Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 119 of 290
Found at i:37102241 original size:21 final size:21
Alignment explanation
Indices: 37102208--37102259 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37102198 GTGGGGGTCT
* *
37102208 ACACGTCCATGTGAA-GCCCAC
1 ACACGCCCGTGTGAAGGCCC-C
37102229 ACACGCCCGTGTGAAGGCCCC
1 ACACGCCCGTGTGAAGGCCCC
*
37102250 ACATGCCCGT
1 ACACGCCCGT
37102260 ATAGAGGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGAAGGCCCC
Found at i:37105486 original size:38 final size:38
Alignment explanation
Indices: 37105439--37105521 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
37105429 TCACTTTGAG
*
37105439 TTAATAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
1 TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
37105477 TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
1 TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
37105515 TTAACAA
1 TTAACAA
37105522 TCTTTTAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (38 bp):
TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
Found at i:37107214 original size:25 final size:25
Alignment explanation
Indices: 37107186--37107253 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
37107176 TAGCATCGAA
*
37107186 CCAAGCTAGTGTTGGCAACCTTGAT
1 CCAAGCTAGTGTTAGCAACCTTGAT
37107211 CCAAGCTAGTGTTAGCAACCTTGAT
1 CCAAGCTAGTGTTAGCAACCTTGAT
* *
37107236 CCAAAGCAAGTGTCAGCA
1 CC-AAGCTAGTGTTAGCA
37107254 GCCTGATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 26 0.67
26 13 0.33
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (25 bp):
CCAAGCTAGTGTTAGCAACCTTGAT
Found at i:37112320 original size:14 final size:14
Alignment explanation
Indices: 37112303--37112338 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
37112293 GTAGTTTTAA
37112303 AAAAATATAAAAAT
1 AAAAATATAAAAAT
*
37112317 AAAAACATAAAAAT
1 AAAAATATAAAAAT
37112331 AATAAATA
1 AA-AAATA
37112339 AAAGTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATATAAAAAT
Found at i:37118117 original size:14 final size:15
Alignment explanation
Indices: 37118093--37118128 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
37118083 ACTTAAATTA
37118093 ATATCAATTAAGAAC
1 ATATCAATTAAGAAC
37118108 ATAT-AATTAAGAAC
1 ATATCAATTAAGAAC
*
37118122 AAATCAA
1 ATATCAA
37118129 ATATTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (15 bp):
ATATCAATTAAGAAC
Found at i:37121584 original size:56 final size:56
Alignment explanation
Indices: 37121498--37121616 Score: 229
Period size: 56 Copynumber: 2.1 Consensus size: 56
37121488 TAATCATTTA
37121498 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
1 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
37121554 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
1 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
37121610 TAGTACA
1 TA-TACA
37121617 TGCCACTTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 58 0.94
57 4 0.06
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.34
Consensus pattern (56 bp):
TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
Found at i:37122120 original size:29 final size:27
Alignment explanation
Indices: 37122087--37122149 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
37122077 AAATCTCCAT
37122087 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
37122114 AACACACCAGTATATCATATCCTCTCA
1 AACACACCAGTATATCATAGCCTCCCA
37122141 AACACACCA
1 AACACACCA
37122150 ATAAGGCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.41, C:0.35, G:0.05, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:37123224 original size:15 final size:14
Alignment explanation
Indices: 37123198--37123251 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
37123188 TTATATTTTA
37123198 ATTATCATAAATTCAT
1 ATTAT-ATAAATT-AT
37123214 ATTATATAAATTAT
1 ATTATATAAATTAT
*
37123228 ATTTATATATCATTA-
1 A-TTATATA-AATTAT
37123243 ATTATATAA
1 ATTATATAA
37123252 TCTAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATAAATTAT
Found at i:37123389 original size:17 final size:18
Alignment explanation
Indices: 37123356--37123389 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37123346 TTGTTTTATT
*
37123356 ATTCAACTTTTATCCTTA
1 ATTCAACTTTAATCCTTA
37123374 ATTCAA-TTTAATCCTT
1 ATTCAACTTTAATCCTT
37123390 TTTCTATTTT
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:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTCAACTTTAATCCTTA
Found at i:37129347 original size:23 final size:23
Alignment explanation
Indices: 37129317--37129363 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
37129307 ATACGCGGAT
37129317 TCCACCCAAACACA-CCAGAATA
1 TCCACCCAAACACAGCCAGAATA
*
37129339 TCCAGCCCAAACACAGCCGGAATA
1 TCCA-CCCAAACACAGCCAGAATA
37129363 T
1 T
37129364 TATAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.40, C:0.38, G:0.11, T:0.11
Consensus pattern (23 bp):
TCCACCCAAACACAGCCAGAATA
Found at i:37129408 original size:27 final size:27
Alignment explanation
Indices: 37129378--37129440 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
37129368 AATCCTCCAT
37129378 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* * *
37129405 AACACACCAGTATATCATATCGTCTCA
1 AACACACCAGTATATCATAGCCTCCCA
37129432 AACACACCA
1 AACACACCA
37129441 ATCAGGCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.41, C:0.33, G:0.06, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:37129424 original size:29 final size:25
Alignment explanation
Indices: 37129364--37129440 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 25
37129354 GCCGGAATAT
37129364 TATAA-ATCCT-CCATAACACACCAG
1 TATAATATCCTCCCA-AACACACCAG
37129388 TATAATATAGCCTCCCAAACACACCAG
1 TATAATAT--CCTCCCAAACACACCAG
* *
37129415 TATATCATATCGTCTCAAACACACCA
1 TATA--ATATCCTCCCAAACACACCA
37129441 ATCAGGCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 5 0.11
25 2 0.04
27 31 0.69
28 3 0.07
29 4 0.09
ACGTcount: A:0.40, C:0.32, G:0.05, T:0.22
Consensus pattern (25 bp):
TATAATATCCTCCCAAACACACCAG
Found at i:37130015 original size:15 final size:14
Alignment explanation
Indices: 37129995--37130040 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
37129985 TATTTTTCTT
37129995 TTTATTT-CGTTTTA
1 TTTATTTAC-TTTTA
37130009 TTCTATTTACTTTTA
1 TT-TATTTACTTTTA
37130024 TTTATTTTA-TTTTA
1 TTTA-TTTACTTTTA
37130038 TTT
1 TTT
37130041 GTTTTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 12 0.41
15 16 0.55
16 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTATTTACTTTTA
Found at i:37130017 original size:19 final size:18
Alignment explanation
Indices: 37129990--37130047 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
37129980 TTGTTTATTT
*
37129990 TTCTTTTTATTTCGTTTTA
1 TTCTATTTATTT-GTTTTA
37130009 TTCTATTTACTTT-TATTTA
1 TTCTATTTA-TTTGT-TTTA
*
37130028 TTTTATTTTATTTGTTTTA
1 TTCTA-TTTATTTGTTTTA
37130047 T
1 T
37130048 ATTAATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 1 0.03
19 24 0.73
20 8 0.24
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (18 bp):
TTCTATTTATTTGTTTTA
Found at i:37130527 original size:15 final size:14
Alignment explanation
Indices: 37130501--37130554 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
37130491 TTATATTTTA
37130501 ATTATCATAAATTCAT
1 ATTAT-ATAAATT-AT
37130517 ATTATATAAATTAT
1 ATTATATAAATTAT
*
37130531 ATTTATATATCATTA-
1 A-TTATATA-AATTAT
37130546 ATTATATAA
1 ATTATATAA
37130555 TTTAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATAAATTAT
Found at i:37141508 original size:13 final size:13
Alignment explanation
Indices: 37141490--37141517 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37141480 ATGAGCATTC
37141490 AATTAGCAGATAA
1 AATTAGCAGATAA
37141503 AATTAGCAGATAA
1 AATTAGCAGATAA
37141516 AA
1 AA
37141518 CAATCAGATT
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:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (13 bp):
AATTAGCAGATAA
Found at i:37144594 original size:22 final size:21
Alignment explanation
Indices: 37144525--37144599 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
37144515 TATTTATTTA
* *
37144525 TTTTTATTTTCACTTTTATCTT
1 TTTTTATTTTC-CTTTAATATT
* *
37144547 TATTTATCTT-CTTTAAGTACTT
1 TTTTTATTTTCCTTTAA-TA-TT
37144569 TTTTTATTTTCCTTTAATATT
1 TTTTTATTTTCCTTTAATATT
*
37144590 ATTTTATTTT
1 TTTTTATTTT
37144600 TAGGTTTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 5 0.12
21 12 0.28
22 20 0.47
23 6 0.14
ACGTcount: A:0.19, C:0.11, G:0.01, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTCCTTTAATATT
Found at i:37150429 original size:7 final size:7
Alignment explanation
Indices: 37150417--37150484 Score: 59
Period size: 7 Copynumber: 9.4 Consensus size: 7
37150407 TTCCCCCATC
37150417 TTCTTTT
1 TTCTTTT
37150424 TTCTTTT
1 TTCTTTT
37150431 TTCCTTTT
1 TT-CTTTT
*
37150439 TCCTTTT
1 TTCTTTT
*
37150446 TCCTTCTT
1 TTCTT-TT
37150454 TTC--TT
1 TTCTTTT
37150459 TTCTTTT
1 TTCTTTT
*
37150466 TATGTTTT
1 T-TCTTTT
37150474 TTCTTTCT
1 TTCTTT-T
37150482 TTC
1 TTC
37150485 GATTTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.10
7 26 0.51
8 20 0.39
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (7 bp):
TTCTTTT
Found at i:37153090 original size:27 final size:27
Alignment explanation
Indices: 37153060--37153177 Score: 137
Period size: 27 Copynumber: 4.4 Consensus size: 27
37153050 CCCTCAGTTT
* *
37153060 GTAAAATGACCGTAATACTCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAAG
** * *
37153087 GTAAAATGAATGTAATGCCCTTATAAG
1 GTAAAATGACCGTAATACCCCTATAAG
* * *
37153114 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAAG
* *
37153141 GTAAAATGATCGTAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTATAAG
37153168 GTAAAATGAC
1 GTAAAATGAC
37153178 GATATGCCCT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAAG
Found at i:37153118 original size:54 final size:54
Alignment explanation
Indices: 37153060--37153177 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
37153050 CCCTCAGTTT
* * *
37153060 GTAAAATGACCGTAATACTCCTATAGGGTAAAATGAAT-GTAATGCCCTTATAAG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATG-ATCGTAATACCCCTATAAG
* * *
37153114 GTAAAATGACTGTAATACCCCTGTAGGGTAAAATGATCGTAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAAG
37153168 GTAAAATGAC
1 GTAAAATGAC
37153178 GATATGCCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (54 bp):
GTAAAATGACCGTAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAAG
Found at i:37153375 original size:26 final size:27
Alignment explanation
Indices: 37153317--37153368 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
37153307 AGAAGTATTG
37153317 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGA
*
37153344 TACTGGTGGCT-TGCCACATTTACTG
1 TACTGGTGGCTATGCCACAATTACTG
37153369 TTTCTGGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGA
Found at i:37153595 original size:33 final size:33
Alignment explanation
Indices: 37153558--37153653 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
37153548 GCCCGTACTA
* * *
37153558 TTACTGTATAGGGCTAAAGCCTAGACTGTTGTG
1 TTACTGTATAGGGCTAAGGCCCAGACTGTTCTG
* *
37153591 TTACTGTATAAGGCTAAGGCCCAGACTGTACTG
1 TTACTGTATAGGGCTAAGGCCCAGACTGTTCTG
* * *
37153624 ATACTGGATAGGGCTCAGGCCCAGACTGTT
1 TTACTGTATAGGGCTAAGGCCCAGACTGTT
37153654 ACTGCATGCA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (33 bp):
TTACTGTATAGGGCTAAGGCCCAGACTGTTCTG
Found at i:37154731 original size:63 final size:63
Alignment explanation
Indices: 37154648--37154781 Score: 214
Period size: 63 Copynumber: 2.1 Consensus size: 63
37154638 GATCACATAG
*
37154648 GCCAGAGACACGGGCATGTGCCCAAGCTGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
1 GCCAGAGACACAGGCATGTGCCCAAGCTGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
* * * *
37154711 GCCAGAGACACAGGCGTGTGCCCAGGTTGTGTGACTCACTTTTTTAATTTAGAAACCATGCGA
1 GCCAGAGACACAGGCATGTGCCCAAGCTGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
*
37154774 GCTAGAGA
1 GCCAGAGA
37154782 TATGGGCATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (63 bp):
GCCAGAGACACAGGCATGTGCCCAAGCTGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
Found at i:37154811 original size:63 final size:63
Alignment explanation
Indices: 37154648--37154813 Score: 190
Period size: 63 Copynumber: 2.6 Consensus size: 63
37154638 GATCACATAG
* * *
37154648 GCCAGAGACACGGGCATGTGCCCAAG-CTGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
1 GCCAGAGACACAGGCATATGCCCAGGTC-GTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
* * * *
37154711 GCCAGAGACACAGGCGTGTGCCCAGGTTGTGTGACTCACTTTTTTAATTTAGAAACCATGCGA
1 GCCAGAGACACAGGCATATGCCCAGGTCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
* * ** * * *
37154774 GCTAGAGATATGGGCATATGTCTAGGTCGTGTAACTCACT
1 GCCAGAGACACAGGCATATGCCCAGGTCGTGTGACTCACT
37154814 GTCTGTGACT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 87 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (63 bp):
GCCAGAGACACAGGCATATGCCCAGGTCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
Found at i:37156856 original size:12 final size:12
Alignment explanation
Indices: 37156834--37156865 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
37156824 TTTATTCACC
37156834 TGATGATTACTAT
1 TGAT-ATTACTAT
37156847 TGATATTACTAT
1 TGATATTACTAT
37156859 TGATATT
1 TGATATT
37156866 TTAATTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (12 bp):
TGATATTACTAT
Found at i:37159213 original size:23 final size:23
Alignment explanation
Indices: 37159187--37159238 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
37159177 AGACTCACCA
**
37159187 CAGCTCGTTTGAACTTATTGATT
1 CAGCTCGTAAGAACTTATTGATT
* *
37159210 CAGCTCGTAAGAGCTTATTGTTT
1 CAGCTCGTAAGAACTTATTGATT
37159233 CAGCTC
1 CAGCTC
37159239 ATTGGAGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (23 bp):
CAGCTCGTAAGAACTTATTGATT
Found at i:37159246 original size:23 final size:23
Alignment explanation
Indices: 37159200--37159294 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 23
37159190 CTCGTTTGAA
*
37159200 CTTATTGATTCAGCTCGTAAGAG
1 CTTATTGATTCAGCTCATAAGAG
* **
37159223 CTTATTGTTTCAGCTCATTGGAG
1 CTTATTGATTCAGCTCATAAGAG
** *
37159246 CTTACCGATTCAACTCGA-AAGAG
1 CTTATTGATTCAGCTC-ATAAGAG
*
37159269 CTTACTG-TTCAGCTCA-ATAGAG
1 CTTATTGATTCAGCTCATA-AGAG
37159291 CTTA
1 CTTA
37159295 CCATTTTTAG
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
21 2 0.03
22 15 0.26
23 40 0.69
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (23 bp):
CTTATTGATTCAGCTCATAAGAG
Found at i:37159293 original size:45 final size:46
Alignment explanation
Indices: 37159206--37159296 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
37159196 TGAACTTATT
* * * * *
37159206 GATTCAGCTCGTAAGAGCTTATTGTTTCAGCTCATTGGAGCTTACC
1 GATTCAACTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACC
37159252 GATTCAACTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACC
1 GATTCAACTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACC
37159297 ATTTTTAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 19 0.47
46 21 0.52
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (46 bp):
GATTCAACTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACC
Found at i:37159311 original size:24 final size:25
Alignment explanation
Indices: 37159277--37159333 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
37159267 AGCTTACTGT
37159277 TCAGCTCAATAGAGCTTACCATTT-
1 TCAGCTCAATAGAGCTTACCATTTA
* *
37159301 TTAGCTCAATAGAGCTTACTATTTA
1 TCAGCTCAATAGAGCTTACCATTTA
37159326 TCAGCTCA
1 TCAGCTCA
37159334 GGAGAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (25 bp):
TCAGCTCAATAGAGCTTACCATTTA
Found at i:37167495 original size:40 final size:40
Alignment explanation
Indices: 37167438--37167655 Score: 327
Period size: 40 Copynumber: 5.5 Consensus size: 40
37167428 CGGATGATAA
* *
37167438 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
37167478 CCGGGCTAAG-CCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
37167518 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37167558 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37167598 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
37167638 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37167656 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
39 19 0.11
40 145 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37172658 original size:48 final size:48
Alignment explanation
Indices: 37172483--37172656 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
37172473 ATGAGATCCC
*
37172483 GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
* * * *
37172531 GTGTAAAGACCATGTCTAGGACAAGGCATCAACTTTGATATGTATGCTA
1 GTGT-AAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
* *** *
37172580 GTGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATGTGTACTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
*
37172628 GTGTAAGACCATGTCTGGAACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
37172657 GGCACCAATA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
48 67 0.61
49 43 0.39
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
Found at i:37172683 original size:48 final size:48
Alignment explanation
Indices: 37172577--37172693 Score: 121
Period size: 48 Copynumber: 2.4 Consensus size: 48
37172567 GATATGTATG
* * * ** *
37172577 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATGTGTA
1 CTAGTATAAGACCATGTCTGGAACATGGCATCGGGCACAATATGAGTA
*
37172625 CTAGTGTAAGACCATGTCTGGAACATGGCATC-GGCACCAATATGAG-A
1 CTAGTATAAGACCATGTCTGGAACATGGCATCGGGCA-CAATATGAGTA
* *
37172672 CTTCGTATAAGACCATATCTGG
1 C-TAGTATAAGACCATGTCTGG
37172694 GATATGGCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 5 0.08
48 54 0.92
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
CTAGTATAAGACCATGTCTGGAACATGGCATCGGGCACAATATGAGTA
Found at i:37178176 original size:39 final size:39
Alignment explanation
Indices: 37178132--37178213 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
37178122 ATTGAGAGTT
* *
37178132 AAATTTATTATTTTATCAAAACATAACAAAATAGAAAAA
1 AAATTTATTATTTTACCAAAACATAAAAAAATAGAAAAA
37178171 AAATTTATTATTTTACCAAAACATAAAAAAATAGAAAAA
1 AAATTTATTATTTTACCAAAACATAAAAAAATAGAAAAA
37178210 AAAT
1 AAAT
37178214 AATGACATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (39 bp):
AAATTTATTATTTTACCAAAACATAAAAAAATAGAAAAA
Found at i:37195383 original size:26 final size:26
Alignment explanation
Indices: 37195348--37195399 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
37195338 AATGTGAAAG
*
37195348 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37195374 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37195400 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:37195410 original size:103 final size:104
Alignment explanation
Indices: 37195270--37195492 Score: 378
Period size: 103 Copynumber: 2.2 Consensus size: 104
37195260 TGTATATAAA
** * *
37195270 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
37195334 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
37195373 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
37195438 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
37195477 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
37195493 GATATCCATT
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
103 91 0.81
104 22 0.19
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:37195557 original size:26 final size:26
Alignment explanation
Indices: 37195522--37195573 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
37195512 AAATGAAAAG
* *
37195522 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
37195548 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
37195574 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:37195560 original size:70 final size:72
Alignment explanation
Indices: 37195411--37195561 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
37195401 TCATTGGTGG
* *
37195411 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
37195476 GAGGGGT
66 GAGGGGT
***
37195483 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
37195546 GAGGGGT
66 GAGGGGT
37195553 TGCTAAGTG
1 TGCTAAGTG
37195562 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:37198312 original size:67 final size:67
Alignment explanation
Indices: 37198233--37198456 Score: 387
Period size: 67 Copynumber: 3.3 Consensus size: 67
37198223 TACTATGTGT
37198233 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAA
37198298 GG
66 GG
*
37198300 ACACCATGTAGACAAGAGAGCTACGGGATAGATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAA
37198365 GG
66 GG
* *
37198367 ATACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTC-GCATGCGTGGTTCTAGGTGA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCAG-ATGCGTGGTTCCAGGTGA
37198431 AGG
65 AGG
* *
37198434 ACACTATGTAGACAAGAGTGCTA
1 ACACCATGTAGACAAGAGAGCTA
37198457 TGAGATAAAC
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
66 1 0.01
67 148 0.99
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.21
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAA
GG
Found at i:37202360 original size:47 final size:46
Alignment explanation
Indices: 37202209--37202514 Score: 193
Period size: 47 Copynumber: 6.6 Consensus size: 46
37202199 TTGCCGATGC
* * * * **
37202209 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTGAG-GCCAATG
* * * * *
37202258 CATATCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGAGGCCAATG
* *
37202302 CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTGT-GAGGCCAATG
* *
37202349 CATGTCCCAGACATGTCTTACACTGGC-A-CTCATAAT-ATGGCTGAA-G
1 CATGTCCCAGACATGTCTTACACTGGCTATCTC-T-GTGA-GGC-CAATG
* ** * *
37202395 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTGAGGCCAATG
*
37202441 CCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT--GGCCGAA-G
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTGAGGCC-AATG
**
37202489 CATGTTTCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
37202515 TGCACAAATC
Statistics
Matches: 204, Mismatches: 34, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
43 5 0.02
44 30 0.15
45 5 0.02
46 48 0.24
47 62 0.30
48 35 0.17
49 19 0.09
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGAGGCCAATG
Found at i:37202492 original size:140 final size:137
Alignment explanation
Indices: 37202209--37202514 Score: 370
Period size: 140 Copynumber: 2.2 Consensus size: 137
37202199 TTGCCGATGC
* * *
37202209 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATATCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATATATATGTGCTGAAGCATATCCCAGACATGT
* * *
37202274 CTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTC
65 CTTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTATGT-
37202339 GAGGCCAATG
129 -AGGCCAATG
*
37202349 CATGTCCCAGACATGTCTTACACTGGCACTCATA-ATATG-GCTGAAGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCACTCATATATATGTGCTGAAGCATATCCCAGACATGTC
** *
37202412 TTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT
66 TTACACTAGCACAAC-TCT-GA-GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATC-T
37202476 AATGT-GGCCGAA-G
125 -ATGTAGGCC-AATG
**
37202489 CATGTTTCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
37202515 TGCACAAATC
Statistics
Matches: 146, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
136 2 0.01
137 35 0.24
138 5 0.03
139 26 0.18
140 55 0.38
141 19 0.13
142 1 0.01
143 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (137 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATATATGTGCTGAAGCATATCCCAGACATGTC
TTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTATGTAG
GCCAATG
Found at i:37209864 original size:47 final size:46
Alignment explanation
Indices: 37209754--37210019 Score: 201
Period size: 47 Copynumber: 5.7 Consensus size: 46
37209744 GGGATAAATT
*
37209754 GCCAATGCCATGTCCCAGACATGTCTTACACTAGC-A-CAACTCT-TA-
1 GCCAATG-CATGTCCCAGACATGTCTTACACTGGCTATC-A-TCTGTAG
* * * *
37209799 GTCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGT--AG
**
37209846 GCCAATGCATGTCCCAGACATGTCTTACACTGGC-ACTCAT-AATATG
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTGTA-G
* * ** * * *
37209892 GCTGAA-GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGAT
1 GC-CAATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTAG
* *
37209938 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-G
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTAG
*
37209986 GCCGAA-GCATGTCTCAGACATGTCTTACACTGGC
1 GCC-AATGCATGTCCCAGACATGTCTTACACTGGC
37210020 GCACAAATCA
Statistics
Matches: 174, Mismatches: 30, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.02
44 25 0.14
45 8 0.05
46 52 0.30
47 63 0.36
48 20 0.11
49 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (46 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTAG
Found at i:37209912 original size:46 final size:46
Alignment explanation
Indices: 37209852--37210019 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
37209842 CGAGGCCAAT
*
37209852 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTGAA
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCCGAA
* * * * *
37209898 GCATGTCCCAGACATGTCTTACACTAGCCCTCGT-CTGGAT-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAAT--ATGGCCGAA
*
37209944 GCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATAATGTGGCCGAA
1 G-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATAATATGGCCGAA
*
37209992 GCATGTCTCAGACATGTCTTACACTGGC
1 GCATGTCCCAGACATGTCTTACACTGGC
37210020 GCACAAATCA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 49 0.48
47 30 0.29
48 21 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCCGAA
Found at i:37211784 original size:41 final size:40
Alignment explanation
Indices: 37211732--37211837 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 40
37211722 ACGGCTTGGC
* *
37211732 ACACGTCCGTGTCCATGGCCCGTGTCCTTCACATGGCCATG
1 ACACGCCCGTGTCC-TGGCCCGTGTCCTTCACACGGCCATG
*
37211773 ACATGCCCGTGTCTCTGGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTC-CTGGCCCGTGTCCTTCACACGGCCATG
* *
37211814 ACACGCCCGTGTCCTAGTCCGTGT
1 ACACGCCCGTGTCCTGGCCCGTGT
37211838 TCAAAAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 9 0.16
41 48 0.83
42 1 0.02
ACGTcount: A:0.13, C:0.38, G:0.25, T:0.25
Consensus pattern (40 bp):
ACACGCCCGTGTCCTGGCCCGTGTCCTTCACACGGCCATG
Found at i:37213024 original size:46 final size:45
Alignment explanation
Indices: 37212881--37213024 Score: 139
Period size: 47 Copynumber: 3.1 Consensus size: 45
37212871 ATCTCGAGGC
*
37212881 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAA-TGC-
1 CGATGCATGTCCCAGACATGTCTTACACTAG--CTC-TCACAAGTGCT
* * * * *
37212927 CTATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCACAA-GTGCT
* *
37212975 CGATGCATGTCCCAGCCATGTCTTACACTAGCTCACACAAGTGACT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACAAGTG-CT
37213021 CGAT
1 CGAT
37213025 CGTCATGGCA
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
45 7 0.09
46 28 0.35
47 29 0.37
48 15 0.19
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACAAGTGCT
Found at i:37230480 original size:47 final size:47
Alignment explanation
Indices: 37230374--37230502 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 47
37230364 TACATCTCGA
37230374 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
* * *
37230421 -GCTGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-TTCAT-AATGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTC-TCAA--T
*
37230468 GGCCGATGCATGTCCCAGCCATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
37230503 TCATACAAGT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
45 4 0.06
46 19 0.28
47 30 0.43
48 16 0.23
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
Found at i:37233780 original size:46 final size:47
Alignment explanation
Indices: 37233722--37233943 Score: 213
Period size: 46 Copynumber: 4.7 Consensus size: 47
37233712 CGGTTATAGT
* *
37233722 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGA-GATGA
* *
37233768 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATC-GACATCGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATCGAGATGA
* * * * *
37233816 GTGCTAGTGTAAGAAATGTTTGGGACATGCATCGGCC-TCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATG-A
** * *
37233863 -ATTCAGTGTAAGACATGTCTGGGACATGCACCGGCTAT-GAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATGA
* *
37233908 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
37233944 ACACCTTACC
Statistics
Matches: 144, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 70 0.49
47 45 0.31
48 27 0.19
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATGA
Found at i:37237377 original size:57 final size:57
Alignment explanation
Indices: 37237286--37237439 Score: 265
Period size: 57 Copynumber: 2.7 Consensus size: 57
37237276 TCGAACTACC
* * *
37237286 TTTGATGTCATAGCAA-CTTTGAGCTATGGCCTTACACATTTTATCTTCAAATCATCT
1 TTTGATGTCATA-AAATCTTTTAGCTATGGTCTTACACATTTTATCTTCAAATCATCT
37237343 TTTGATGTCATAAAATCTTTTAGCTATGGTCTTACACATTTTATCTTCAAATCATCT
1 TTTGATGTCATAAAATCTTTTAGCTATGGTCTTACACATTTTATCTTCAAATCATCT
37237400 TTTGATGTCATAAAATCTTTTAGCTATGGTCTTACACATT
1 TTTGATGTCATAAAATCTTTTAGCTATGGTCTTACACATT
37237440 ATAACCTCGT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
56 2 0.02
57 91 0.98
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (57 bp):
TTTGATGTCATAAAATCTTTTAGCTATGGTCTTACACATTTTATCTTCAAATCATCT
Found at i:37240323 original size:27 final size:27
Alignment explanation
Indices: 37240286--37240486 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
37240276 TAAATTGTAC
37240286 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
37240313 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** * *
37240340 TGCACTAAGTGTGCGAAATAAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37240366 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37240394 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37240422 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37240449 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37240476 AGCACTGAGTG
1 AGCACTAAGTG
37240487 AGCGGACTCA
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
27 127 0.85
28 23 0.15
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37248547 original size:27 final size:27
Alignment explanation
Indices: 37248516--37248666 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
37248506 TAAATTGTAC
*
37248516 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
37248543 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
37248569 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
37248597 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
37248625 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
37248652 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37248667 GACTTAATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
27 81 0.77
28 24 0.23
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:37248631 original size:82 final size:81
Alignment explanation
Indices: 37248516--37248666 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
37248506 TAAATTGTAC
*
37248516 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGT
37248580 GTGCGAATTGACCATGT
65 GTGCGAATTGACCATGT
* ** * *
37248597 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAAATGAATATATAGCACTAAGT
37248662 GTGCG
65 GTGCG
37248667 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 18 0.29
82 44 0.71
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
TGCGAATTGACCATGT
Found at i:37248655 original size:55 final size:54
Alignment explanation
Indices: 37248517--37248666 Score: 185
Period size: 55 Copynumber: 2.8 Consensus size: 54
37248507 AAATTGTACA
* *
37248517 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT
* ** *
37248571 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGAGTTTGATTATG-T
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-AATGAATATGAT
* * * *
37248625 GGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
37248667 GACTTAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 40 0.48
55 43 0.52
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT
Found at i:37252832 original size:19 final size:18
Alignment explanation
Indices: 37252789--37252824 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37252779 AAAACAATAA
37252789 AAAAAATTAAAAATATAT
1 AAAAAATTAAAAATATAT
* *
37252807 AAAAAATTTAAATTATAT
1 AAAAAATTAAAAATATAT
37252825 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATTAAAAATATAT
Found at i:37256578 original size:42 final size:42
Alignment explanation
Indices: 37256478--37256619 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 42
37256468 TGTTATCGTA
* * *
37256478 TAAGACCATGTCTGGGACGTTGGCATCG-ACTT-ATTACGTG
1 TAAGACCATGTCTGGGACATTGGAATCGTATTTGATTACGTG
* * * * *
37256518 TAATACCATGTTTAGGACATTGGAATTGTATTTGATTTCGTG
1 TAAGACCATGTCTGGGACATTGGAATCGTATTTGATTACGTG
* * *
37256560 TAAGACCCTGTCTGGGACAGT-GACATCGATATTTGATTACATG
1 TAAGACCATGTCTGGGACATTGGA-ATCG-TATTTGATTACGTG
**
37256603 TAAGACCACATCTGGGA
1 TAAGACCATGTCTGGGA
37256620 TGTTGGCATT
Statistics
Matches: 79, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
40 22 0.28
41 5 0.06
42 26 0.33
43 26 0.33
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGAATCGTATTTGATTACGTG
Found at i:37266655 original size:40 final size:40
Alignment explanation
Indices: 37266571--37266754 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
37266561 TTGAATGCTG
* * * *
37266571 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
37266610 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
37266651 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
37266691 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
37266731 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37266755 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:37266708 original size:80 final size:81
Alignment explanation
Indices: 37266571--37266751 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
37266561 TTGAATGCTG
* * *
37266571 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
37266635 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
37266651 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
37266712 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
37266731 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
37266752 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:37266775 original size:39 final size:38
Alignment explanation
Indices: 37266652--37266801 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
37266642 GTTATTAATT
* ** * *
37266652 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
37266692 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
37266731 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
37266771 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
37266802 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:37266809 original size:40 final size:39
Alignment explanation
Indices: 37266692--37266814 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
37266682 GATACTAATT
* ** ** *
37266692 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
37266731 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
37266771 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
37266811 CCGG
1 CCGG
37266815 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:37274554 original size:40 final size:40
Alignment explanation
Indices: 37274470--37274653 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
37274460 TTGAATGCTG
* * * *
37274470 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
37274509 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
37274550 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
37274590 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
37274630 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37274654 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:37274607 original size:80 final size:81
Alignment explanation
Indices: 37274470--37274650 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
37274460 TTGAATGCTG
* * *
37274470 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
37274534 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
37274550 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
37274611 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
37274630 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
37274651 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:37274674 original size:39 final size:38
Alignment explanation
Indices: 37274551--37274700 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
37274541 GTTATTAATT
* ** * *
37274551 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
37274591 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
37274630 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
37274670 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
37274701 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:37289528 original size:35 final size:35
Alignment explanation
Indices: 37289482--37289551 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
37289472 CAAATCACAA
37289482 TACCTTTTTCCATGGAGACACTTTAAAAGAACTTT
1 TACCTTTTTCCATGGAGACACTTTAAAAGAACTTT
37289517 TACCTTTTTCCATGGAGACACTTTAAAAGAACTTT
1 TACCTTTTTCCATGGAGACACTTTAAAAGAACTTT
37289552 ATCTCCAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (35 bp):
TACCTTTTTCCATGGAGACACTTTAAAAGAACTTT
Found at i:37296973 original size:64 final size:64
Alignment explanation
Indices: 37296872--37296999 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
37296862 TTAGAATTTC
*
37296872 TTCATGAAACTTTAACATATGTTTATTCTCATACTGTAGACCTCATAATGATCATAAAATAATT
1 TTCATGAAACTTTAACACATGTTTATTCTCATACTGTAGACCTCATAATGATCATAAAATAATT
37296936 TTCATGAAACTTTAACACATGTTTATTCTCATACTGTAGACCTCATAATGATCATAAAATAATT
1 TTCATGAAACTTTAACACATGTTTATTCTCATACTGTAGACCTCATAATGATCATAAAATAATT
37297000 ATTTTAACAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (64 bp):
TTCATGAAACTTTAACACATGTTTATTCTCATACTGTAGACCTCATAATGATCATAAAATAATT
Found at i:37301625 original size:42 final size:44
Alignment explanation
Indices: 37301542--37301669 Score: 124
Period size: 43 Copynumber: 3.0 Consensus size: 44
37301532 ACATAGGATC
* *
37301542 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTATCGTGTAAGACCACGTCTAGGATGTTGGCAT
*
37301585 TG-TATTTGATTAT-GTGTAAGACC-CTGTCTAGGATAG-TGGCAT
1 CGATATTTGATTATCGTGTAAGACCAC-GTCTAGGAT-GTTGGCAT
* * * * *
37301627 CGATATTTGATTA-CATGTAAAACCATGTCTGGGACGTTGGCAT
1 CGATATTTGATTATCGTGTAAGACCACGTCTAGGATGTTGGCAT
37301670 TGTACGAGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
41 1 0.01
42 31 0.45
43 37 0.54
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (44 bp):
CGATATTTGATTATCGTGTAAGACCACGTCTAGGATGTTGGCAT
Found at i:37304947 original size:67 final size:67
Alignment explanation
Indices: 37304837--37304993 Score: 217
Period size: 67 Copynumber: 2.3 Consensus size: 67
37304827 CATCATGTGT
* * *
37304837 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAAGAATACC
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCAGATGCGTGGTTCCAAGTGAAGAACACC
37304902 ATGTAG
62 ATGTAG
* *
37304908 ACAAGAGAGCTACGGGATATATGTAGCTAGGTC-GCATGCGTGGTTCCAAGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCAG-ATGCGTGGTTCCAAGTGAAGAACACCATG
37304972 TAG
65 TAG
37304975 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
37304994 AACTGGCTAG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
66 1 0.01
67 60 0.76
68 3 0.04
69 2 0.03
71 13 0.16
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCAGATGCGTGGTTCCAAGTGAAGAACACCATGT
AG
Found at i:37318814 original size:40 final size:40
Alignment explanation
Indices: 37318737--37318954 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
37318727 AAACCAAGTA
* * *
37318737 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
37318776 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37318816 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37318856 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
37318896 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
37318936 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37318955 TTATCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 151 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37328245 original size:28 final size:28
Alignment explanation
Indices: 37328176--37328288 Score: 136
Period size: 28 Copynumber: 4.0 Consensus size: 28
37328166 ACACGAGACT
* *
37328176 AATTTTCTCACACAAGCTGTAATTTTTTG
1 AATTTTCTCACACAAGCTGTGA-TATTTG
* * *
37328205 AATTTGCTTACACGAGCTGTGATATTTG
1 AATTTTCTCACACAAGCTGTGATATTTG
* *
37328233 AATTTTCTCACACGAGCTATGATATTTG
1 AATTTTCTCACACAAGCTGTGATATTTG
* *
37328261 AATTTTCTCACACAAGTTTTGATATTTG
1 AATTTTCTCACACAAGCTGTGATATTTG
37328289 GGCTACTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 55 0.75
29 18 0.25
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (28 bp):
AATTTTCTCACACAAGCTGTGATATTTG
Found at i:37332195 original size:28 final size:28
Alignment explanation
Indices: 37332163--37332222 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
37332153 AATCCACCAT
* ** *
37332163 AAAGGGATTTTCTTTCATGGTTTGCCAC
1 AAAGGGAATTTCTTTCACAGTTAGCCAC
37332191 AAA-GGAATTTCTTTCACAGTTAGCCAC
1 AAAGGGAATTTCTTTCACAGTTAGCCAC
37332218 AAAGG
1 AAAGG
37332223 CTTTCTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (28 bp):
AAAGGGAATTTCTTTCACAGTTAGCCAC
Found at i:37332216 original size:27 final size:26
Alignment explanation
Indices: 37332171--37332241 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
37332161 ATAAAGGGAT
* *
37332171 TTTCTTTCATGGTTTGCCACAAAGGAA
1 TTTCTTTCATAGTTAGCCACAAAGG-A
* *
37332198 TTTCTTTCACAGTTAGCCACAAAGGC
1 TTTCTTTCATAGTTAGCCACAAAGGA
37332224 TTTCTTTTCATAGTTAGC
1 TTTC-TTTCATAGTTAGC
37332242 AAAAAATGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (26 bp):
TTTCTTTCATAGTTAGCCACAAAGGA
Found at i:37332259 original size:27 final size:27
Alignment explanation
Indices: 37332198--37332252 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
37332188 CACAAAGGAA
* *
37332198 TTTC-TTTCACAGTTAGCCACAAAGGC
1 TTTCTTTTCACAGTTAGCAAAAAAGGC
* *
37332224 TTTCTTTTCATAGTTAGCAAAAAATGC
1 TTTCTTTTCACAGTTAGCAAAAAAGGC
37332251 TT
1 TT
37332253 CATTTTCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (27 bp):
TTTCTTTTCACAGTTAGCAAAAAAGGC
Found at i:37339035 original size:18 final size:21
Alignment explanation
Indices: 37339014--37339055 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
37339004 TAATGCCTTC
37339014 TATGTTGGC-TTA-TT-TTGA
1 TATGTTGGCATTAGTTGTTGA
37339032 TATGTTGGCATTAGTTGTTGA
1 TATGTTGGCATTAGTTGTTGA
37339053 TAT
1 TAT
37339056 AGTTTAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 2 0.10
21 7 0.33
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.52
Consensus pattern (21 bp):
TATGTTGGCATTAGTTGTTGA
Found at i:37342163 original size:52 final size:48
Alignment explanation
Indices: 37342086--37342231 Score: 184
Period size: 49 Copynumber: 2.9 Consensus size: 48
37342076 TTTGTAGTCA
*
37342086 AAGCTACCTTCTTCAAAAGGTGGCCTTCACATAGTACCACACTTGTGACC
1 AAGCTATC-TCTTCAAAA-GTGGCCTTCACATAGTACCACACTTGTGACC
* *
37342136 AAAGCTATATCTCTTCAGAAAGTGGCCTTTACATAGTACCACACTAGTGACC
1 -AAGC--TATCTCTTCA-AAAGTGGCCTTCACATAGTACCACACTTGTGACC
* *
37342188 AAGCTATCTCTTCTCAAAGTGGCCTTCACATAGTAGCACACTTG
1 AAGCTATCTCTTC-AAAAGTGGCCTTCACATAGTACCACACTTG
37342232 AGTCACAAGT
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
49 35 0.42
51 8 0.10
52 35 0.42
53 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (48 bp):
AAGCTATCTCTTCAAAAGTGGCCTTCACATAGTACCACACTTGTGACC
Found at i:37342219 original size:49 final size:51
Alignment explanation
Indices: 37342095--37342229 Score: 186
Period size: 52 Copynumber: 2.7 Consensus size: 51
37342085 AAAGCTACCT
*
37342095 TCTTCA-AAAGGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATC
1 TCTTCACAAA-GTGGCCTTCACATAGTACCACACTAGTGACCAAAGC-ATATC
* *
37342147 TCTTCAGAAAGTGGCCTTTACATAGTACCACACTAGTGACC-AAGC-TATC
1 TCTTCACAAAGTGGCCTTCACATAGTACCACACTAGTGACCAAAGCATATC
* *
37342196 TCTTCTCAAAGTGGCCTTCACATAGTAGCACACT
1 TCTTCACAAAGTGGCCTTCACATAGTACCACACT
37342230 TGAGTCACAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
49 34 0.45
51 4 0.05
52 35 0.46
53 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
TCTTCACAAAGTGGCCTTCACATAGTACCACACTAGTGACCAAAGCATATC
Found at i:37348592 original size:27 final size:27
Alignment explanation
Indices: 37348513--37348606 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
37348503 AAGGGCAAAA
* * * * *
37348513 CAGTCATTTTACCCTATAGGGGTATGT
1 CAGTAATTTTACACTACAAGGGTATTT
*
37348540 CAGTCATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
37348567 CAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
37348594 C-GATAATTTTACA
1 CAG-TAATTTTACA
37348607 AGTCGGGGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:37350431 original size:40 final size:40
Alignment explanation
Indices: 37350376--37350550 Score: 257
Period size: 40 Copynumber: 4.4 Consensus size: 40
37350366 GATGATAACT
*
37350376 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
37350416 GGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
37350456 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
37350496 GGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
37350535 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
37350551 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 15 0.12
39 15 0.12
40 94 0.76
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:37358483 original size:40 final size:40
Alignment explanation
Indices: 37358428--37358601 Score: 255
Period size: 40 Copynumber: 4.4 Consensus size: 40
37358418 ATGATAACTA
*
37358428 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
37358468 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
37358508 GGCTGAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
37358548 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
37358586 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
37358602 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 15 0.12
39 15 0.12
40 93 0.76
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:37359988 original size:27 final size:27
Alignment explanation
Indices: 37359958--37360158 Score: 192
Period size: 27 Copynumber: 7.5 Consensus size: 27
37359948 ACAGGGGGTG
* *
37359958 TTTCGGTAATTTCACAAATTGAAGGTA
1 TTTCAGTAATTTCACAAATCGAAGGTA
* * *
37359985 TTTCAGAAATTTTACAAATCAAAGGTA
1 TTTCAGTAATTTCACAAATCGAAGGTA
* *
37360012 TTTCAATAATTTTACAAATC-AAGGGTA
1 TTTCAGTAATTTCACAAATCGAA-GGTA
* **
37360039 TTTCGGTAATTTCACAAATCGGGGGTA
1 TTTCAGTAATTTCACAAATCGAAGGTA
** * *
37360066 TTTTGGTAATTTTACAAATTG-AGGATA
1 TTTCAGTAATTTCACAAATCGAAGG-TA
*
37360093 TTTCAGTAATTTCA-AAATCGAGGGTA
1 TTTCAGTAATTTCACAAATCGAAGGTA
* * *
37360119 TTTCGGTAATTTTACAAATCGAGGGTA
1 TTTCAGTAATTTCACAAATCGAAGGTA
*
37360146 TTTTAGTAATTTC
1 TTTCAGTAATTTC
37360159 TCTTTATTAT
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
26 23 0.16
27 120 0.84
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
TTTCAGTAATTTCACAAATCGAAGGTA
Found at i:37360029 original size:54 final size:54
Alignment explanation
Indices: 37359953--37360158 Score: 238
Period size: 54 Copynumber: 3.8 Consensus size: 54
37359943 GTGTTACAGG
* * * * *
37359953 GGGTGTTTCGGTAATTTCACAAATTGAAGGTATTTCAGAAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCACAAATCGA
* ** * * *
37360007 AGGTATTTCAATAATTTTACAAA-TCAAGGGTATTTCGGTAATTTCACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATTGAA-GGTATTTCAGTAATTTCACAAATCGA
*
37360061 GGGTATTTTGGTAATTTTACAAATTG-AGGATATTTCAGTAATTTCA-AAATCGA
1 GGGTATTTCGGTAATTTTACAAATTGAAGG-TATTTCAGTAATTTCACAAATCGA
* * *
37360114 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTC
1 GGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTC
37360159 TCTTTATTAT
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
53 49 0.39
54 76 0.60
55 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCACAAATCGA
Found at i:37360095 original size:81 final size:80
Alignment explanation
Indices: 37359953--37360157 Score: 268
Period size: 81 Copynumber: 2.5 Consensus size: 80
37359943 GTGTTACAGG
* * * * *
37359953 GGGTGTTTCGGTAATTTCACAAATTGAAGGTATTTCAGAAATTTTACAAATCAAAGGTATTTCAA
1 GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAAGGTATTTCAA
*
37360018 TAATTTTACAAATCAA
66 TAATTTCA-AAATCAA
* * **
37360034 GGGTATTTCGGTAATTTCACAAATCGGGGGTATTTTGGTAATTTTACAAAT-TGAGGATATTTCA
1 GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAAGG-TATTTCA
* *
37360098 GTAATTTCAAAATCGA
65 ATAATTTCAAAATCAA
*
37360114 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
1 GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTT
37360158 CTCTTTATTA
Statistics
Matches: 108, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 50 0.46
81 58 0.54
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (80 bp):
GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAAGGTATTTCAA
TAATTTCAAAATCAA
Found at i:37361704 original size:93 final size:93
Alignment explanation
Indices: 37361577--37361749 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
37361567 CGCCCATAAG
* * *
37361577 CGAACTCGGACTCAACTCAATAAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
37361642 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
37361670 CGAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTT-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
37361734 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
37361750 CAAATATCCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:37361745 original size:46 final size:46
Alignment explanation
Indices: 37361570--37361745 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
37361560 TGTAACCCGC
** *
37361570 CCATAAGCGAACTCGGACTCAACTCAATAAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCAT
* * * * * *
37361616 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* *
37361662 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
37361709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37361746 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.04
46 64 0.62
47 34 0.33
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:37362640 original size:11 final size:11
Alignment explanation
Indices: 37362624--37362648 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37362614 ACCTTGTATC
37362624 TGAATAAATTT
1 TGAATAAATTT
37362635 TGAATAAATTT
1 TGAATAAATTT
37362646 TGA
1 TGA
37362649 TTTACACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (11 bp):
TGAATAAATTT
Found at i:37367899 original size:30 final size:29
Alignment explanation
Indices: 37367857--37367913 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
37367847 AAAGATAACA
*
37367857 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAACCCAAGATTG
*
37367886 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAAACC-GAATAAAGAAACCCAAGAT
37367914 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATTG
Found at i:37378582 original size:20 final size:20
Alignment explanation
Indices: 37378557--37378602 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37378547 ATTGAGCCTT
37378557 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
37378577 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
37378596 GCCCATA
1 GCCCATA
37378603 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:37379946 original size:19 final size:19
Alignment explanation
Indices: 37379918--37379956 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37379908 CAAGGAAGGA
*
37379918 AGAGATAAGAA-AAAGAAAG
1 AGAGAAAAGAAGAAA-AAAG
37379937 AGAGAAAAGAAGAAAAAAG
1 AGAGAAAAGAAGAAAAAAG
37379956 A
1 A
37379957 ATTCGGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGAAAAGAAGAAAAAAG
Found at i:37383458 original size:40 final size:40
Alignment explanation
Indices: 37383285--37383515 Score: 269
Period size: 40 Copynumber: 5.9 Consensus size: 40
37383275 TCGAATGATG
* * * *
37383285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
37383325 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
37383363 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37383402 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37383441 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* **
37383482 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA
37383516 TATCCGGTTA
Statistics
Matches: 168, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
37 15 0.09
38 24 0.14
39 35 0.21
40 84 0.50
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37383525 original size:116 final size:115
Alignment explanation
Indices: 37383292--37383536 Score: 264
Period size: 116 Copynumber: 2.1 Consensus size: 115
37383282 ATGTCCGGGC
*
37383292 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCAGA
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCAGA
** ** *
37383357 TACTAATTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCGGGT
66 TACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACT-AATCCGGT
* * * **
37383408 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGC-
* * *
37383471 AGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTA-T-ATCCGGT
63 AGATACTA-AACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTACTAATCCGGT
* *
37383524 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
37383537 TATGTGATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
115 1 0.01
116 63 0.58
117 14 0.13
118 10 0.09
119 20 0.19
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (115 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCAGA
TACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAATCCGGT
Found at i:37389488 original size:56 final size:56
Alignment explanation
Indices: 37389402--37389521 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
37389392 ACAAGGGATG
37389402 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
37389458 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37389514 ATGGGCAA
1 ATGGGCAA
37389522 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:37390729 original size:40 final size:40
Alignment explanation
Indices: 37390646--37390867 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
37390636 TCGAATGATG
* * * *
37390646 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
37390685 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37390725 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37390764 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37390804 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37390844 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37390868 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 16 0.10
39 64 0.40
40 75 0.46
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37390781 original size:79 final size:78
Alignment explanation
Indices: 37390646--37390867 Score: 270
Period size: 79 Copynumber: 2.8 Consensus size: 78
37390636 TCGAATGATG
* * * * * * *
37390646 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATTT
*
37390710 GTGCGAGATACTAAT
64 GTGCGAGATACTAAA
*
37390725 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
37390790 TGCGAGTTACTAAA
65 TGCGAGATACTAAA
* *
37390804 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA-CC-GGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
37390867 G
64 G
37390868 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 21 0.17
79 87 0.69
80 18 0.14
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATACTAAA
Found at i:37393289 original size:20 final size:20
Alignment explanation
Indices: 37393264--37393309 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37393254 ATTGGGCCTT
37393264 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
37393284 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
37393303 GCCCATA
1 GCCCATA
37393310 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:37393318 original size:19 final size:20
Alignment explanation
Indices: 37393276--37393319 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
37393266 CCATATTAAC
** *
37393276 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
37393296 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
37393315 ACAGT
1 ACAGT
37393320 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:37402028 original size:21 final size:21
Alignment explanation
Indices: 37402002--37402044 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
37401992 GATTTTGTTT
37402002 TAATTAACTAATTATCTAAAC
1 TAATTAACTAATTATCTAAAC
37402023 TAATTAACTAATTATCTAAAC
1 TAATTAACTAATTATCTAAAC
37402044 T
1 T
37402045 TGTCCCGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTAACTAATTATCTAAAC
Found at i:37407783 original size:25 final size:25
Alignment explanation
Indices: 37407733--37407783 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
37407723 CCCTTATAAT
* *
37407733 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
37407758 GTGAAAATGACCATTATACCCTTAG
1 GTGAAAATGACCATTATACCCCTAG
37407783 G
1 G
37407784 GATATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:37407836 original size:10 final size:10
Alignment explanation
Indices: 37407823--37407861 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
37407813 CTGTTTTATA
37407823 CATGATATGC
1 CATGATATGC
37407833 CATGATATGC
1 CATGATATGC
37407843 ACATGATATGC
1 -CATGATATGC
37407854 CATGATAT
1 CATGATAT
37407862 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:37407848 original size:21 final size:21
Alignment explanation
Indices: 37407822--37407861 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
37407812 ACTGTTTTAT
37407822 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
37407843 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
37407862 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:37407964 original size:24 final size:24
Alignment explanation
Indices: 37407906--37407988 Score: 123
Period size: 24 Copynumber: 3.4 Consensus size: 24
37407896 GGAGGAAGTG
37407906 CAAAAGGGCTTTGCCCCAGTTTACT
1 CAAAAGGGCTTTGCCCCAGTTTA-T
*
37407931 GAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
37407955 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
37407978 TAAAAGAGGCT
1 CAAAAG-GGCT
37407989 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 9 0.17
24 23 0.43
25 22 0.41
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:37407999 original size:49 final size:49
Alignment explanation
Indices: 37407906--37408000 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 49
37407896 GGAGGAAGTG
**
37407906 CAAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTAT
*
37407955 CAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTTGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
37408001 ATATGATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 6 0.15
48 10 0.24
49 25 0.61
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (49 bp):
CAAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:37415647 original size:25 final size:25
Alignment explanation
Indices: 37415619--37415669 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
37415609 CCCTTATAAT
* *
37415619 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
37415644 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
37415669 G
1 G
37415670 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:37415722 original size:10 final size:10
Alignment explanation
Indices: 37415709--37415747 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
37415699 CTGCTTTATA
37415709 CATGATATGC
1 CATGATATGC
37415719 CATGATATGC
1 CATGATATGC
37415729 ACATGATATGC
1 -CATGATATGC
*
37415740 CATTATAT
1 CATGATAT
37415748 ATTCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:37415734 original size:21 final size:21
Alignment explanation
Indices: 37415708--37415747 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37415698 ACTGCTTTAT
37415708 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
*
37415729 ACATGATATGCCATTATAT
1 ACATGATATGCCATGATAT
37415748 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:37415875 original size:24 final size:24
Alignment explanation
Indices: 37415792--37415923 Score: 176
Period size: 25 Copynumber: 5.4 Consensus size: 24
37415782 GGAGGAAGTG
*
37415792 CAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAGGGCTTTGCCCTAGTTTAT
*
37415816 CGAAAAGGGCTTTGCCCTAGTTTAC
1 C-AAAAGGGCTTTGCCCTAGTTTAT
37415841 CGAAAAGGGCTTTGCCCTAGTTTAT
1 C-AAAAGGGCTTTGCCCTAGTTTAT
*
37415866 CAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCTAGTTTAT
* *
37415890 CAAAAGGGTTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCTAGTTTAT
*
37415913 TAAAAGAGGCT
1 CAAAAG-GGCT
37415924 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
23 9 0.09
24 44 0.44
25 48 0.48
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCTAGTTTAT
Found at i:37421483 original size:26 final size:26
Alignment explanation
Indices: 37421452--37421506 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
37421442 TCGGGTACAG
37421452 CATCACAACTGAATCGGATTTTCAAA
1 CATCACAACTGAATCGGATTTTCAAA
37421478 CATCACAACTGAATCGGATTTTCAAA
1 CATCACAACTGAATCGGATTTTCAAA
37421504 CAT
1 CAT
37421507 ACATAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (26 bp):
CATCACAACTGAATCGGATTTTCAAA
Found at i:37426431 original size:25 final size:25
Alignment explanation
Indices: 37426392--37426461 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
37426382 CAGACCAATT
*
37426392 TTCACAGCTCATGTGAGCATACTTA
1 TTCACAGCTCGTGTGAGCATACTTA
*
37426417 TTCACAGTTCGTGTGAGCATACTTA
1 TTCACAGCTCGTGTGAGCATACTTA
37426442 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
37426462 CTATGTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATACTTA
Found at i:37428622 original size:42 final size:42
Alignment explanation
Indices: 37428562--37428661 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
37428552 CCCACGAGCA
* * * *
37428562 TGTGCCAGGCCGTTTACCCTTCAAAGTAACCTGACACGTCCG
1 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTGACACGCCCG
* *
37428604 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTTACATGCCCG
1 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTGACACGCCCG
37428646 TGTG-CAAGGCTGTGTA
1 TGTGCCAA-GCTGTGTA
37428662 ACAGCCTGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 3 0.06
42 48 0.94
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (42 bp):
TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTGACACGCCCG
Found at i:37430333 original size:44 final size:42
Alignment explanation
Indices: 37430189--37430350 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
37430179 AGCTCGTACA
* * * * *
37430189 ATGCCAACGTCCCAGACGTGGTCCTACATGTAATCGAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* *
37430232 ATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATACG
* * * * *
37430274 ATGCCGATGTGCCAGACATGGTCTTACACATAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-GAAATCA-AA-TACG
**
37430318 ATGCCAACGTCCCAGATGTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA
37430351 ACACATATCG
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 27 0.28
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:37430733 original size:8 final size:8
Alignment explanation
Indices: 37430720--37430744 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37430710 AAATTAGCCC
37430720 TCACATTT
1 TCACATTT
37430728 TCACATTT
1 TCACATTT
37430736 TCACATTT
1 TCACATTT
37430744 T
1 T
37430745 AGTCCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:37432136 original size:20 final size:20
Alignment explanation
Indices: 37432108--37432146 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37432098 AACATTCAAA
*
37432108 ATACTATAATCACAA-CCAAG
1 ATACCATAAT-ACAAGCCAAG
37432128 ATACCATAATACAAGCCAA
1 ATACCATAATACAAGCCAA
37432147 ACTATATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.18
Consensus pattern (20 bp):
ATACCATAATACAAGCCAAG
Found at i:37434048 original size:28 final size:29
Alignment explanation
Indices: 37434004--37434067 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
37433994 AAAAATCACT
*
37434004 TAACA-AAATTCTTTCACATAACAACTAA
1 TAACACAAATTCTATCACATAACAACTAA
* *
37434032 TAACACAAATTC-ATCACTTAACATCTAA
1 TAACACAAATTCTATCACATAACAACTAA
37434060 -AATCACAA
1 TAA-CACAA
37434068 GTTTCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.06
28 23 0.74
29 6 0.19
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (29 bp):
TAACACAAATTCTATCACATAACAACTAA
Found at i:37439475 original size:13 final size:13
Alignment explanation
Indices: 37439457--37439484 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37439447 ATGTGTGTTC
37439457 TAGTTCACAAAGG
1 TAGTTCACAAAGG
37439470 TAGTTCACAAAGG
1 TAGTTCACAAAGG
37439483 TA
1 TA
37439485 CTAAGTACTT
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:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (13 bp):
TAGTTCACAAAGG
Found at i:37439885 original size:48 final size:48
Alignment explanation
Indices: 37439824--37439964 Score: 185
Period size: 48 Copynumber: 3.0 Consensus size: 48
37439814 TACCATGGTT
* * * **
37439824 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTATACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATATCA
* * * *
37439872 ATACATGTAACGTGGTTCTAAGTGGATATGCCACGGTTACATATATCA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATATCA
*
37439920 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
37439965 AACGTGGTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 35 0.44
48 45 0.56
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATATCA
Found at i:37439977 original size:38 final size:38
Alignment explanation
Indices: 37439926--37440000 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
37439916 ATCAATTCAT
*
37439926 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATA
* *
37439964 TAACGTGGTGCTAAGTGGATATGCCACAGTTATACAT
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACAT
37440001 GTTAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATA
Found at i:37442894 original size:26 final size:26
Alignment explanation
Indices: 37442861--37442914 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
37442851 GTATTTTCCT
37442861 ATGAGTTTGCT-TTTCGATCTTCCGAC
1 ATGAGTTTGCTATTT-GATCTTCCGAC
*
37442887 ATGAGTTTGGTATTTGATCTTCCGAC
1 ATGAGTTTGCTATTTGATCTTCCGAC
37442913 AT
1 AT
37442915 AGTATGTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (26 bp):
ATGAGTTTGCTATTTGATCTTCCGAC
Found at i:37442950 original size:15 final size:15
Alignment explanation
Indices: 37442930--37442982 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
37442920 GTATCTTGGG
37442930 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
37442945 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
37442960 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGGA
37442975 TTTCTTTA
1 TTTCTTTA
37442983 CTCAGTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 2 0.06
15 30 0.94
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37442960 original size:30 final size:30
Alignment explanation
Indices: 37442926--37442982 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37442916 GTATGTATCT
* *
37442926 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGAATTTCTTTATTC
37442956 TGGGTTTCTCTATCTTGAATTTCTTTA
1 TGGGTTTCTCTATCTTGAATTTCTTTA
37442983 CTCAGTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGAATTTCTTTATTC
Found at i:37444936 original size:48 final size:48
Alignment explanation
Indices: 37444860--37445000 Score: 176
Period size: 48 Copynumber: 3.0 Consensus size: 48
37444850 TACCATGGTT
* * **
37444860 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACCCATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
** * *
37444908 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
* * *
37444956 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATAT
37445001 AACGTGGTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 35 0.44
48 45 0.56
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
Found at i:37446628 original size:25 final size:25
Alignment explanation
Indices: 37446600--37446658 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
37446590 ATGCTCACTC
37446600 GAGCTGTAGATC-AGTATGCTCCCAG
1 GAGCTGTAGATCGA-TATGCTCCCAG
* * * *
37446625 GAGCTATAAATCGATATGCTCTCAT
1 GAGCTGTAGATCGATATGCTCCCAG
37446650 GAGCTGTAG
1 GAGCTGTAG
37446659 GTTGCAACGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
GAGCTGTAGATCGATATGCTCCCAG
Found at i:37448077 original size:42 final size:42
Alignment explanation
Indices: 37447993--37448090 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
37447983 CCTGGGATGT
* * *
37447993 TGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTAGGACAT
1 TGGCATCGATAT--GATTTACGCGTAAGACCATGTCTAGGACAG
* * *
37448037 TGGCATCGTATATGATTT-CGCGTAAGACCCTGTTTGGGACAG
1 TGGCATCG-ATATGATTTACGCGTAAGACCATGTCTAGGACAG
37448079 TGGCATCGATAT
1 TGGCATCGATAT
37448091 TTGACAACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
41 4 0.09
42 27 0.57
43 5 0.11
44 8 0.17
45 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGGCATCGATATGATTTACGCGTAAGACCATGTCTAGGACAG
Found at i:37452632 original size:24 final size:24
Alignment explanation
Indices: 37452600--37452646 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
37452590 AAGTCAAGCA
*
37452600 TTTTGCAATGGACTTGACTATCTG
1 TTTTGCAATGAACTTGACTATCTG
37452624 TTTTGCAATGAACTTGACTATCT
1 TTTTGCAATGAACTTGACTATCT
37452647 CTCTTTTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTTGCAATGAACTTGACTATCTG
Found at i:37457284 original size:37 final size:37
Alignment explanation
Indices: 37457225--37457333 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
37457215 AGCTCAGACG
* *
37457225 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
37457262 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
37457299 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
37457334 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:37457608 original size:48 final size:49
Alignment explanation
Indices: 37457479--37457617 Score: 192
Period size: 52 Copynumber: 2.8 Consensus size: 49
37457469 GCACATCGCC
*
37457479 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* *
37457531 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
*
37457579 TACATATTTCACATTAGCCATTCGACTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
37457618 TGCATGTTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
48 35 0.44
49 1 0.01
51 1 0.01
52 42 0.53
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Done.