Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 108 of 344
Found at i:36404529 original size:45 final size:45
Alignment explanation
Indices: 36404480--36404647 Score: 239
Period size: 45 Copynumber: 3.7 Consensus size: 45
36404470 GTTTGATTGG
* *
36404480 TGATGTCATAGCATCTTTCAAAT-ATGGTCTTACTCGATAGAATCA
1 TGATGTCATAACATCTTTC-AGTCATGGTCTTACTCGATAGAATCA
* * * *
36404525 TGATGTCATAACGTCTTTCAGTCATGGTTTTACCCGATAGAATCG
1 TGATGTCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
*
36404570 TGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
1 TGATGTCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
* *
36404615 TAATGTCATAACGTCTTTCAGTCATGGTCTTAC
1 TGATGTCATAACATCTTTCAGTCATGGTCTTAC
36404648 CCATTTCTGG
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 2 0.02
45 106 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGTCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:36404691 original size:90 final size:90
Alignment explanation
Indices: 36404479--36404649 Score: 281
Period size: 90 Copynumber: 1.9 Consensus size: 90
36404469 CGTTTGATTG
* * *
36404479 GTGATGTCATAGCATCTTTCAAATATGGTCTTACTCGATAGAATCATGATGTCATAACGTCTTTC
1 GTGATGCCATAACATCTTTCAAATATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTTC
*
36404544 AGTCATGGTTTTACCCGATAGAATC
66 AGTCATGGTCTTACCCGATAGAATC
*
36404569 GTGATGCCATAACATCTTTC-AGTCATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTT
1 GTGATGCCATAACATCTTTCAAAT-ATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTT
36404633 CAGTCATGGTCTTACCC
65 CAGTCATGGTCTTACCC
36404650 ATTTCTGGTA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 2 0.03
90 73 0.97
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (90 bp):
GTGATGCCATAACATCTTTCAAATATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTTC
AGTCATGGTCTTACCCGATAGAATC
Found at i:36407124 original size:30 final size:30
Alignment explanation
Indices: 36407088--36407147 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36407078 TTCCCGAGCC
36407088 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
36407118 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
36407148 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:36407985 original size:101 final size:99
Alignment explanation
Indices: 36407797--36408026 Score: 304
Period size: 100 Copynumber: 2.3 Consensus size: 99
36407787 TATTGTAAGG
* * *
36407797 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATAATTGGTCACATGTGTAGTACT
* *
36407862 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TTCGA
** *
36407897 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-TCAGATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACT-AGATAATT-GGTCACATGTGTAGTA
* * *
36407961 CTAAGTGCAGGCTACTACGTGTACCGGATAATTGGT
64 CTAAGTGCAGGCTACTACGCGTACCGGATAATTCGA
36407997 TGCA--TGTGTAGTACTAAGTGCAGGCTACTA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTA
36408027 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
99 27 0.23
100 45 0.39
101 44 0.38
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTCGA
Found at i:36408034 original size:49 final size:49
Alignment explanation
Indices: 36407802--36408037 Score: 283
Period size: 49 Copynumber: 4.8 Consensus size: 49
36407792 TAAGGTCACG
* *
36407802 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
36407851 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
* * ** * *
36407902 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
* *
36407952 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
36408001 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
36408038 CAGCTTCGGC
Statistics
Matches: 157, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 73 0.46
50 47 0.30
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:36409984 original size:23 final size:23
Alignment explanation
Indices: 36409955--36410002 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
36409945 TTTAAAATTT
*
36409955 AAAATTTCTTTAGA-TTTTTTTAA
1 AAAATTT-TATAGACTTTTTTTAA
*
36409978 AAAATTTTATATACTTTTTTTAA
1 AAAATTTTATAGACTTTTTTTAA
36410001 AA
1 AA
36410003 TATAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
AAAATTTTATAGACTTTTTTTAA
Found at i:36410041 original size:19 final size:18
Alignment explanation
Indices: 36410003--36410041 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
36409993 TTTTTTAAAA
**
36410003 TATAAATTTTTGAATTTT
1 TATAAATTTTTGAAAATT
36410021 TATAAATATTTTGAAAATT
1 TATAAAT-TTTTGAAAATT
36410040 TA
1 TA
36410042 AAAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TATAAATTTTTGAAAATT
Found at i:36415269 original size:108 final size:110
Alignment explanation
Indices: 36415100--36415300 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
36415090 TTCAAGGATA
* * * *
36415100 CCATGTAAGACCATGCTAAGGTATTGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
36415165 CCATGTCAATACATGGCATTGATAAGTTACTATAAGTCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGTCAAAGGTC
* * *
36415210 CCATGTAATACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
36415272 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
36415301 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 23 0.29
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGTCAAAGGTC
Found at i:36415560 original size:16 final size:16
Alignment explanation
Indices: 36415539--36415569 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36415529 ATAGATTTGA
36415539 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
36415555 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
36415570 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:36418907 original size:46 final size:46
Alignment explanation
Indices: 36418851--36419023 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
36418841 TGGTTGAGCA
36418851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36418897 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
36418942 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
36418990 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36419024 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36419007 original size:93 final size:93
Alignment explanation
Indices: 36418848--36419018 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
36418838 GGATGGTTGA
* *
36418848 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36418913 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
36418941 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36419006 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36419019 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36419283 original size:19 final size:20
Alignment explanation
Indices: 36419248--36419285 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36419238 ATAAGGTGGT
36419248 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36419268 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36419286 TGGTGATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36431690 original size:17 final size:17
Alignment explanation
Indices: 36431670--36431702 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36431660 AACACCTCTA
36431670 ATACCTCTCAAAAACCT
1 ATACCTCTCAAAAACCT
*
36431687 ATACCTCTCGAAAACC
1 ATACCTCTCAAAAACC
36431703 CCTTTTCTTC
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:0.39, C:0.36, G:0.03, T:0.21
Consensus pattern (17 bp):
ATACCTCTCAAAAACCT
Found at i:36437968 original size:28 final size:28
Alignment explanation
Indices: 36437936--36437990 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
36437926 AAAATAAATT
36437936 AGCAAGGCTACACAAGAATTCACTATGA
1 AGCAAGGCTACACAAGAATTCACTATGA
36437964 AGCAAGGCTACACAAGAATTCACTATG
1 AGCAAGGCTACACAAGAATTCACTATG
36437991 GCAAATGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (28 bp):
AGCAAGGCTACACAAGAATTCACTATGA
Found at i:36457761 original size:44 final size:43
Alignment explanation
Indices: 36457591--36457856 Score: 138
Period size: 47 Copynumber: 5.8 Consensus size: 43
36457581 TGGGGTTATG
* * *
36457591 TGAGAGCCAGTATGAGACCATGTCTGGGACATGGCATCGACATTGAGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACA---AGA
** * * * * **
36457639 CAAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGCTGCATCA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-G--ACAAGA
* * * * * *
36457685 TGA-TAACCCGTGTAAGACCACGTTTGGGACATGGCATCGACGAGG
1 TGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACAAGA
* **
36457730 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-GACAAGA
* * * *
36457774 TGATGTTAGCCAGTGTAAGACGTGTCTGGGACATCCATCGGCTAAGT
1 TGA-G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-AAGA
** *
36457821 TTTGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC
36457857 AGCACGTGTA
Statistics
Matches: 163, Mismatches: 43, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
43 5 0.03
44 46 0.28
45 16 0.10
46 21 0.13
47 57 0.35
48 16 0.10
49 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (43 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACAAGA
Found at i:36457763 original size:91 final size:90
Alignment explanation
Indices: 36457647--36457859 Score: 232
Period size: 91 Copynumber: 2.3 Consensus size: 90
36457637 GACAAGGGCT
* * *
36457647 AGTGTAAGACGTGTCTGGGACATGCATCAGCT-GCATCATGATAACCCGTGTAAGACCACGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCG-ATCATGATAACCAGTGTAAGA-CACGTCTG
* *
36457711 GGACATGGCATCGAC-GAGGTGAGTGCC
64 GGACAT-CCATCGACTAAGGTGAGTGCC
* * * * **
36457738 AGTGTAAGACATGTCTGGGACATGCATCGGTCTCGATGATGTTAGCCAGTGTAAGACGTGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCGATCATGATAACCAGTGTAAGACACGTCTGG
* * ** *
36457803 GACATCCATCGGCTAAGTTTTGTGCT
65 GACATCCATCGACTAAGGTGAGTGCC
36457829 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
36457860 ACGTGTACAC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
90 7 0.07
91 75 0.74
92 19 0.19
93 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCGATCATGATAACCAGTGTAAGACACGTCTGGG
ACATCCATCGACTAAGGTGAGTGCC
Found at i:36457790 original size:47 final size:44
Alignment explanation
Indices: 36457735--36457856 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 44
36457725 CGAGGTGAGT
*
36457735 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGATGATGTT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--AAG-TGTTGA
* * * *
36457782 GCCAGTGTAAGACGTGTCTGGGACATCCATCGGCTAAGTTTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGTGTTGA
*
36457826 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
36457857 AGCACGTGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.05
44 30 0.45
46 2 0.03
47 31 0.47
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGTGTTGA
Found at i:36464578 original size:44 final size:46
Alignment explanation
Indices: 36464376--36464593 Score: 160
Period size: 47 Copynumber: 4.7 Consensus size: 46
36464366 TAAAACGAGG
* * * * ** *
36464376 GCCAGTGTAAGACATGTCAGGAACATGCATCAGCCGCATCATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAGATGTTA
* ** *
36464422 GCCCGTGTAAGACCGCGTCTAGGACATGGCATC-GG--CATAGA-GTTGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGGCTCA-AGATGTT-A
* * *
36464468 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGTCTCGATGATGTTA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTC-AAGATGTTA
* * * *
36464517 GCCAGTGTAAGAAATGTCTGGGACATGCATC-GGCT-AAGTTTTTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAGATGTTA
*
36464561 GCTAGTGTAAGACATGTCTGGGACATGCATCAG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG
36464594 CACGTATACA
Statistics
Matches: 134, Mismatches: 26, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
44 34 0.25
45 5 0.04
46 21 0.16
47 50 0.37
48 16 0.12
49 4 0.03
50 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAGATGTTA
Found at i:36464583 original size:91 final size:94
Alignment explanation
Indices: 36464376--36464645 Score: 262
Period size: 94 Copynumber: 2.9 Consensus size: 94
36464366 TAAAACGAGG
* * * **
36464376 GCCAGTGTAAGACATGTCAGGAACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCGCGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCGCATCATGATAGCCAGTGTAAGACAACGTC
36464441 TAGGACATGGCATCGGCATAGAGTTGAGT
66 TAGGACATGGCATCGGCATAGAGTTGAGT
* * * *
36464470 GCCAGTGTAAGACATGTTTGGGACATGCATCAGTCTCG-ATGATGTTAGCCAGTGTAAGA-AATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-C-CGCATCATGATAGCCAGTGTAAGACAACG
* ***
36464533 TCTGGGACAT-GCATCGGC-TA-AGTTTTTT
64 TCTAGGACATGGCATCGGCATAGAGTTGAGT
* * * * * * * *
36464561 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATACACGAAAGCTAGTGTATGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CGCAT-CATGATAGCCAGTGTAAGACAACG
* *
36464626 TCTGGGACATGGCAGCGGCA
64 TCTAGGACATGGCATCGGCA
36464646 ACTTAACCCA
Statistics
Matches: 145, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
90 3 0.02
91 38 0.26
92 15 0.10
93 21 0.14
94 47 0.32
95 19 0.13
96 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCGCATCATGATAGCCAGTGTAAGACAACGTC
TAGGACATGGCATCGGCATAGAGTTGAGT
Found at i:36465483 original size:55 final size:55
Alignment explanation
Indices: 36465403--36465523 Score: 144
Period size: 55 Copynumber: 2.2 Consensus size: 55
36465393 CTTAAACTTT
*
36465403 TAAA-TCAGTATTGTCCATGGTTAAGCCACAC-GGACGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGTCCATGGTTAAGCCACACAGGA-GTGTGCCATAGCCGTGCCC
* *
36465456 TATAAGTCAGTATTGCTCACA-GG-TAAGCCACACAGGAGTGTGTCATAGGCGTGCCC
1 TA-AAGTCAGTATTG-TC-CATGGTTAAGCCACACAGGAGTGTGCCATAGCCGTGCCC
36465512 TAAAGTCAGTAT
1 TAAAGTCAGTAT
36465524 CGCACATGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 43 0.73
56 10 0.17
57 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (55 bp):
TAAAGTCAGTATTGTCCATGGTTAAGCCACACAGGAGTGTGCCATAGCCGTGCCC
Found at i:36469418 original size:93 final size:93
Alignment explanation
Indices: 36469310--36469481 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
36469300 GCCCATAAGT
* * *
36469310 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCAGACTCAACTCAACAAGCTC-GGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
36469374 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
36469403 GAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
* *
36469468 CGAGTTCTGATGCC
66 CGAGCTCGGATGCC
36469482 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:36469474 original size:46 final size:44
Alignment explanation
Indices: 36469302--36469471 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 44
36469292 TGTAACCCGC
* *
36469302 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GGCATTC-CAT
*
36469348 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCATTCC-A--T
* *** * *
36469394 ACATCTCTCGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGG-CATTC-CAT
*
36469441 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
36469472 TTCTGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 59 0.58
47 31 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCATTCCAT
Found at i:36473595 original size:49 final size:49
Alignment explanation
Indices: 36473537--36473663 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
36473527 CATTAAAGTA
*
36473537 GATGCCATGTCCCAAATAGGTCTTACACTGACTTTCATATAATGAGT-TC
1 GATGCCATGTCCCAAATAGGTCTTACACTGACTCTCAT-TAATGAGTGTC
* * * **
36473586 GATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTTGTGTC
1 GATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATTAATGAGTGTC
* *
36473635 GATGTCATGTCCCAGATAGGTCTTACACT
1 GATGCCATGTCCCAAATAGGTCTTACACT
36473664 AGCTTGTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 5 0.07
49 63 0.93
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
GATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATTAATGAGTGTC
Found at i:36473706 original size:48 final size:45
Alignment explanation
Indices: 36473634--36473807 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
36473624 TTATTTGTGT
* *
36473634 CGATGTCATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTT-TATAT-T-GAGGC
* * * * *
36473683 CGATGCATGTCCCAGATATGTCTTAAACTAGCTCTTATTTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATTGAGGC
* * * *
36473729 CGATGCATGTCCTAGACATGTCTTACACTGGCTTTCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTT-ATATTGAGGC
* * *
36473775 CAATACATGTCCTAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
36473808 CACATACCAC
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
45 2 0.02
46 67 0.63
47 1 0.01
48 30 0.28
49 6 0.06
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTTATATTGAGGC
Found at i:36474494 original size:20 final size:18
Alignment explanation
Indices: 36474457--36474507 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
36474447 CTATAACAAC
36474457 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
36474474 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
36474494 TTACAACTTTACAA
1 TCACAA-TTTACAA
36474508 AATAGCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:36477921 original size:17 final size:18
Alignment explanation
Indices: 36477901--36477934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36477891 AATATGCATG
36477901 AAAAA-CTGATTTTTATC
1 AAAAATCTGATTTTTATC
*
36477918 AAAAATGTGATTTTTAT
1 AAAAATCTGATTTTTAT
36477935 ACAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAATCTGATTTTTATC
Found at i:36478016 original size:18 final size:19
Alignment explanation
Indices: 36477980--36478017 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
36477970 TTTAAAAAAT
*
36477980 ATAATCTAACTTTTCCTAA
1 ATAATCTAACTTTTACTAA
*
36477999 ATAAT-TAATTTTTACTAA
1 ATAATCTAACTTTTACTAA
36478017 A
1 A
36478018 GAAGTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATCTAACTTTTACTAA
Found at i:36487180 original size:23 final size:23
Alignment explanation
Indices: 36487154--36487202 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
36487144 TGTTTTATAG
*
36487154 TTTTTAATTATTATTTGATAAA-A
1 TTTTGAATTATTATTT-ATAAATA
* *
36487177 TTTTGAGTTCTTATTTATAAATA
1 TTTTGAATTATTATTTATAAATA
36487200 TTT
1 TTT
36487203 AAAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTTGAATTATTATTTATAAATA
Found at i:36491785 original size:26 final size:25
Alignment explanation
Indices: 36491722--36491786 Score: 62
Period size: 28 Copynumber: 2.5 Consensus size: 25
36491712 CTTAACCCGA
*
36491722 ATATA-TTATATTATAAATATAATT
1 ATATATTTATATTATAAATATAAAT
36491746 ATATTAATTATATATGT-TAAATAATAAAT
1 ATA-T-ATT-TATAT-TATAAAT-ATAAAT
36491775 ATATATTTATAT
1 ATATATTTATAT
36491787 CAAATCACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 6 0.18
27 4 0.12
28 11 0.32
29 9 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATATTTATATTATAAATATAAAT
Found at i:36494839 original size:23 final size:21
Alignment explanation
Indices: 36494798--36494841 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
36494788 ATATAAGTAT
36494798 AAATAATTATATAAACAAATA
1 AAATAATTATATAAACAAATA
*
36494819 AAATAACTTAATATAAGCAAATA
1 AAATAA-TT-ATATAAACAAATA
36494842 TTTATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATTATATAAACAAATA
Found at i:36494850 original size:16 final size:16
Alignment explanation
Indices: 36494829--36494862 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
36494819 AAATAACTTA
*
36494829 ATATAAGCAAATATTT
1 ATATAACCAAATATTT
36494845 ATATAACCAAATATTT
1 ATATAACCAAATATTT
36494861 AT
1 AT
36494863 TTTATGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (16 bp):
ATATAACCAAATATTT
Found at i:36499838 original size:19 final size:19
Alignment explanation
Indices: 36499814--36499855 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
36499804 CATTCGGCTA
* *
36499814 TGTGGAACGCCCCAGACCG
1 TGTGGAACACCCCAAACCG
36499833 TGTGGAACACCCCAAACCG
1 TGTGGAACACCCCAAACCG
36499852 TGTG
1 TGTG
36499856 ACTTTCGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
TGTGGAACACCCCAAACCG
Found at i:36500035 original size:19 final size:19
Alignment explanation
Indices: 36500011--36500052 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
36500001 CATTCGGCTA
* *
36500011 TGTGGAACGCCCCAGACCG
1 TGTGGAACACCCCAAACCG
36500030 TGTGGAACACCCCAAACCG
1 TGTGGAACACCCCAAACCG
36500049 TGTG
1 TGTG
36500053 ACTTTTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
TGTGGAACACCCCAAACCG
Found at i:36500065 original size:197 final size:197
Alignment explanation
Indices: 36499728--36500121 Score: 761
Period size: 197 Copynumber: 2.0 Consensus size: 197
36499718 AGAAATAATC
36499728 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
1 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
36499793 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
66 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
36499858 TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
131 TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
36499923 AT
196 AT
*
36499925 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTTAGGAAATTTTAAGAAAATATGAAAATTTTCA
1 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
36499990 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
66 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
* *
36500055 TTTTGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCCTTGCAACTCACTAACTTG
131 TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
36500120 AT
196 AT
36500122 ACACACACCC
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (197 bp):
TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
AT
Found at i:36503988 original size:43 final size:44
Alignment explanation
Indices: 36503837--36503988 Score: 170
Period size: 43 Copynumber: 3.5 Consensus size: 44
36503827 GATTAACAAG
** *
36503837 ATGTGATTATGTGTAAGACCAT-GTCTGAGACATTGGCATC-ATT
1 ATGTGATTACATGTAAGACCATAGTCTGGGACATTGGCATCGA-T
* *
36503880 ATGTGATTACGTGTAAGACCAT-GTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATAGTCTGGGACATTGGCATCGAT
* * *
36503923 ATTTGATTTCATGCAAGACCATAGT-TGGG-CTATTGGCATCGAT
1 ATGTGATTACATGTAAGACCATAGTCTGGGAC-ATTGGCATCGAT
*
36503966 ATGTGATAACATGTAAGACCATA
1 ATGTGATTACATGTAAGACCATA
36503989 TCTAAGATAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 91 0.97
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATAGTCTGGGACATTGGCATCGAT
Found at i:36506366 original size:58 final size:58
Alignment explanation
Indices: 36506276--36506395 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
36506266 AAGGATACTC
36506276 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
1 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
36506334 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
1 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
36506392 GGGA
1 GGGA
36506396 TCACATATCG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (58 bp):
GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
Found at i:36506410 original size:48 final size:48
Alignment explanation
Indices: 36506357--36506537 Score: 169
Period size: 48 Copynumber: 3.9 Consensus size: 48
36506347 CACATGGTAG
*
36506357 GATGCCAATGCCATATCCTGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCTGGACATGGTCTTACATGGGATCACATATC
* **
36506405 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCTGGACATGGTCTTACATGGGATCACATATC
* * * * ** *
36506453 GATGCC---G--ATAGCCTAG-CTATAGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATATCCTGGAC-ATGGTCTTACATGGGATCACATATC
* * *
36506496 GATGCCAAAGCCATGTCCCAGG-CATGGTCTTACATGGGATCA
1 GATGCCAATGCCATAT-CCTGGACATGGTCTTACATGGGATCA
36506538 TACATAACCC
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 32 0.30
45 1 0.01
46 1 0.01
48 66 0.63
49 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCTGGACATGGTCTTACATGGGATCACATATC
Found at i:36513160 original size:40 final size:40
Alignment explanation
Indices: 36513079--36513338 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
36513069 AAACCAAGTA
** * *
36513079 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
36513118 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
36513158 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
36513198 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
36513238 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
36513278 CCTTCGGG-CTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
36513317 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
36513339 CAATCCGAAT
Statistics
Matches: 205, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 63 0.31
40 142 0.69
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:36515673 original size:29 final size:29
Alignment explanation
Indices: 36515617--36515743 Score: 170
Period size: 29 Copynumber: 4.4 Consensus size: 29
36515607 TAGTAAGTCT
*
36515617 GCACACTTAGTG-TTATATAATCAAACTC
1 GCACACTTAGTGCTTACATAATCAAACTC
36515645 GCACACTTAGTGCTTACATAATCAAACTC
1 GCACACTTAGTGCTTACATAATCAAACTC
*
36515674 GCACACTTAGTGC-TACATAATCAAACTT
1 GCACACTTAGTGCTTACATAATCAAACTC
* * * *
36515702 GCACACTTAGTGCTATGCA-ATTTAAACCC
1 GCACACTTAGTGCT-TACATAATCAAACTC
36515731 GCACACTTAGTGC
1 GCACACTTAGTGC
36515744 CAATCTCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
28 39 0.44
29 47 0.53
30 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCTTACATAATCAAACTC
Found at i:36515694 original size:57 final size:57
Alignment explanation
Indices: 36515617--36515743 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
36515607 TAGTAAGTCT
* * *
36515617 GCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAACCC
* * * *
36515674 GCACACTTAGTGCTACATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAACCC
1 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAAATCAAACCC
36515731 GCACACTTAGTGC
1 GCACACTTAGTGC
36515744 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 59 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (57 bp):
GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAAATCAAACCC
Found at i:36523421 original size:28 final size:29
Alignment explanation
Indices: 36523389--36523487 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
36523379 TATATAAGCC
*
36523389 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
36523417 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
36523445 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
36523474 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36523488 CAATCTATGA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:36530025 original size:47 final size:48
Alignment explanation
Indices: 36529971--36530105 Score: 184
Period size: 47 Copynumber: 2.8 Consensus size: 48
36529961 GCCGAAGCTA
36529971 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACAC-GACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGGACC-ACAGT
* * *
36530018 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACG-GACCACAG--T
*
36530069 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA
36530106 TGCGACCTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
47 36 0.47
48 4 0.05
49 3 0.04
51 34 0.44
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (48 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGGACCACAGT
Found at i:36530097 original size:51 final size:47
Alignment explanation
Indices: 36529974--36530105 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 47
36529964 GAAGCTATCT
*
36529974 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGACCAACAGTCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGACCAACAGTCG
* * *
36530021 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACAC--GACCAACAG---TCG
36530072 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
36530106 TGCGACCTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
47 33 0.45
48 4 0.05
49 3 0.04
51 34 0.46
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGACCAACAGTCG
Found at i:36572778 original size:45 final size:45
Alignment explanation
Indices: 36572714--36572825 Score: 151
Period size: 45 Copynumber: 2.5 Consensus size: 45
36572704 TCGTACAGTG
* * *
36572714 CTATTCGGGCCTTGGAGCCTAGCAGCCTATAATGCCGGTGAGAT-A
1 CTATTCGGGCCTTCGAGCCTAGCAG-CTATAATGCCAGTGAAATGA
36572759 CTATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCCAGTGAAATGA
1 CTATTCGGGCCTTCGAGCCTAGC-AGCTATAATGCCAGTGAAATGA
36572805 -TA-TCGGG-CTTCGAGCCTAGCA
1 CTATTCGGGCCTTCGAGCCTAGCA
36572826 TGCGAAATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
42 1 0.02
43 13 0.21
44 5 0.08
45 40 0.65
46 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (45 bp):
CTATTCGGGCCTTCGAGCCTAGCAGCTATAATGCCAGTGAAATGA
Found at i:36581154 original size:79 final size:80
Alignment explanation
Indices: 36581054--36581238 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
36581044 GCTCCTCGTT
* * *
36581054 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
36581117 GGATTTAGTAACTCA-CA
63 GGATATAGTAACTCAGCA
* **
36581134 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* * *
36581199 TATGGTCACTTAGCA
66 TATAGTAACTCAGCA
36581214 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
36581239 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.65
80 29 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTCAGCA
Found at i:36581238 original size:40 final size:41
Alignment explanation
Indices: 36581054--36581238 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 41
36581044 GCTCCTCGTT
* * * *
36581054 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
36581094 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* *
36581134 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTAGCA
* * *
36581173 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
36581214 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36581239 CATCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 76 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:36586081 original size:27 final size:27
Alignment explanation
Indices: 36586050--36586198 Score: 174
Period size: 27 Copynumber: 5.5 Consensus size: 27
36586040 TAAATTGTAC
36586050 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36586077 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36586103 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36586131 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* **
36586159 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGATTTGACTATGT
36586186 AGCACTAAGTGTG
1 AGCACTAAGTGTG
36586199 TGTAACACCC
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 80 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36586111 original size:54 final size:55
Alignment explanation
Indices: 36586050--36586198 Score: 176
Period size: 55 Copynumber: 2.7 Consensus size: 55
36586040 TAAATTGTAC
*
36586050 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* * ** ** *
36586103 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* **
36586159 AGCACTAAGTGTGCGATTTGATTACATAGCACTAAGTGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTG
36586199 TGTAACACCC
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.48
55 39 0.49
56 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
Found at i:36587579 original size:27 final size:27
Alignment explanation
Indices: 36587549--36587726 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36587539 ATATTGAGTC
* * * *
36587549 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36587576 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36587603 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36587631 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36587658 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36587685 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36587712 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36587727 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36587688 original size:82 final size:81
Alignment explanation
Indices: 36587570--36587725 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36587560 TGCTATATAA
* *
36587570 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36587635 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36587652 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36587716 CACTTAGTGC
65 CACTTAGTGC
36587726 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36587738 original size:82 final size:83
Alignment explanation
Indices: 36587549--36587738 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
36587539 ATATTGAGTC
* * * * *
36587549 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
36587613 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
36587631 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
36587692 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
36587712 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
36587739 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:36595673 original size:27 final size:27
Alignment explanation
Indices: 36595643--36595819 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
36595633 TATTGAGTCT
* * * *
36595643 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
36595670 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
36595697 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
36595725 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
36595752 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
36595779 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
36595806 GCACACTTAGTGCT
1 GCACACTTAGTGCT
36595820 GTACAATTCA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:36595781 original size:82 final size:81
Alignment explanation
Indices: 36595663--36595818 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36595653 TGCTATATAA
* *
36595663 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36595728 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36595745 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36595809 CACTTAGTGC
65 CACTTAGTGC
36595819 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36595831 original size:82 final size:83
Alignment explanation
Indices: 36595643--36595831 Score: 219
Period size: 82 Copynumber: 2.3 Consensus size: 83
36595633 TATTGAGTCT
* * * * *
36595643 GCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 GCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
*
36595707 TGCTACATAGTCAAACTC
66 TGCAACATAGTCAAACTC
* * **
36595725 GCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACT
1 GCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACACT
36595786 TAGTGCAACATAGTCAAA-TC
63 TAGTGCAACATAGTCAAACTC
36595806 GCACACTTAGTGCTGTACAATTCAAT
1 GCACACTTAGTGCTGTACAATTCAAT
36595832 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 68 0.76
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
GCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
TGCAACATAGTCAAACTC
Found at i:36603074 original size:16 final size:17
Alignment explanation
Indices: 36603053--36603084 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
36603043 CAAATCTATA
36603053 AAACAGAGT-AGCAATG
1 AAACAGAGTAAGCAATG
36603069 AAACAGAGTAAGCAAT
1 AAACAGAGTAAGCAAT
36603085 TTATGCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.12
Consensus pattern (17 bp):
AAACAGAGTAAGCAATG
Found at i:36603527 original size:79 final size:81
Alignment explanation
Indices: 36603424--36603608 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
36603414 GCTCCTCGTT
** **
36603424 CAAATGCCTTCGGGACACAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
36603488 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
36603504 CAAATGCCTTCGGG-CTTAGCCCGGAAATAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
36603568 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
36603584 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36603609 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:36603608 original size:40 final size:40
Alignment explanation
Indices: 36603424--36603608 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 40
36603414 GCTCCTCGTT
** *
36603424 CAAATGCCTTCGGGACACAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
36603464 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
36603504 CAAATGCCTTCGGG-CTTAGCCCGGAAATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
36603543 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
36603584 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36603609 CATCATTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 80 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:36605793 original size:61 final size:61
Alignment explanation
Indices: 36605698--36605822 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
36605688 GCCGAATCGA
36605698 GACTGTTCGAAAATATATGAGGTAAGTTTTAAGAAGTTAAATATAAATAATATTCGATAAT
1 GACTGTTCGAAAATATATGAGGTAAGTTTTAAGAAGTTAAATATAAATAATATTCGATAAT
*
36605759 GACTGTTCGAAAATATTTGAGGTAAGTTTTAAGAAGTTAAATATAAATAATATTCGATAAT
1 GACTGTTCGAAAATATATGAGGTAAGTTTTAAGAAGTTAAATATAAATAATATTCGATAAT
36605820 GAC
1 GAC
36605823 ATGACAGATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (61 bp):
GACTGTTCGAAAATATATGAGGTAAGTTTTAAGAAGTTAAATATAAATAATATTCGATAAT
Found at i:36606161 original size:45 final size:45
Alignment explanation
Indices: 36606097--36606229 Score: 230
Period size: 45 Copynumber: 3.0 Consensus size: 45
36606087 TATCGTACAG
*
36606097 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
36606142 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
36606187 TACTATTTGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
36606230 AATGATATCG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 84 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:36615229 original size:56 final size:56
Alignment explanation
Indices: 36615138--36615260 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
36615128 GAGATTGGCG
* * *
36615138 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
36615195 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
36615250 CTGAGTGTGCG
1 CTAAGTGTGCG
36615261 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:36615247 original size:27 final size:28
Alignment explanation
Indices: 36615138--36615260 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
36615128 GAGATTGGCG
* * * *
36615138 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
36615167 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
36615195 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
36615223 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
36615250 CTGAGTGTGCG
1 CTAAGTGTGCG
36615261 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:36615271 original size:27 final size:27
Alignment explanation
Indices: 36615163--36615273 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
36615153 TAAATTGTAC
* * *
36615163 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36615191 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36615219 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
36615246 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
36615273 A
1 A
36615274 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36617767 original size:27 final size:27
Alignment explanation
Indices: 36617728--36617819 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
36617718 GGAAGCGTCT
*
36617728 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
36617755 TGGTGGCTCTGCCACATATT-TCTGTTC
1 TGGTGGCTCTGCCACA-ATTATCTGATC
* * *
36617782 TGGTGGTTCTACCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
*
36617810 TGGTGACTCT
1 TGGTGGCTCT
36617820 TTTACATTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.06
27 38 0.70
28 13 0.24
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:36637387 original size:54 final size:54
Alignment explanation
Indices: 36637305--36637414 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
36637295 TTCGAGTAAT
36637305 GAAACTTAGTTTACGATTTGATTAAGTCATGAAGTATAATCATAACAAATATAC
1 GAAACTTAGTTTACGATTTGATTAAGTCATGAAGTATAATCATAACAAATATAC
36637359 GAAACTTAGTTTACGATTTGATTAAGTCATGAAGTATAATCATAACAAATATAC
1 GAAACTTAGTTTACGATTTGATTAAGTCATGAAGTATAATCATAACAAATATAC
36637413 GA
1 GA
36637415 TGATATAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.33
Consensus pattern (54 bp):
GAAACTTAGTTTACGATTTGATTAAGTCATGAAGTATAATCATAACAAATATAC
Found at i:36637712 original size:40 final size:40
Alignment explanation
Indices: 36637654--36637869 Score: 278
Period size: 40 Copynumber: 5.4 Consensus size: 40
36637644 GATGATAACG
* * *
36637654 GGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
36637694 GGACTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
36637734 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
36637774 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
36637814 GGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
36637854 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
36637870 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:36643951 original size:9 final size:9
Alignment explanation
Indices: 36643937--36644080 Score: 59
Period size: 9 Copynumber: 16.0 Consensus size: 9
36643927 TAACTATAAT
36643937 TAAGTTATG
1 TAAGTTATG
36643946 TAAGTTATG
1 TAAGTTATG
* * *
36643955 ATATGATATA
1 -TAAGTTATG
*
36643965 T-ATTTATG
1 TAAGTTATG
36643973 T-A-TTATG
1 TAAGTTATG
*
36643980 TAAGCTATG
1 TAAGTTATG
*
36643989 TAAATTATG
1 TAAGTTATG
*
36643998 TGAGTTATCCG
1 TAAGTTAT--G
36644009 -AA-TTATG
1 TAAGTTATG
*
36644016 TAAATTATG
1 TAAGTTATG
*
36644025 TAAGATATGATA
1 TAAG-T-T-ATG
*
36644037 TATATTTATG
1 TA-AGTTATG
*
36644047 T-A-TAATG
1 TAAGTTATG
36644054 TAAGTTATG
1 TAAGTTATG
*
36644063 TAAATTATG
1 TAAGTTATG
*
36644072 TAAGATATG
1 TAAGTTATG
36644081 ATATCTATCT
Statistics
Matches: 100, Mismatches: 22, Indels: 26
0.68 0.15 0.18
Matches are distributed among these distances:
7 12 0.12
8 10 0.10
9 58 0.58
10 11 0.11
11 3 0.03
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:36644074 original size:18 final size:18
Alignment explanation
Indices: 36643974--36644080 Score: 74
Period size: 18 Copynumber: 5.8 Consensus size: 18
36643964 ATATTTATGT
*
36643974 ATTATGTAAGCTATGTAA
1 ATTATGTAAGTTATGTAA
* ***
36643992 ATTATGTGAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
36644010 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
36644028 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
*
36644048 ATAATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
36644066 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
36644081 ATATCTATCT
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
16 7 0.11
17 4 0.06
18 39 0.59
19 4 0.06
20 1 0.02
21 4 0.06
22 7 0.11
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:36644316 original size:17 final size:17
Alignment explanation
Indices: 36644294--36644342 Score: 84
Period size: 16 Copynumber: 3.0 Consensus size: 17
36644284 GAGATTATGG
36644294 AAAATCACATGGAAAAA
1 AAAATCACATGGAAAAA
36644311 AAAATCACATGG-AAAA
1 AAAATCACATGGAAAAA
36644327 AAAATCACAT-GAAAAA
1 AAAATCACATGGAAAAA
36644343 TAATCTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.03
16 18 0.58
17 12 0.39
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATCACATGGAAAAA
Found at i:36647681 original size:47 final size:47
Alignment explanation
Indices: 36647630--36648008 Score: 616
Period size: 47 Copynumber: 8.1 Consensus size: 47
36647620 TTCCACGTTT
* **
36647630 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
36647677 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
36647724 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
36647771 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
36647818 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
**
36647865 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
36647912 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* **
36647959 ATCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
36648006 ATC
1 ATC
36648009 TCATAAAATC
Statistics
Matches: 308, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 306 0.99
48 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:36647891 original size:22 final size:22
Alignment explanation
Indices: 36647628--36647892 Score: 60
Period size: 23 Copynumber: 11.4 Consensus size: 22
36647618 ACTTCCACGT
* *
36647628 TTATCACATTAGCCATTCTACC
1 TTATCACATTGGCCATTCCACC
* *
36647650 TTATCACACATAT-G-CATGTTCACA
1 TTAT--CACAT-TGGCCAT-TCCACC
**
36647674 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCCACC
* *
36647697 TTATCACACATAT-G-CATGTTCACA
1 TTAT--CACAT-TGGCCAT-TCCACC
**
36647721 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCCACC
* *
36647744 TTATCACACATAT-G-CATGTTCACA
1 TTAT--CACAT-TGGCCAT-TCCACC
**
36647768 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCCACC
* *
36647791 TTATCACACATAT-G-CATGTTCACA
1 TTAT--CACAT-TGGCCAT-TCCACC
**
36647815 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCCACC
*** *
36647838 TTATCACATATATACACTTCCACGT
1 TTATCACAT-TGGCCA-TTCCAC-C
*
36647863 TTATCACATTGGCCATTCTACC
1 TTATCACATTGGCCATTCCACC
36647885 TTATCACA
1 TTATCACA
36647893 CATATGCATG
Statistics
Matches: 170, Mismatches: 42, Indels: 62
0.62 0.15 0.23
Matches are distributed among these distances:
22 29 0.17
23 60 0.35
24 60 0.35
25 21 0.12
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
TTATCACATTGGCCATTCCACC
Found at i:36647916 original size:25 final size:25
Alignment explanation
Indices: 36647887--36647964 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
36647877 ATTCTACCTT
36647887 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
36647912 AT--CACAT-TGACCA--TTCGGCCTT-
1 ATCACACATATG--CATGTTC-ACATTC
36647934 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
36647959 ATCACA
1 ATCACA
36647965 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 10 0.25
25 13 0.32
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:36651469 original size:40 final size:40
Alignment explanation
Indices: 36651411--36651488 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
36651401 TTTAGTGGCG
* *
36651411 TTTTACAAAAGCATCGCTAAATCTCAATCTTTTGCGGCAT
1 TTTTACAAAAGCACCGCTAAATCTCAATCTTTAGCGGCAT
* * *
36651451 TTTTACAAAAGCGCCGCTAATTCTCTATCTTTAGCGGC
1 TTTTACAAAAGCACCGCTAAATCTCAATCTTTAGCGGC
36651489 GTTGCCTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (40 bp):
TTTTACAAAAGCACCGCTAAATCTCAATCTTTAGCGGCAT
Found at i:36651706 original size:15 final size:15
Alignment explanation
Indices: 36651665--36651715 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
36651655 TTTTAAAAAA
*
36651665 ATTTAATTATATTGAAT
1 ATTTAA-TAT-TTAAAT
* *
36651682 AATTATTATTTAAAT
1 ATTTAATATTTAAAT
36651697 ATTTAATATTTAAAT
1 ATTTAATATTTAAAT
36651712 -TTTA
1 ATTTA
36651716 GGTAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.14
15 18 0.62
16 3 0.10
17 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTAATATTTAAAT
Found at i:36652635 original size:38 final size:40
Alignment explanation
Indices: 36652563--36652651 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 40
36652553 ACAAACCCGG
*
36652563 CCTATACCATAAACTTAACATATATACTATACCATTCAAC
1 CCTAAACCATAAACTTAACATATATACTATACCATTCAAC
* * * *
36652603 CTTAAACCATAAACTTAA-A-ATATATTCTACCATTGAAC
1 CCTAAACCATAAACTTAACATATATACTATACCATTCAAC
36652641 CCTAAACCATA
1 CCTAAACCATA
36652652 GGCCTTAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 26 0.60
39 1 0.02
40 16 0.37
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (40 bp):
CCTAAACCATAAACTTAACATATATACTATACCATTCAAC
Found at i:36652866 original size:21 final size:22
Alignment explanation
Indices: 36652848--36652888 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36652838 ATGTTTTAGA
*
36652848 ATTTAAGGTTT-AGGGTTTAAT
1 ATTTAAGATTTAAGGGTTTAAT
*
36652869 GTTTAAGATTTAAGGGTTTA
1 ATTTAAGATTTAAGGGTTTA
36652889 CAAAAAGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
ATTTAAGATTTAAGGGTTTAAT
Found at i:36657133 original size:41 final size:41
Alignment explanation
Indices: 36657067--36657482 Score: 475
Period size: 41 Copynumber: 10.2 Consensus size: 41
36657057 CGTTTAGACA
** * *
36657067 AAAAACGTGGCTATTGATCAG-TTTTAGTGGCGTTTAGACC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
* * * * ** *
36657107 AAAAACGCC-ATAGTTGCTCAATTTTTAGTGGTGTTTTAAG-T
1 AAAAACGCCGCTA-TTGATCAGTTTTTAGTGGCG-TTTGGGCC
* * *
36657148 AAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTGGACC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
* * * *
36657188 AAAAACGCTGCTATTGCTCAGTTTTTAATGGTGTTTGGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
* *
36657229 AAAAATGCCGCTATTGATCAGGTTTTTAGTGGTGTTT-GGCC
1 AAAAACGCCGCTATTGATCA-GTTTTTAGTGGCGTTTGGGCC
* * *
36657270 AAAAACGCCGCTATTCATAAGTTTTTAGTGGCGCTTGGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
** * *
36657311 AAAAACGCTTCAATTGATTAGTTTTTAGTGGCGTTT-GGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
*
36657351 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
** *
36657392 AAAAACGCTTCTATTGATCAGTTTTTAGTGGCATTTGGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
*
36657433 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
36657474 AAAAACGCC
1 AAAAACGCC
36657483 ACTGTAACAC
Statistics
Matches: 315, Mismatches: 52, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
39 5 0.02
40 90 0.29
41 199 0.63
42 21 0.07
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
Found at i:36657154 original size:81 final size:80
Alignment explanation
Indices: 36657067--36657469 Score: 219
Period size: 81 Copynumber: 5.0 Consensus size: 80
36657057 CGTTTAGACA
** * *
36657067 AAAAACGTGGCTATTGATCAGTTTTAGTGGCGTTTAGACCAAAAACGC-CATAGTTGCTCAATTT
1 AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTAGACCAAAAACGCGC-TA-TTGCTCAATTT
*
36657131 TTAGTGGTGTTTTAAGT
64 TTAATGGTGTTTTAAGT
* *
36657148 AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTGGACCAAAAACGCTGCTATTGCTCAGTTTT
1 AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTAGACCAAAAACGC-GCTATTGCTCAATTTT
** *
36657213 TAATGGTG-TTTGGGCC
65 TAATGGTGTTTTAAG-T
* * * * *
36657229 AAAAATGCCGCTATTGATCAGGTTTTTAGTGGTGTTT-GGCCAAAAACGCCGCTATT-CAT-AAG
1 AAAAACGCCGCTATTGAT-AAG-TTTTAATGGCGTTTAGACCAAAAACG-CGCTATTGC-TCAA-
* * * ** *
36657291 TTTTTAGTGGCG-CTTGGGCC
61 TTTTTAATGGTGTTTTAAG-T
** * * * * * *
36657311 AAAAACGCTTCAATTGATTAGTTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTT
1 AAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTAGACCAAAAACG-CGCTATTGCTCAATTT
* * **
36657375 TTAGTGGCG-TTTGGGCT
64 TTAATGGTGTTTTAAG-T
** * * * * * * *
36657392 AAAAACGCTTCTATTGATCAGTTTTTAGTGGCATTTGGGCCAAAAACGCCGCTATTGATCAGTTT
1 AAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTAGACCAAAAACG-CGCTATTGCTCAATTT
* *
36657457 TTAGTGGCGTTTT
64 TTAATGGTGTTTT
36657470 GGCCAAAAAC
Statistics
Matches: 277, Mismatches: 33, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
80 4 0.01
81 166 0.60
82 90 0.32
83 17 0.06
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (80 bp):
AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTAGACCAAAAACGCGCTATTGCTCAATTTTT
AATGGTGTTTTAAGT
Found at i:36657280 original size:122 final size:122
Alignment explanation
Indices: 36657067--36657482 Score: 493
Period size: 122 Copynumber: 3.4 Consensus size: 122
36657057 CGTTTAGACA
* * * *
36657067 AAAAACG-TGGCTATTGATCAG-TTTTAGTGGCGTTTAGACCAAAAACGCC-ATAGTTGCTCAAT
1 AAAAACGCT-GCTATTGATCAGTTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTA-TTGATCAGT
* ** * * *
36657129 TTTTAGTGGTGTTTTAAG-TAAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTGGACC
63 TTTTAGTGGCG-TTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
* * * *
36657188 AAAAACGCTGCTATTGCTCAGTTTTTAATGGTGTTTGGGCCAAAAATGCCGCTATTGATCAGGTT
1 AAAAACGCTGCTATTGATCAGTTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTATTGATCA-GTT
* * *
36657253 TTTAGTGGTGTTT-GGCCAAAAACGCCGCTATTCATAAGTTTTTAGTGGCGCTTGGGCC
64 TTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
* * *
36657311 AAAAACGCTTCAATTGATTAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTT
1 AAAAACGCTGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTT
* ** * *
36657376 TAGTGGCGTTTGGGCTAAAAACGCTTCTATTGATCAGTTTTTAGTGGCATTTGGGCC
66 TAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
*
36657433 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCC
1 AAAAACGCTGCTATTGATCAGTTTTTAGTGGCG-TTTGGCCAAAAACGCC
36657483 ACTGTAACAC
Statistics
Matches: 253, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
121 34 0.13
122 143 0.57
123 76 0.30
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (122 bp):
AAAAACGCTGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTT
TAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
Found at i:36658909 original size:93 final size:93
Alignment explanation
Indices: 36658800--36658968 Score: 248
Period size: 93 Copynumber: 1.8 Consensus size: 93
36658790 CCCATAAGCG
* * * ** * * *
36658800 AACTCGGACTCAACTCAATGAGATCGGGTGTTCTCATCCATAAGTGAACTCGAACTTAACTTAAC
1 AACTCAGACTCAACTCAACGAGATCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
36658865 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* *
36658893 AACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAT
1 AACTCAGACTCAACTCAACGAGATCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
36658958 GAGTTCGGATG
66 GAGTTCGGATG
36658969 TTCGCATCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGATCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:36659011 original size:46 final size:46
Alignment explanation
Indices: 36658791--36659014 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 46
36658781 TGTAACCCGC
* * * * *
36658791 CCATAAGCGAACTCGGACTCAACTCAATGAGATCGGGTGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * * *
36658837 CCATAAGTGAACTCGAACTTAACTTAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * ** * * *
36658883 ACATTTCA-CAAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
36658930 CCATAAGTGAACTCGAACTCAACTCAATGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
36658976 CCATAAGTGAACTCGGACTCAACTCAACGATTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
36659015 CCCAAATATC
Statistics
Matches: 137, Mismatches: 36, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
45 2 0.01
46 105 0.77
47 28 0.20
48 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:36660755 original size:43 final size:44
Alignment explanation
Indices: 36660687--36660859 Score: 159
Period size: 43 Copynumber: 4.1 Consensus size: 44
36660677 CCATATAGTA
* *
36660687 CAATGCCAAC-GTCTCAGAC-GTGGTCTTACACATAATCACATAT
1 CAATGCCAACTGTCCCAGACAG-GGTCTTACACAGAATCACATAT
* *
36660730 CAATGCC-ACTGTCCTAGACAGGGTCTTACAC-GAATCAAATAT
1 CAATGCCAACTGTCCCAGACAGGGTCTTACACAGAATCACATAT
* * * *
36660772 -GATGCCGA-TGTCCCAAACATGGTCTTACAC-GTAATCACATAT
1 CAATGCCAACTGTCCCAGACAGGGTCTTACACAG-AATCACATAT
*
36660814 CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAGAA-CACATAT
1 CAATGCCAACTGTCCCAGACAG-GGTCTTACAC-AGAATCACATAT
36660857 CAA
1 CAA
36660860 AAATCCTATG
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 25 0.23
42 21 0.19
43 58 0.54
44 3 0.03
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
CAATGCCAACTGTCCCAGACAGGGTCTTACACAGAATCACATAT
Found at i:36661413 original size:25 final size:29
Alignment explanation
Indices: 36661348--36661414 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
36661338 TATTCATACA
36661348 AGTCCATACATTTCATTTATTTCACATTTT
1 AGTCCATA-ATTTCATTTATTTCACATTTT
* *
36661378 AGTCCCTTAATTT-ATTTTTTTCA-A-TTT
1 AGT-CCATAATTTCATTTATTTCACATTTT
36661405 AGTCC-TAATT
1 AGTCCATAATT
36661415 ATTCAAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 6 0.18
28 1 0.03
29 9 0.26
30 7 0.21
31 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.52
Consensus pattern (29 bp):
AGTCCATAATTTCATTTATTTCACATTTT
Found at i:36662939 original size:27 final size:27
Alignment explanation
Indices: 36662909--36663087 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
36662899 ATATTGAGCC
* * *
36662909 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
36662936 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
36662963 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
36662991 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
36663018 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
36663045 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAGTCA-ACT
36663072 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
36663088 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:36663048 original size:82 final size:81
Alignment explanation
Indices: 36662930--36663085 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36662920 TGCTATATAA
* *
36662930 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36662995 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
36663012 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36663076 CACTTAGTGC
65 CACTTAGTGC
36663086 TATACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36663653 original size:13 final size:13
Alignment explanation
Indices: 36663635--36663659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36663625 TACTAAATTT
36663635 TCATGGATTCAAG
1 TCATGGATTCAAG
36663648 TCATGGATTCAA
1 TCATGGATTCAA
36663660 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:36664160 original size:15 final size:15
Alignment explanation
Indices: 36664140--36664169 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36664130 AAAGGTAAGA
36664140 AAAAATCAAGTTCTT
1 AAAAATCAAGTTCTT
36664155 AAAAATCAAGTTCTT
1 AAAAATCAAGTTCTT
36664170 CTCACACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
AAAAATCAAGTTCTT
Found at i:36667551 original size:13 final size:13
Alignment explanation
Indices: 36667524--36667565 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
36667514 ACTTATTGCC
36667524 TATT-TTTTATAT
1 TATTATTTTATAT
36667536 TATATATTTT-TAT
1 TAT-TATTTTATAT
36667549 TATTATTTTAT-T
1 TATTATTTTATAT
36667561 TATTA
1 TATTA
36667566 ACCCGTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 15 0.56
13 8 0.30
14 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:36668059 original size:41 final size:42
Alignment explanation
Indices: 36667958--36668115 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
36667948 ATATAGTACA
* * * * *
36667958 ATGCCAACGTCTCAGAC-GTGGTCTTACACATAATCACATATCA
1 ATGCCAATGTCCCAGACAG-GGTCTTACAC-GAATCAAATATCG
* *
36668001 ATGCCACTGTCCTAGACAGGGTCTTACACGAATCAAATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAATCAAATATCG
** * *
36668042 ATGCTGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AATCAAATATCG
*
36668085 ATGCCAACGTCCCAGAC-GTGGTCTTACACGA
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGA
36668116 GAACACATAT
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 25 0.27
42 19 0.20
43 49 0.52
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAATCAAATATCG
Found at i:36668682 original size:25 final size:29
Alignment explanation
Indices: 36668617--36668683 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
36668607 TATTCATACA
36668617 AGTCCATACATTTCATTTATTTCACATTTT
1 AGTCCATA-ATTTCATTTATTTCACATTTT
* *
36668647 AGTCCCTTAATTT-ATTTTTTTCA-A-TTT
1 AGT-CCATAATTTCATTTATTTCACATTTT
36668674 AGTCC-TAATT
1 AGTCCATAATT
36668684 ATTCAAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 6 0.18
28 1 0.03
29 9 0.26
30 7 0.21
31 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.52
Consensus pattern (29 bp):
AGTCCATAATTTCATTTATTTCACATTTT
Found at i:36671221 original size:46 final size:46
Alignment explanation
Indices: 36671168--36671298 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
36671158 TATATATACA
* * * ***
36671168 CATCTCATACATATCTCACATTAGCCATTTTTCTTTACCCCA-TATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCCAGT-TC
* *
36671214 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCAGTTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCCAGTTC
*
36671260 CATCTCATACACATTTCGCATTAACCATTCGGCTTTACC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
36671299 ACATATATAC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 73 0.99
47 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCCAGTTC
Found at i:36671353 original size:47 final size:47
Alignment explanation
Indices: 36671284--36671703 Score: 646
Period size: 47 Copynumber: 8.9 Consensus size: 47
36671274 TTCGCATTAA
* * * * *
36671284 CCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTGG
** *
36671331 CCATTTTGCCTTATCACATATATGCATGTTCACATTCATTACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
36671378 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* *
36671425 CCATTCGGCCTTATCACACAT-TCGCATGTTCACATTCTTCACATTGG
1 CCATTCGGCCTTATCACATATAT-GCATGTTCACATTCATCACATTGG
*
36671472 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
36671519 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
*
36671566 CCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* *
36671613 CCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTTG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* * **
36671660 CCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
36671704 AAAATCCTAA
Statistics
Matches: 350, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 347 0.99
48 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
Found at i:36671396 original size:22 final size:22
Alignment explanation
Indices: 36671371--36671442 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
36671361 CACATTCATT
36671371 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
* * *
36671393 ACATATATG-CATGTTC-ACATTCATC
1 ACAT-T-GGCCA--TTCGGCCTT-ATC
36671418 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
36671440 ACA
1 ACA
36671443 CATTCGCATG
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (22 bp):
ACATTGGCCATTCGGCCTTATC
Found at i:36677772 original size:45 final size:45
Alignment explanation
Indices: 36677720--36677852 Score: 221
Period size: 45 Copynumber: 3.0 Consensus size: 45
36677710 CGATATCATT
* *
36677720 TCACCGGTATTATAGCCTTCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
36677765 TCACCGGTATTATAGCCTGCTAGGCTTAAAGGCCCGAATAGTATC
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
36677810 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
36677853 CTATACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:36677825 original size:90 final size:87
Alignment explanation
Indices: 36677679--36677852 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 87
36677669 CGAATTCATC
* * * * * *
36677679 CACCGGTATTTCGCCAGCTAGGATTGAAGCCCGATATCATTTCACCGGTATTATAGCCTTCTAGG
1 CACCGGTATTTAGCCAGCTAGGATTAAAGCCCGATATCATCTCACCGGCATCATAGCCTGCTAGG
36677744 CTCAAAAGCCCGAATAGTATCT
66 CTCAAAAGCCCGAATAGTATCT
* *
36677766 CACCGGTATTATAGCCTGCTAGGCTTAAAGGCCCGAATAGT-ATCTCACCGGCATCATAGCCTGC
1 CACCGGTATT-TAGCCAGCTAGGATTAAA-GCCCG-ATA-TCATCTCACCGGCATCATAGCCTGC
*
36677830 TAGGCTCAAAGGCCCGAATAGTA
62 TAGGCTCAAAAGCCCGAATAGTA
36677853 CTATACAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
87 10 0.14
88 14 0.19
89 5 0.07
90 44 0.59
91 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (87 bp):
CACCGGTATTTAGCCAGCTAGGATTAAAGCCCGATATCATCTCACCGGCATCATAGCCTGCTAGG
CTCAAAAGCCCGAATAGTATCT
Found at i:36678497 original size:261 final size:261
Alignment explanation
Indices: 36678033--36678556 Score: 1003
Period size: 261 Copynumber: 2.0 Consensus size: 261
36678023 TTATCATTTG
36678033 ATCATAAAAGCATATCACATTTTACTTCCATATTATATTTTCCATTCAGCCATATACATACATTA
1 ATCATAAAAGCATATCACATTTTACTTCCATATTATATTTTCCATTCAGCCATATACATACATTA
*
36678098 CAAGTAATACTTAATTCTCATAATATGTCATGTCATTATCGAATATTATTTATGTTTAACTATTT
66 CAAGTAATACTTAATTCTAATAATATGTCATGTCATTATCGAATATTATTTATGTTTAACTATTT
36678163 AAAACTTACCTCGAATATTTTCGAACAGTCTCGGATCGGCTATTCAACTACTTTCTCTTTTCCCC
131 AAAACTTACCTCGAATATTTTCGAACAGTCTCGGATCGGCTATTCAACTACTTTCTCTTTTCCCC
*
36678228 TGTCCAACCTTGGTTCTCTATGCTCTTGAGCTAATTCAAACAAATTTAATTTATTAAAGTCCCAT
196 TGTCCAACCTTGGTTCTCTATGCTCTTGAGCTAATTCAAACAAATTTAACTTATTAAAGTCCCAT
36678293 C
261 C
*
36678294 ATCATAAAAGCATATCACATTTTACTTCCATATTATATTTTCCATTCGGCCATATACATACATTA
1 ATCATAAAAGCATATCACATTTTACTTCCATATTATATTTTCCATTCAGCCATATACATACATTA
*
36678359 CAAGTAATACTTAATTCTAATAATATGTCATGTCATTATTGAATATTATTTATGTTTAACTATTT
66 CAAGTAATACTTAATTCTAATAATATGTCATGTCATTATCGAATATTATTTATGTTTAACTATTT
*
36678424 AAAACTTACCTCGAATATTTTCGAACAGTCTCGGATCGGCTATTCAACTACTTTCTCTTTTCCCT
131 AAAACTTACCTCGAATATTTTCGAACAGTCTCGGATCGGCTATTCAACTACTTTCTCTTTTCCCC
36678489 TGTCCAACCTTGGTTCTCTATGCTCTTGAGCTAATTCAAACAAATTTAACTTATTAAAGTCCCAT
196 TGTCCAACCTTGGTTCTCTATGCTCTTGAGCTAATTCAAACAAATTTAACTTATTAAAGTCCCAT
36678554 C
261 C
36678555 AT
1 AT
36678557 GCTAGCTTAT
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 258 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (261 bp):
ATCATAAAAGCATATCACATTTTACTTCCATATTATATTTTCCATTCAGCCATATACATACATTA
CAAGTAATACTTAATTCTAATAATATGTCATGTCATTATCGAATATTATTTATGTTTAACTATTT
AAAACTTACCTCGAATATTTTCGAACAGTCTCGGATCGGCTATTCAACTACTTTCTCTTTTCCCC
TGTCCAACCTTGGTTCTCTATGCTCTTGAGCTAATTCAAACAAATTTAACTTATTAAAGTCCCAT
C
Found at i:36681645 original size:20 final size:20
Alignment explanation
Indices: 36681616--36681661 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
36681606 AAAATCATCC
*
36681616 CTGAATTTCTTCAATGCTGA
1 CTGAAATTCTTCAATGCTGA
36681636 CTGAAATTCTTCAATGCTGA
1 CTGAAATTCTTCAATGCTGA
36681656 CTGAAA
1 CTGAAA
36681662 CATCTTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
CTGAAATTCTTCAATGCTGA
Found at i:36684240 original size:30 final size:30
Alignment explanation
Indices: 36684193--36684252 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36684183 TTCTCGAGCC
36684193 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* * *
36684223 TAGGGGTAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGT-GTAATTATGCAAAAGTT
36684253 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:36684989 original size:49 final size:50
Alignment explanation
Indices: 36684899--36685143 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
36684889 AGCTATTGTG
* * *
36684899 AGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
36684949 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * * **
36684999 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
36685048 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
36685098 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
36685144 GCTTCGGCTA
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
49 118 0.70
50 20 0.12
51 30 0.18
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:36685075 original size:100 final size:98
Alignment explanation
Indices: 36684902--36685143 Score: 324
Period size: 100 Copynumber: 2.4 Consensus size: 98
36684892 TATTGTGAGG
* *
36684902 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
36684967 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCAGATAA-TT-GA
* ** *
36685002 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
36685066 TAAGTGCAGGCTACTACGTGTACCAGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCAGATAATTGA
* * * *
36685100 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
36685144 GCTTCGGCTA
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
98 30 0.24
99 21 0.17
100 73 0.59
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCAGATAATTGA
Found at i:36687886 original size:16 final size:15
Alignment explanation
Indices: 36687848--36687886 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
36687838 TTGATTCTCG
*
36687848 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
36687863 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
36687878 TATTCTTGG
1 TA-TCTTGG
36687887 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:36689992 original size:30 final size:29
Alignment explanation
Indices: 36689934--36689992 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
36689924 TTCTCGAGCC
*
36689934 TAGGGGCAAAAGTGTAATTATGCAAAGTT
1 TAGGGGCAAAAGTGTAATTATCCAAAGTT
*
36689963 TAGGGGCAAAA-TGGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGT-GTAA-TTATCCAAAGTT
36689993 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.58
30 10 0.38
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAATTATCCAAAGTT
Found at i:36690816 original size:50 final size:49
Alignment explanation
Indices: 36690640--36690871 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
36690630 GCTATTGTGA
* *
36690640 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * * * *** *
36690689 GGACGCATGTGTAGTACTAAGTGCAGTCTACTATGCGTACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAA-TT
* * **
36690739 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
*
36690789 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * *
36690839 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
36690872 TGCATACCAG
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 69 0.45
50 48 0.32
51 35 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
Found at i:36694958 original size:47 final size:47
Alignment explanation
Indices: 36694889--36695224 Score: 555
Period size: 47 Copynumber: 7.1 Consensus size: 47
36694879 TATGAAATGA
36694889 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
36694936 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
36694983 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
36695030 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
36695077 TAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
36695124 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*** * * * * * * *
36695171 TGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
36695218 TGATAAG
1 TGATAAG
36695225 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 270 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:36695418 original size:38 final size:37
Alignment explanation
Indices: 36695343--36695422 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
36695333 CCGAGCTCTA
* *
36695343 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
* *
36695380 AAGACCCGATAACTTCAGTGT-GGAGATTATGTCTGGGT
1 AAGACCCGATAACTAC-GTGTGGGA-ATTATGTCCGGGT
36695418 AAGAC
1 AAGAC
36695423 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 17 0.46
38 20 0.54
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:36698608 original size:27 final size:27
Alignment explanation
Indices: 36698380--36698615 Score: 183
Period size: 27 Copynumber: 8.7 Consensus size: 27
36698370 TTCATCCTAC
* * * *
36698380 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** ** *
36698407 AAGGGTATCTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
36698434 AAAGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
**
36698462 CAAGGGTATTTCT-GTAATTTTGTAAA-T
1 -AAGGGTATTT-TGGTAATTTTACAAACT
* *
36698489 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* * *
36698517 GAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
*
36698543 CAGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
36698571 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
36698598 AAGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
36698616 CTATCCTACA
Statistics
Matches: 168, Mismatches: 34, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.02
27 135 0.80
28 16 0.10
29 14 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:36698629 original size:54 final size:55
Alignment explanation
Indices: 36698493--36698649 Score: 178
Period size: 54 Copynumber: 2.9 Consensus size: 55
36698483 GTAAATCAGG
* * * *
36698493 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTCTACAAACTAGGGGGTATTTCGGTAATTTCACAAACAAGT
* * *
36698547 GGTATTTTGGTAATTTTACAAACTA-GGGGTATTTTGGTAATTTTACAAACTAAG-
1 GGTATTTTGGTAATTCTACAAACTAGGGGGTATTTCGGTAATTTCACAAAC-AAGT
** *
36698601 GGTATTTTGGTAATTCTATCCTAC-AGGGGGTATTTCAGTAATTTCACAA
1 GGTATTTTGGTAATTCTA-CAAACTAGGGGGTATTTCGGTAATTTCACAA
36698650 TCGAGGGTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
54 62 0.70
55 26 0.30
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (55 bp):
GGTATTTTGGTAATTCTACAAACTAGGGGGTATTTCGGTAATTTCACAAACAAGT
Found at i:36698657 original size:54 final size:53
Alignment explanation
Indices: 36698465--36698658 Score: 176
Period size: 54 Copynumber: 3.6 Consensus size: 53
36698455 AGAAAGTCAA
* *** * * *
36698465 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTCGGTAATTTCACAAA-CAAGGGTATTTTGGTAATTCTACAAACTAG
* *
36698518 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCGGTAATTTCACAAACAAG-GGTATTTTGGTAATTCTACAAACTAG
* * **
36698573 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTATCCTAC-AGG
1 GGGTATTTCGGTAATTTCACAAAC-AAGGGTATTTTGGTAATTCTA-CAAACTA-G
* * *
36698628 GGGTATTTCAGTAATTTCACAATCGAGGGTA
1 GGGTATTTCGGTAATTTCACAAACAAGGGTA
36698659 AAACGATAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 87 0.74
55 28 0.24
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTCACAAACAAGGGTATTTTGGTAATTCTACAAACTAG
Found at i:36698658 original size:81 final size:81
Alignment explanation
Indices: 36698490--36698656 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
36698480 TTTGTAAATC
* * * *
36698490 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
* * *
36698555 GGTAATTTTACAAACT
66 AGTAATTTCACAAACG
* **
36698571 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAA-TTCTATCCTA-CAGGGGGTAT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACCA-GGGGTAT
*
36698634 TTCAGTAATTTCACAATCG
63 TTCAGTAATTTCACAAACG
36698653 AGGG
1 AGGG
36698657 TAAAACGATA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.04
81 43 0.60
82 26 0.36
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
AGTAATTTCACAAACG
Found at i:36698668 original size:26 final size:25
Alignment explanation
Indices: 36698639--36698723 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
36698629 GGTATTTCAG
*
36698639 TAATTTCACAATCGAGGGTAAAACGA
1 TAATTTCA-AATCGAGGGTAAAATGA
* *
36698665 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAA-TTT-CAAATCGAGGGTAAAATGA
* *
36698692 TAATTCTATAAATTGAGGGTAAAATGA
1 TAATT-T-CAAATCGAGGGTAAAATGA
36698719 TAATT
1 TAATT
36698724 CTGTAAATCG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.10
27 44 0.88
28 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (25 bp):
TAATTTCAAATCGAGGGTAAAATGA
Found at i:36698684 original size:27 final size:27
Alignment explanation
Indices: 36698648--36698736 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
36698638 GTAATTTCAC
* *
36698648 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTCTGTA
* *
36698675 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGATAATTCTGTA
*
36698702 AATTGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAATGATAATTCTGTA
36698729 AATCGAGG
1 AATCGAGG
36698737 TTACTTTAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTCTGTA
Found at i:36698764 original size:54 final size:53
Alignment explanation
Indices: 36698637--36698764 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 53
36698627 GGGGTATTTC
* *
36698637 AGTAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTTTACAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
* * * * ***
36698690 GGTAATTCTATA-AATTGAGGGTAAAATGATAATTCTGTAAATCGAGGTTACTTT
1 AGTAATT-T-TACAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
36698744 AGTAATTTTACAAGTCGAGGG
1 AGTAATTTTACAA-TCGAGGG
36698765 CATTTCAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.03
53 9 0.15
54 48 0.80
55 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (53 bp):
AGTAATTTTACAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
Found at i:36702751 original size:128 final size:128
Alignment explanation
Indices: 36702506--36703011 Score: 562
Period size: 128 Copynumber: 3.9 Consensus size: 128
36702496 ATCGGAATCA
*** * * * * *
36702506 CATATCGATGCCAACGTATTAAACATGGTCTTACATGTAATTACATATCGATGCCAATGTCCTAG
1 CATATCGATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAG
* * * *
36702571 ACGTGTTCTTACACG-AGAACACATATCGATGCCACTGTCCTAGA-TTGGGTCTTACACGTAATT
66 ACATGGTCTTACACGTA-ATCACATATCGATGCCACTGTCCTAGACGT-GGTCTTACACGTAATT
*
36702634 CATATCGATGCCAACGTCCCAAACGTGGTATTACACGTAATCACATATCGATGCCACTGTCCCAG
1 CATATCGATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAG
* * * * * *
36702699 ACAAGGTCTTACACGTAATTACATATCAATGCCAAC-GTCCCAGACGTCGTCTTACACGTAATCA
66 ACATGGTCTTACACGTAATCACATATCGATGCC-ACTGTCCTAGACGTGGTCTTACACGTAAT-T
* * * *
36702763 CATAAT-GATGCCAACGTCCCAAATGTGGTGTTACACGTAATCACAT-TCGATGCCATTGTTCCA
1 CAT-ATCGATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCA
* * * *
36702826 GATAGGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGACAG-GGTCTTATACGTAA-T
65 GACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCTAGAC-GTGGTCTTACACGTAATT
* * * *
36702889 CACTTATCGATGCCAACGTCTCAGACGTGGTCTTACACGTAATCACATATCGAAGCCGAC-GTCG
1 CA--TATCGATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCC-ACTGTCC
* *
36702953 CAGACATGGTCTTACACGTAATCACATGTCGATGCCAAC-GTCCTTGACGTGGTCTTACA
63 CAGACATGGTCTTACACGTAATCACATATCGATGCC-ACTGTCCTAGACGTGGTCTTACA
36703012 TGAGAACACA
Statistics
Matches: 319, Mismatches: 45, Indels: 27
0.82 0.12 0.07
Matches are distributed among these distances:
126 2 0.01
127 4 0.01
128 205 0.64
129 103 0.32
130 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (128 bp):
CATATCGATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAG
ACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCTAGACGTGGTCTTACACGTAATT
Found at i:36702766 original size:86 final size:86
Alignment explanation
Indices: 36702501--36703034 Score: 566
Period size: 86 Copynumber: 6.2 Consensus size: 86
36702491 CACATATCGG
*** * * * *
36702501 AATCACATATCGATGCCAAC-GTATTAAACATGGTCTTACATGTAATTACATATCGATGCCAATG
1 AATCACATATCGATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACG
* *
36702565 TCCTAGACGTGTTCTTACACG-
65 TCCCAGACGTGGTCTTACACGT
* * * *
36702586 AGAACACATATCGATGCCACTGTCCTAGA-TTGGGTCTTACACGTAAT-TCATATCGATGCCAAC
1 A-ATCACATATCGATGCCACTGTCCCAGACAT-GGTCTTACACGTAATCACATATCGATGCCAAC
* *
36702649 GTCCCAAACGTGGTATTACACGT
64 GTCCCAGACGTGGTCTTACACGT
* * *
36702672 AATCACATATCGATGCCACTGTCCCAGACAAGGTCTTACACGTAATTACATATCAATGCCAACGT
1 AATCACATATCGATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
*
36702737 CCCAGACGTCGTCTTACACGT
66 CCCAGACGTGGTCTTACACGT
* ** * **
36702758 AATCACATAAT-GATGCCAAC-GTCCCAAATGTGGTGTTACACGTAATCACAT-TCGATGCCATT
1 AATCACAT-ATCGATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAAC
* *
36702820 GTTCCAGATAG-GGTCTTACACGT
64 GTCCCAGA-CGTGGTCTTACACGT
* * * *
36702843 AATCACATATCGATGCCACTGTCCAAGACAGGGTCTTATACGTAATCACTTATCGATGCCAACGT
1 AATCACATATCGATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
*
36702908 CTCAGACGTGGTCTTACACGT
66 CCCAGACGTGGTCTTACACGT
* * *
36702929 AATCACATATCGAAGCCGAC-GTCGCAGACATGGTCTTACACGTAATCACATGTCGATGCCAACG
1 AATCACATATCGATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACG
** *
36702993 TCCTTGACGTGGTCTTACATG-
65 TCCCAGACGTGGTCTTACACGT
* *
36703014 AGAACACATATTGATGCCACT
1 A-ATCACATATCGATGCCACT
36703035 AAAAGATGGA
Statistics
Matches: 373, Mismatches: 60, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
84 4 0.01
85 143 0.38
86 220 0.59
87 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (86 bp):
AATCACATATCGATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
CCCAGACGTGGTCTTACACGT
Found at i:36702799 original size:171 final size:168
Alignment explanation
Indices: 36702501--36702995 Score: 545
Period size: 171 Copynumber: 2.9 Consensus size: 168
36702491 CACATATCGG
** * * *
36702501 AATCACATATCGATGCCAAC-GTATTAA-ACATGGTCTTACATGTAATTACATATCGATGCCAAT
1 AATCACATATCGATGCC-ACTGT-CCAAGACAAGGTCTTACACGTAATTACATATCGATGCCAAC
* * *
36702564 GTCCTAGACGTGTTCTTACACG-AGAACACATATCGATGCCACTGTCCTAGATTGGGTCTTACAC
64 GTCCCAGACGTG-TCTTACACGTA-ATCACATATCGATGCCAC-GTCCCAGATT-GGTCTTACAC
36702628 GTAATTCATATCGATGCCAACGTCCCA-A-ACGTGGTATTACACGT
125 GTAATTCATATCGATGCCAACGTCCCAGATA-G-GGTATTACACGT
* *
36702672 AATCACATATCGATGCCACTGTCCCAGACAAGGTCTTACACGTAATTACATATCAATGCCAACGT
1 AATCACATATCGATGCCACTGTCCAAGACAAGGTCTTACACGTAATTACATATCGATGCCAACGT
* *
36702737 CCCAGACGTCGTCTTACACGTAATCACATAAT-GATGCCAACGTCCCAAATGTGGTGTTACACGT
66 CCCAGACGT-GTCTTACACGTAATCACAT-ATCGATGCC-ACGTCCCAGAT-TGGTCTTACACGT
* ** * *
36702801 AA-TCACATTCGATGCCATTGTTCCAGATAGGGTCTTACACGT
127 AATTCATA-TCGATGCCAACGTCCCAGATAGGGTATTACACGT
* * * *
36702843 AATCACATATCGATGCCACTGTCCAAGACAGGGTCTTATACGTAATCACTTATCGATGCCAACGT
1 AATCACATATCGATGCCACTGTCCAAGACAAGGTCTTACACGTAATTACATATCGATGCCAACGT
* * * *
36702908 CTCAGACGTGGTCTTACACGTAATCACATATCGAAGCCGACGTCGCAGACATGGTCTTACACGTA
66 CCCAGACGT-GTCTTACACGTAATCACATATCGATGCC-ACGTCCCAGA-TTGGTCTTACACGTA
* *
36702973 ATCACATGTCGATGCCAACGTCC
128 AT-TCATATCGATGCCAACGTCC
36702996 TTGACGTGGT
Statistics
Matches: 273, Mismatches: 37, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
170 9 0.03
171 240 0.88
172 21 0.08
173 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (168 bp):
AATCACATATCGATGCCACTGTCCAAGACAAGGTCTTACACGTAATTACATATCGATGCCAACGT
CCCAGACGTGTCTTACACGTAATCACATATCGATGCCACGTCCCAGATTGGTCTTACACGTAATT
CATATCGATGCCAACGTCCCAGATAGGGTATTACACGT
Found at i:36703032 original size:43 final size:43
Alignment explanation
Indices: 36702501--36703011 Score: 508
Period size: 43 Copynumber: 11.9 Consensus size: 43
36702491 CACATATCGG
** * * *
36702501 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACATGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* * *
36702544 AATTACATATCGATGCCAATGTCCTAGACGTGTTCTTACACG-
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* *
36702586 AGAACACATATCGATGCC-ACTGTCCTAGA-TTGGGTCTTACACGT
1 A-ATCACATATCGATGCCAAC-GTCCTAGACGT-GGTCTTACACGT
* * * *
36702630 AAT-TCATATCGATGCCAACGTCCCAAACGTGGTATTACACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* **
36702672 AATCACATATCGATGCC-ACTGTCCCAGACAAGGTCTTACACGT
1 AATCACATATCGATGCCAAC-GTCCTAGACGTGGTCTTACACGT
* * * *
36702715 AATTACATATCAATGCCAACGTCCCAGACGTCGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* * * *
36702758 AATCACATAAT-GATGCCAACGTCCCAAATGTGGTGTTACACGT
1 AATCACAT-ATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
** *
36702801 AATCACAT-TCGATGCCATTGTTCC-AGATAG-GGTCTTACACGT
1 AATCACATATCGATGCCAACG-TCCTAGA-CGTGGTCTTACACGT
* *
36702843 AATCACATATCGATGCC-ACTGTCCAAGACAG-GGTCTTATACGT
1 AATCACATATCGATGCCAAC-GTCCTAGAC-GTGGTCTTACACGT
*
36702886 AATCACTTATCGATGCCAACGT-CTCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCT-AGACGTGGTCTTACACGT
* * *
36702929 AATCACATATCGAAGCCGACGTCGC-AGACATGGTCTTACACGT
1 AATCACATATCGATGCCAACGTC-CTAGACGTGGTCTTACACGT
* *
36702972 AATCACATGTCGATGCCAACGTCCTTGACGTGGTCTTACA
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACA
36703012 TGAGAACACA
Statistics
Matches: 389, Mismatches: 56, Indels: 46
0.79 0.11 0.09
Matches are distributed among these distances:
41 1 0.00
42 72 0.19
43 308 0.79
44 7 0.02
45 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
Found at i:36707356 original size:18 final size:18
Alignment explanation
Indices: 36707333--36707368 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36707323 CTAAAACTCA
*
36707333 CCCAAAGCCGAATTCTTT
1 CCCAAAACCGAATTCTTT
*
36707351 CCCAAAACCGATTTCTTT
1 CCCAAAACCGAATTCTTT
36707369 GAGTACCTAA
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:0.28, C:0.33, G:0.08, T:0.31
Consensus pattern (18 bp):
CCCAAAACCGAATTCTTT
Found at i:36713300 original size:40 final size:40
Alignment explanation
Indices: 36713245--36713471 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
36713235 CAATTGAGGA
36713245 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
36713285 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
36713325 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
36713365 TTATATTCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
36713405 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
36713445 TTATATTCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
36713472 ATTGGGTTGG
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:36721095 original size:40 final size:40
Alignment explanation
Indices: 36721040--36721186 Score: 231
Period size: 40 Copynumber: 3.7 Consensus size: 40
36721030 CAATTGAGGA
* *
36721040 TTATATCCAGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
36721080 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
36721120 TTATTTCTGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
36721160 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
36721187 ACTGGGTTGG
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:36730012 original size:19 final size:20
Alignment explanation
Indices: 36729988--36730025 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36729978 GGTACCACCA
36729988 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
36730007 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
36730026 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:36730370 original size:93 final size:93
Alignment explanation
Indices: 36730255--36730425 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
36730245 GCCCCTAAGT
* * *
36730255 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
36730319 ACGAGTTTGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
36730348 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
36730413 CGAGTTCGGATGC
66 CGAGTTCGGATGC
36730426 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.