTTAGGGTCTAGTGTTT
73479833 ATAGTTTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.03, G:0.42, T:0.47
Consensus pattern (21 bp):
GGTTTAGGGTCTAGTGTTTGG
Found at i:73479823 original size:7 final size:7
Alignment explanation
Indices: 73479793--73479858 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 7
73479783 GGTTAATTAA
73479793 GGTTTAG
1 GGTTTAG
*
73479800 GGTCTAG
1 GGTTTAG
* *
73479807 TGTTTGG
1 GGTTTAG
73479814 GGTTTAG
1 GGTTTAG
73479821 GGTTT-G
1 GGTTTAG
*
73479827 GTGTTTAT
1 G-GTTTAG
*
73479835 AGTTTAG
1 GGTTTAG
*
73479842 GGTTTAT
1 GGTTTAG
*
73479849 GGTATAG
1 GGTTTAG
73479856 GGT
1 GGT
73479859 CAAGGTCTTA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
6 2 0.05
7 42 0.95
ACGTcount: A:0.14, C:0.02, G:0.39, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:73479980 original size:7 final size:7
Alignment explanation
Indices: 73479955--73480028 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
73479945 TTTTTACCGT
73479955 TTTAGGG
1 TTTAGGG
*
73479962 TGTTAGGC
1 T-TTAGGG
73479970 TTTAGGG
1 TTTAGGG
73479977 TTTAGGG
1 TTTAGGG
* *
73479984 TGTAGAG
1 TTTAGGG
*
73479991 TTTATGG
1 TTTAGGG
**
73479998 -TTA-TT
1 TTTAGGG
*
73480003 TTTAGTG
1 TTTAGGG
73480010 TTTATGGG
1 TTTA-GGG
73480018 TTTAGGG
1 TTTAGGG
73480025 TTTA
1 TTTA
73480029 AGAGTATACA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
6 6 0.12
7 34 0.65
8 12 0.23
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:73480027 original size:15 final size:14
Alignment explanation
Indices: 73479955--73480028 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 14
73479945 TTTTTACCGT
*
73479955 TTTAGGGTGTTAGGC
1 TTTAGGGT-TTAGGG
73479970 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
* * *
73479984 TGTAGAGTTTATGG
1 TTTAGGGTTTAGGG
** *
73479998 -TTA-TTTTTAGTG
1 TTTAGGGTTTAGGG
73480010 TTTATGGGTTTAGGG
1 TTTA-GGGTTTAGGG
73480025 TTTA
1 TTTA
73480029 AGAGTATACA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
12 5 0.11
13 5 0.11
14 16 0.36
15 18 0.41
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:73483634 original size:2 final size:2
Alignment explanation
Indices: 73483627--73483659 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
73483617 GTCAAATTGT
73483627 TA TA TA 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 TA TA TA T
73483660 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73484108 original size:23 final size:23
Alignment explanation
Indices: 73484078--73484127 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
73484068 AATATTAATC
73484078 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
*
73484101 AAATGTATGAATTGTAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
73484124 AAAT
1 AAAT
73484128 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:73484688 original size:240 final size:241
Alignment explanation
Indices: 73484250--73484735 Score: 913
Period size: 240 Copynumber: 2.0 Consensus size: 241
73484240 ATGAATTAAT
*
73484250 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
73484315 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
*
73484380 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
73484445 AAAAAGACTTGAAAAAAGTTCTATCGAGT-TCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGA-TCTCATTTACTATTGAATA
73484491 TTTATTACCATGTA-CTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
73484555 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
73484620 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
73484685 AAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGATCTCATTTACTATTGAATA
73484731 TTTAT
1 TTTAT
73484736 ATAACCTTAA
Statistics
Matches: 240, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
239 1 0.00
240 225 0.94
241 14 0.06
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGATCTCATTTACTATTGAATA
Found at i:73484937 original size:9 final size:9
Alignment explanation
Indices: 73484914--73485080 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
73484904 ATTGATCATT
*
73484914 ACTTAAATA
1 ACTTACATA
*
73484923 AATTACATA
1 ACTTACATA
73484932 ACTTACATA
1 ACTTACATA
* *
73484941 ACTCATATA
1 ACTTACATA
73484950 ACTTACATA
1 ACTTACATA
*
73484959 ATTTACATAACA
1 ACTTACAT---A
73484971 ACTTACATA
1 ACTTACATA
*
73484980 ACTCACATA
1 ACTTACATA
73484989 ACTTACATA
1 ACTTACATA
*
73484998 ATTTACATAACA
1 ACTTACAT---A
73485010 ACTTACATA
1 ACTTACATA
*
73485019 ACTCACATA
1 ACTTACATA
73485028 ACTTACATA
1 ACTTACATA
*
73485037 ATTTACATA
1 ACTTACATA
*
73485046 ACTCACATA
1 ACTTACATA
*
73485055 ACATACATAACA
1 ACTTACAT---A
73485067 ACTTACATA
1 ACTTACATA
73485076 ACTTA
1 ACTTA
73485081 ACTAATACAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 104 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:73484983 original size:39 final size:39
Alignment explanation
Indices: 73484931--73485047 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
73484921 TAAATTACAT
*
73484931 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
73484970 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
73485009 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
73485048 TCACATAACA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:73485004 original size:48 final size:47
Alignment explanation
Indices: 73484925--73485080 Score: 179
Period size: 48 Copynumber: 3.3 Consensus size: 47
73484915 CTTAAATAAA
* * *
73484925 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-ATACATAACAAC
* * * *
73484973 TTACATAACTCACATAACTTACATAATTTACATAACA-ACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-ATACATA-ACAAC
* * *
73485021 TCACATAACTTACATAATTTACATAACTCACATAACATACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-ATACATAACAAC
73485069 TTACATAACTTA
1 TTACATAACTTA
73485081 ACTAATACAT
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 82 0.91
49 4 0.04
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAAATACATAACAAC
Found at i:73485066 original size:57 final size:57
Alignment explanation
Indices: 73484914--73485078 Score: 192
Period size: 57 Copynumber: 2.9 Consensus size: 57
73484904 ATTGATCATT
* * * *
73484914 ACTTAAATAAATTACATAACTTACATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
73484971 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
73485028 ACTTACATAATTTACATAACTCACATAACATACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
73485079 TAACTAATAC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 72 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:73485076 original size:39 final size:37
Alignment explanation
Indices: 73484914--73485065 Score: 202
Period size: 39 Copynumber: 4.1 Consensus size: 37
73484904 ATTGATCATT
* * *
73484914 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
73484950 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
73484989 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
73485028 ACTTACATAATTTACAT-AACTCACATAACAT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
73485064 AC
1 AC
73485066 AACTTACATA
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 74 0.69
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:73486378 original size:53 final size:53
Alignment explanation
Indices: 73486297--73486447 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
73486287 CTTACACGGT
* * *
73486297 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTATTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTATTATACGGAATCACAATA
* *
73486352 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACAATA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGGAATCACAATA
** * *
73486405 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGG
73486448 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGGAATCACAATA
Found at i:73493335 original size:21 final size:21
Alignment explanation
Indices: 73493309--73493356 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
73493299 TCAACTTAGA
73493309 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGCGGGAG
*
73493330 GCGGAGGCAGCAGCGTGGGAG
1 GCGGAGGCAGCAGCGCGGGAG
73493351 GCGGAG
1 GCGGAG
73493357 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.58, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGCGGGAG
Found at i:73515750 original size:24 final size:25
Alignment explanation
Indices: 73515706--73515754 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
73515696 GATCAAATCG
*
73515706 AGTTAAATTGAATGAAGAAATTTTA
1 AGTTAAATTGAATGAACAAATTTTA
73515731 AGTT-AATTGAATTG-ACAAATTTTA
1 AGTTAAATTGAA-TGAACAAATTTTA
73515755 TTTTATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (25 bp):
AGTTAAATTGAATGAACAAATTTTA
Found at i:73521891 original size:21 final size:21
Alignment explanation
Indices: 73521865--73521976 Score: 75
Period size: 21 Copynumber: 5.3 Consensus size: 21
73521855 TCGAAAGCTA
*
73521865 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGAGTTG
* * *
73521886 AACAGAAGCTCGTAAGAGTTG
1 AACAGAAACCCATAAGAGTTG
* * *
73521907 AACAAAAACACA-AATGAGTTA
1 AACAGAAACCCATAA-GAGTTG
* * *
73521928 AACA-AAAGCTCATAAAAGCTG
1 AACAGAAA-CCCATAAGAGTTG
* *
73521949 AATAGAAACTCATAAGAGTTG
1 AACAGAAACCCATAAGAGTTG
*
73521970 AAGAGAA
1 AACAGAA
73521977 GCTCGAAAGA
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.07
21 60 0.86
22 5 0.07
ACGTcount: A:0.50, C:0.14, G:0.20, T:0.16
Consensus pattern (21 bp):
AACAGAAACCCATAAGAGTTG
Found at i:73522008 original size:84 final size:84
Alignment explanation
Indices: 73521858--73522022 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 84
73521848 CATAAGCTCG
* * ** *
73521858 AAAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTCGTAAGAGTTGAACAAAAACACAAATG
1 AAAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCGAAAGACCTAAACAAAAACACAAATG
73521923 AGTTAAACAAAAGCTCATA
66 AGTTAAACAAAAGCTCATA
* * * * ** * *
73521942 AAAGCTGAATAGAAACTCATAAGAGTTGAAGAGAAGCTCGAAAGACCTAAACCGAAACTCATATG
1 AAAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCGAAAGACCTAAACAAAAACACAAATG
*
73522007 AGTTAAACAGAAGCTC
66 AGTTAAACAAAAGCTC
73522023 GTGAGAGCTA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (84 bp):
AAAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCGAAAGACCTAAACAAAAACACAAATG
AGTTAAACAAAAGCTCATA
Found at i:73522023 original size:42 final size:42
Alignment explanation
Indices: 73521846--73522034 Score: 152
Period size: 42 Copynumber: 4.5 Consensus size: 42
73521836 GTACATCGTT
* * * *
73521846 AACATAAGCTCG-AA-AGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCGAAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * * *
73521886 AACAGAAGCTCGTAAGAGTTGAACAAAAACACA-AATGAGTTA
1 AACAGAAGCTCGAAAGAGCTAAACAGAAACTCATAA-GAGTTA
* * * * *
73521928 AACAAAAGCTC-ATAAAAGCTGAATAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGA-AAGAGCTAAACAGAAACTCATAAGAGTTA
* * * *
73521970 AAGAGAAGCTCGAAAGACCTAAACCGAAACTCATATGAGTTA
1 AACAGAAGCTCGAAAGAGCTAAACAGAAACTCATAAGAGTTA
**
73522012 AACAGAAGCTCGTGAGAGCTAAA
1 AACAGAAGCTCGAAAGAGCTAAA
73522035 TGGAAAGTAA
Statistics
Matches: 115, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
40 11 0.10
41 4 0.03
42 97 0.84
43 3 0.03
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCGAAAGAGCTAAACAGAAACTCATAAGAGTTA
Found at i:73522229 original size:2 final size:2
Alignment explanation
Indices: 73522222--73522255 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
73522212 ACAACAGAAC
73522222 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
73522256 TACCAATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73522266 original size:7 final size:7
Alignment explanation
Indices: 73522254--73522299 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
73522244 ATATATATAT
73522254 ATTACCA
1 ATTACCA
73522261 ATTACCA
1 ATTACCA
73522268 ATTACCA
1 ATTACCA
73522275 ATTACCA
1 ATTACCA
73522282 ATTACCA
1 ATTACCA
*
73522289 ATCACCA
1 ATTACCA
73522296 ATTA
1 ATTA
73522300 ACATTCACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
ATTACCA
Found at i:73522307 original size:14 final size:14
Alignment explanation
Indices: 73522254--73522307 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
73522244 ATATATATAT
73522254 ATTACCAATT-ACCA
1 ATTACC-ATTCACCA
73522268 ATTACCAATT-ACCA
1 ATTACC-ATTCACCA
*
73522282 ATTACCAATCACCA
1 ATTACCATTCACCA
*
73522296 ATTAACATTCAC
1 ATTACCATTCAC
73522308 TTTAATCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 2 0.06
14 34 0.94
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (14 bp):
ATTACCATTCACCA
Found at i:73524380 original size:2 final size:2
Alignment explanation
Indices: 73524375--73524408 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
73524365 GCATTTTTTA
73524375 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
73524409 GGAAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73532701 original size:17 final size:17
Alignment explanation
Indices: 73532658--73532702 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
73532648 CGCACATCAA
* *
73532658 TCACAACTTGGTTAAGC
1 TCACAACTTTGCTAAGC
* *
73532675 TCGCATCTTTGCTAAGC
1 TCACAACTTTGCTAAGC
73532692 TCACAACTTTG
1 TCACAACTTTG
73532703 GATGAGTTCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (17 bp):
TCACAACTTTGCTAAGC
Found at i:73532749 original size:18 final size:18
Alignment explanation
Indices: 73532699--73532750 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
73532689 AGCTCACAAC
*
73532699 TTTGGATGAGTTCGCAGA
1 TTTGGATGAGTTCGTAGA
73532717 TTTGGATGAGTTCGTAGA
1 TTTGGATGAGTTCGTAGA
73532735 TTTGGATGAGTTCGTA
1 TTTGGATGAGTTCGTA
73532751 ACTGTGTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.21, C:0.08, G:0.33, T:0.38
Consensus pattern (18 bp):
TTTGGATGAGTTCGTAGA
Found at i:73534467 original size:25 final size:25
Alignment explanation
Indices: 73534438--73534485 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
73534428 GTAAGAGAAG
73534438 AAAATTTTGAAAAGAAAGAAAAAGT
1 AAAATTTTGAAAAGAAAGAAAAAGT
73534463 AAAATTTTGAAAAGAAAGAAAAA
1 AAAATTTTGAAAAGAAAGAAAAA
73534486 AAAAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (25 bp):
AAAATTTTGAAAAGAAAGAAAAAGT
Found at i:73536092 original size:58 final size:57
Alignment explanation
Indices: 73535976--73536111 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 57
73535966 TTCATTTATG
* * * * *
73535976 ATAACATAGTTTTATCTTT-AAAA--GACCGACCGATCAATTTACTTTACAAATATG
1 ATAATATAATTTTATCTTTAAAAATTGACCGACCAATCAATTTAATTTACAAATATA
* * * *
73536030 ATAATATCATTTTGTCTTTTAAAAATTGACCGATCAATCAATTTAATTTTCAAATATA
1 ATAATATAATTTTATC-TTTAAAAATTGACCGACCAATCAATTTAATTTACAAATATA
73536088 ATAATATAATTTTATCTTTAAAAA
1 ATAATATAATTTTATCTTTAAAAA
73536112 CAGATAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 12 0.18
55 3 0.04
56 4 0.06
57 8 0.12
58 40 0.60
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.40
Consensus pattern (57 bp):
ATAATATAATTTTATCTTTAAAAATTGACCGACCAATCAATTTAATTTACAAATATA
Found at i:73545089 original size:13 final size:14
Alignment explanation
Indices: 73545073--73545108 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
73545063 CAATCTCATA
73545073 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
73545086 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
73545099 TCTC-ATTTCA
1 TCTCAATTTCA
73545109 TTCCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:73545098 original size:18 final size:19
Alignment explanation
Indices: 73545060--73545100 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
73545050 TGGTTCATGT
73545060 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
73545079 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
73545097 TTTC
1 TTTC
73545101 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:73545235 original size:23 final size:23
Alignment explanation
Indices: 73545205--73545262 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
73545195 GTGGATTCCT
* *
73545205 CCCAAACACACTAGAATATCCAA
1 CCCAAACACACCAAAATATCCAA
73545228 CCCAAACACACCAAAATATCCAA
1 CCCAAACACACCAAAATATCCAA
73545251 CCCAAACACACC
1 CCCAAACACACC
73545263 CGGAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.48, C:0.41, G:0.02, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAAAATATCCAA
Found at i:73545784 original size:15 final size:15
Alignment explanation
Indices: 73545764--73545810 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
73545754 TAATATATAT
*
73545764 TTCAATCAACATAAA
1 TTCAATCAAAATAAA
* *
73545779 TTCAATCAAAATGAT
1 TTCAATCAAAATAAA
*
73545794 TTCAATCAATATAAA
1 TTCAATCAAAATAAA
73545809 TT
1 TT
73545811 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (15 bp):
TTCAATCAAAATAAA
Found at i:73547110 original size:13 final size:13
Alignment explanation
Indices: 73547092--73547123 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
73547082 TTATATTTCA
73547092 TTTATTTCTTTAT
1 TTTATTTCTTTAT
73547105 TTTATTTCTTTAT
1 TTTATTTCTTTAT
73547118 TTTATT
1 TTTATT
73547124 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:73550268 original size:62 final size:62
Alignment explanation
Indices: 73550140--73550256 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 62
73550130 TTATATTTTG
* * ** * * *
73550140 TGCACTATGTGTCAGTATGATATGATAGTGCTAAGTGCAGATTACTTCTGTCTTTTCAATGA
1 TGCACTATGTGCCAATATGATATGATAGCACTAAGCGCAGATTACTTCAGACTTTTCAATGA
*
73550202 TGCACTATGTGCCAATATGATTTGATAGCACTAAGCGCAGATTACTTCAGACTTT
1 TGCACTATGTGCCAATATGATATGATAGCACTAAGCGCAGATTACTTCAGACTTT
73550257 CTGATGATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (62 bp):
TGCACTATGTGCCAATATGATATGATAGCACTAAGCGCAGATTACTTCAGACTTTTCAATGA
Found at i:73554482 original size:30 final size:30
Alignment explanation
Indices: 73554448--73554521 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
73554438 GTTAGCCGTC
* *
73554448 AATTCTATACGTGGAAATGGTCAAAATAAG
1 AATTCTATACATGGAAATAGTCAAAATAAG
* *
73554478 AATTCTATATATGGAAATAGTCACAATAAG
1 AATTCTATACATGGAAATAGTCAAAATAAG
* *
73554508 AATTTTATATATGG
1 AATTCTATACATGG
73554522 GAACTCGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (30 bp):
AATTCTATACATGGAAATAGTCAAAATAAG
Found at i:73559953 original size:11 final size:12
Alignment explanation
Indices: 73559924--73559953 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
73559914 TCAATGTCCC
73559924 AAAAAAACTACA
1 AAAAAAACTACA
73559936 AAAAAAACTA-A
1 AAAAAAACTACA
73559947 AAAAAAA
1 AAAAAAA
73559954 TATTTACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAACTACA
Found at i:73562624 original size:26 final size:27
Alignment explanation
Indices: 73562595--73562661 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
73562585 CCGTTATATA
73562595 GCTCTTCGTGAGCTTT-CTGATTAAAG
1 GCTCTTCGTGAGCTTTCCTGATTAAAG
* *
73562621 GCTCTTTGTGAG-TTTCCTGATTAATG
1 GCTCTTCGTGAGCTTTCCTGATTAAAG
73562647 GCTCTTCG-GAGCTTT
1 GCTCTTCGTGAGCTTT
73562662 TCGATATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 6 0.17
26 30 0.83
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (27 bp):
GCTCTTCGTGAGCTTTCCTGATTAAAG
Found at i:73562772 original size:24 final size:23
Alignment explanation
Indices: 73562730--73562777 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
73562720 TATCAGTTAT
73562730 TGGCTCTTATGAGCTTCCCGATTA
1 TGGCTCTTATGAGCTTCCC-ATTA
73562754 TGGCTCTTATGAGCTTCCCATTA
1 TGGCTCTTATGAGCTTCCCATTA
73562777 T
1 T
73562778 ATAGTCTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.40
Consensus pattern (23 bp):
TGGCTCTTATGAGCTTCCCATTA
Found at i:73572739 original size:39 final size:39
Alignment explanation
Indices: 73572600--73572795 Score: 218
Period size: 39 Copynumber: 5.0 Consensus size: 39
73572590 TTCAGTGATG
*
73572600 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
73572639 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
73572678 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * * *
73572717 TATGTCCGGGC-TAAAGTCCCGCAGGCTTTGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGGAAT
** **
73572756 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
73572795 T
1 T
73572796 GGTTTCAAGT
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 17 0.12
39 121 0.88
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:73579282 original size:39 final size:39
Alignment explanation
Indices: 73579228--73579343 Score: 214
Period size: 39 Copynumber: 3.0 Consensus size: 39
73579218 TTCAGTGATG
73579228 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
73579267 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
73579306 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
73579344 ATATGTCCAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:73579380 original size:78 final size:78
Alignment explanation
Indices: 73579228--73579391 Score: 192
Period size: 78 Copynumber: 2.1 Consensus size: 78
73579218 TTCAGTGATG
* * * **
73579228 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
73579293 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
73579306 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCAGG-C-TAAAGTCTCGCGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGTC-CGCAG
*
73579369 GCT-TCGAGCTGGTAT
64 GCTAT-GAGCTGGAAT
73579384 TATA-CCGG
1 TATATCCGG
73579392 GTTTAAATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 10 0.14
78 62 0.84
79 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:73583052 original size:18 final size:19
Alignment explanation
Indices: 73583006--73583054 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
73582996 AGAAGAAAGA
73583006 AAAAGAAAAATTTAACCTG
1 AAAAGAAAAATTTAACCTG
73583025 AAAAGAAAAATTTAACCTG
1 AAAAGAAAAATTTAACCTG
*
73583044 AAAACAAAAAT
1 AAAAGAAAAAT
73583055 GAAAATGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAAGAAAAATTTAACCTG
Found at i:73584638 original size:27 final size:26
Alignment explanation
Indices: 73584608--73584688 Score: 63
Period size: 29 Copynumber: 2.9 Consensus size: 26
73584598 AGACCGGCCG
73584608 ATCAATTTACTTTACAAATATGATAA
1 ATCAATTTACTTTACAAATATGATAA
* * * *
73584634 TATCATTTTGTCTTTTAAAAATCGAATGATCA
1 -ATCAATTT-AC-TTTACAAAT---ATGATAA
*
73584666 ATCAATTTACTTTTCAAATATGA
1 ATCAATTTACTTTACAAATATGA
73584689 CTATAATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 11
0.68 0.13 0.18
Matches are distributed among these distances:
26 4 0.10
27 7 0.17
28 1 0.02
29 15 0.37
30 1 0.02
31 7 0.17
32 6 0.15
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (26 bp):
ATCAATTTACTTTACAAATATGATAA
Found at i:73594116 original size:22 final size:23
Alignment explanation
Indices: 73594045--73594116 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 23
73594035 TAAAAAAATC
73594045 ATATATAATGTATAATAAATTTG-AA
1 ATATATAA--TAT-ATAAATTTGAAA
**
73594070 ATATATTTTATATAAAATTCT-AAA
1 ATATATAATATAT-AAATT-TGAAA
73594094 ATATATAAT-TATAAATTTGAAA
1 ATATATAATATATAAATTTGAAA
73594116 A
1 A
73594117 AGTCAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
21 1 0.03
22 11 0.28
23 11 0.28
24 10 0.26
25 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (23 bp):
ATATATAATATATAAATTTGAAA
Found at i:73594243 original size:15 final size:15
Alignment explanation
Indices: 73594223--73594253 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
73594213 CTTTTTTAGA
73594223 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
73594238 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
73594253 A
1 A
73594254 AAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:73594394 original size:32 final size:33
Alignment explanation
Indices: 73594358--73594428 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 33
73594348 TCAACTAATT
* *
73594358 TTTTTCAATAA-TTGTA-TTTTTTGTAAATTTTA
1 TTTTTC-ATAATTTATATTTTTTTCTAAATTTTA
*
73594390 TTTTT-ATAATTTATATTTTTTTCTAGATTTTA
1 TTTTTCATAATTTATATTTTTTTCTAAATTTTA
73594422 TATTTTC
1 T-TTTTC
73594429 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
30 4 0.12
31 4 0.12
32 20 0.62
33 4 0.12
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (33 bp):
TTTTTCATAATTTATATTTTTTTCTAAATTTTA
Found at i:73594410 original size:17 final size:19
Alignment explanation
Indices: 73594390--73594427 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
73594380 GTAAATTTTA
73594390 TTTTTATA-A-TTTATATT
1 TTTTTATAGATTTTATATT
*
73594407 TTTTTCTAGATTTTATATT
1 TTTTTATAGATTTTATATT
73594426 TT
1 TT
73594428 CTGATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTTATAGATTTTATATT
Found at i:73607371 original size:55 final size:55
Alignment explanation
Indices: 73607287--73607398 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
73607277 GGATTGTAGG
*
73607287 TAAAAATACATAGTTCTTCAGCATTTTCATCAAGAAATGCTATACAATGAATAAA
1 TAAAAATACATAGTTCTGCAGCATTTTCATCAAGAAATGCTATACAATGAATAAA
* * *
73607342 TAAAAATACATGGTTCTGCAGTATTTTCATCAAGGAATGCTATACAATGAATAAA
1 TAAAAATACATAGTTCTGCAGCATTTTCATCAAGAAATGCTATACAATGAATAAA
73607397 TA
1 TA
73607399 TCAGTCATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (55 bp):
TAAAAATACATAGTTCTGCAGCATTTTCATCAAGAAATGCTATACAATGAATAAA
Found at i:73609597 original size:20 final size:20
Alignment explanation
Indices: 73609564--73609608 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
73609554 TGCAAGCAGT
*
73609564 AAAATTTCCCCCAAAAATCCA
1 AAAATTTCCACC-AAAATCCA
*
73609585 AAAATTT-CACCAAAATTCA
1 AAAATTTCCACCAAAATCCA
73609604 AAAAT
1 AAAAT
73609609 ATAAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 3 0.14
21 7 0.32
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATTTCCACCAAAATCCA
Found at i:73609959 original size:30 final size:31
Alignment explanation
Indices: 73609918--73609983 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
73609908 AAATCATCAT
*
73609918 TAAACTATTTAAAA-TTTTCATTTAAATTAC
1 TAAACTATTTAAAATTTTTCATTTAAATAAC
* *
73609948 TAAATTATTTAAAATTTTTTATTTAAATAAC
1 TAAACTATTTAAAATTTTTCATTTAAATAAC
73609979 TAAAC
1 TAAAC
73609984 AATTATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (31 bp):
TAAACTATTTAAAATTTTTCATTTAAATAAC
Found at i:73617118 original size:2 final size:2
Alignment explanation
Indices: 73617111--73617142 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
73617101 CCTTCTCACA
73617111 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
73617143 TTTGGGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73632284 original size:21 final size:22
Alignment explanation
Indices: 73632237--73632285 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
73632227 GTATAATTTT
* * *
73632237 AACTTTAGTATTTTAACTTTTC
1 AACTTTAGTAATTTAACCTCTC
*
73632259 CACTTT-GTAATTTAACCTCTC
1 AACTTTAGTAATTTAACCTCTC
73632280 AACTTT
1 AACTTT
73632286 TGAATATCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (22 bp):
AACTTTAGTAATTTAACCTCTC
Found at i:73632991 original size:3 final size:3
Alignment explanation
Indices: 73632983--73633014 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
73632973 TTTTTATATG
73632983 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
73633015 ATTATAAAAA
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:73638136 original size:51 final size:51
Alignment explanation
Indices: 73638076--73638175 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
73638066 GCCTGTACGA
73638076 TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGTAAGTATAT
1 TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGTAAGTATAT
*
73638127 TGGCTTGATTAAGAACATCCGTTAAATGTTTGATTCAATGGGTAAGTAT
1 TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGTAAGTAT
73638176 TTGAGTTGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (51 bp):
TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGTAAGTATAT
Found at i:73647337 original size:55 final size:55
Alignment explanation
Indices: 73647268--73647378 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
73647258 TCTAAATGAA
73647268 TGTGGCCTCAAGTAAGAATTTTTGTCCCAAGCCTAGCCCAATTTTGCTTAAATTT
1 TGTGGCCTCAAGTAAGAATTTTTGTCCCAAGCCTAGCCCAATTTTGCTTAAATTT
*
73647323 TGTGGCCTCAAGTAAGAATTTTTGTCCCAAGCCTAGCCCAATTTTGCTTAATTTT
1 TGTGGCCTCAAGTAAGAATTTTTGTCCCAAGCCTAGCCCAATTTTGCTTAAATTT
73647378 T
1 T
73647379 TTTCACAGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (55 bp):
TGTGGCCTCAAGTAAGAATTTTTGTCCCAAGCCTAGCCCAATTTTGCTTAAATTT
Found at i:73647438 original size:22 final size:22
Alignment explanation
Indices: 73647398--73647448 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
73647388 TATGTGTTGT
* * *
73647398 CATTTTGATATTGTTTTACTGC
1 CATTTTGATATTATATTACTAC
*
73647420 CATTTTGCTATTATATTACTAC
1 CATTTTGATATTATATTACTAC
*
73647442 TATTTTG
1 CATTTTG
73647449 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (22 bp):
CATTTTGATATTATATTACTAC
Found at i:73650938 original size:21 final size:21
Alignment explanation
Indices: 73650913--73650977 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
73650903 TAGCCTTCGG
73650913 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
73650934 GCTTCTG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
73650952 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
73650973 GCTTC
1 GCTTC
73650978 AGTTAGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.42
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:73650995 original size:39 final size:39
Alignment explanation
Indices: 73650895--73650983 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
73650885 GCTCTGGTGA
73650895 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
73650934 GCTTCTGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
73650973 GCTTCAGTTAG
1 GCTTCAGTTAG
73650984 ATTTCTGGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:73652969 original size:3 final size:3
Alignment explanation
Indices: 73652961--73653195 Score: 121
Period size: 3 Copynumber: 78.7 Consensus size: 3
73652951 CAATTTAACC
* * *
73652961 TAT TAT TAT TAAT TAT TAT T-T TAC TAT TAT TAT CTAA TA- TGT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *** * * *
73653006 CAT TAT CGC TAT TAT TAC T-T TAT TAT TGT AACT TAAT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T-AT -TAT TAT TAT
73653053 TAT TACT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * *
73653098 TAT TAC GGT TAG CAT TAT T-T TCAT TAC TAT TA- TAT T-T TAT TGAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT T-AT
* * * * *
73653142 TA- TAT TAC TA- TATT TGT TA- TAT TAT CAT TAT TAT TCT TAC TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
73653185 TGT TAT TAT TA
1 TAT TAT TAT TA
73653196 CTACTGTCGA
Statistics
Matches: 171, Mismatches: 42, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
2 18 0.11
3 134 0.78
4 17 0.10
5 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:73654396 original size:26 final size:26
Alignment explanation
Indices: 73654374--73654434 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
73654364 AAAAAATGTG
* *
73654374 ATATTTAATAATAAATTTAAAATATA
1 ATATATAATAAAAAATTTAAAATATA
* *
73654400 ATATATAATAAAAAATATATAATAATA
1 ATATATAATAAAAAATTTAAAAT-ATA
73654427 ATATATAA
1 ATATATAA
73654435 AAATATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATATAATAAAAAATTTAAAATATA
Found at i:73654405 original size:7 final size:7
Alignment explanation
Indices: 73654374--73654448 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
73654364 AAAAAATGTG
*
73654374 ATATTTA
1 ATATATA
73654381 ATA-ATA
1 ATATATA
*
73654387 A-ATTTA
1 ATATATA
*
73654393 AAATATA
1 ATATATA
73654400 ATATATA
1 ATATATA
* *
73654407 ATAAAAA
1 ATATATA
73654414 ATATATA
1 ATATATA
73654421 ATA-ATA
1 ATATATA
73654427 ATATATAA
1 ATATAT-A
*
73654435 AAATATA
1 ATATATA
*
73654442 AAATATA
1 ATATATA
73654449 TTGGTTTAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
5 1 0.02
6 12 0.22
7 36 0.65
8 6 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
ATATATA
Done.