Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 110 of 284
Found at i:36122493 original size:46 final size:46
Alignment explanation
Indices: 36122443--36122615 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
36122433 TGGTTGAGCA
*
36122443 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
36122489 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
36122536 TCCAAAGTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
36122582 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36122616 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:36122599 original size:93 final size:93
Alignment explanation
Indices: 36122440--36122610 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
36122430 GGATGGTTGA
* * *
36122440 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
36122505 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
36122533 GCATCCAAAGTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
36122598 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36122611 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36122877 original size:19 final size:20
Alignment explanation
Indices: 36122840--36122877 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36122830 ATAAGGTGGT
36122840 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36122860 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36122878 TGGTGGTACC
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:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36129851 original size:46 final size:46
Alignment explanation
Indices: 36129801--36129973 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
36129791 TGGTTGAGCA
*
36129801 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
36129847 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
36129894 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
36129940 CCCGAGCTGGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36129974 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:36129957 original size:93 final size:93
Alignment explanation
Indices: 36129798--36129968 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
36129788 GGATGGTTGA
* *
36129798 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
36129863 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
36129891 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
36129956 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36129969 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36130235 original size:19 final size:20
Alignment explanation
Indices: 36130198--36130235 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36130188 ATAAGGTGGT
36130198 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36130218 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36130236 TGGTGGTACC
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:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36132959 original size:28 final size:27
Alignment explanation
Indices: 36132917--36132973 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
36132907 ACATCTGATA
* *
36132917 CTGATTCTGTATTGGGCTTAGGCCCAC
1 CTGATTATGTATTGGGCTAAGGCCCAC
36132944 CTGATTATGTTATTGGGCTAAGGCCCAC
1 CTGATTATG-TATTGGGCTAAGGCCCAC
36132972 CT
1 CT
36132974 AATATTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGATTATGTATTGGGCTAAGGCCCAC
Found at i:36134829 original size:17 final size:16
Alignment explanation
Indices: 36134796--36134838 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
36134786 CAAAAAATAA
36134796 TAGTATTTTAATAAATT
1 TAGTA-TTTAATAAATT
*
36134813 TAGTATTTAATTTAATT
1 TAGTATTTAA-TAAATT
*
36134830 TAATATTTA
1 TAGTATTTA
36134839 TCTTGATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TAGTATTTAATAAATT
Found at i:36138023 original size:40 final size:40
Alignment explanation
Indices: 36137953--36138036 Score: 102
Period size: 43 Copynumber: 2.1 Consensus size: 40
36137943 AATACATATG
*
36137953 TAATAATATTTCATGCAAATATAACTTAAAATAACAACATAAA
1 TAATAATATTTCATGCAAATATAAC-TAAAAAAAC-A-ATAAA
36137996 TAATCAAT-TTTCATGCAAATAT-A-TAAAAAAACAATAAA
1 TAAT-AATATTTCATGCAAATATAACTAAAAAAACAATAAA
36138034 TAA
1 TAA
36138037 CATAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
38 8 0.21
39 1 0.03
40 8 0.21
42 1 0.03
43 18 0.46
44 3 0.08
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (40 bp):
TAATAATATTTCATGCAAATATAACTAAAAAAACAATAAA
Found at i:36148030 original size:68 final size:68
Alignment explanation
Indices: 36147873--36148019 Score: 285
Period size: 68 Copynumber: 2.2 Consensus size: 68
36147863 ATACTATATA
36147873 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGCGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGCGAGAGATA
36147938 AAT
66 AAT
*
36147941 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGCGAGAGATA
36148006 AAT
66 AAT
36148009 GTAGCTAGGTC
1 GTAGCTAGGTC
36148020 GCATAAGTGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 78 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGCGAGAGATA
AAT
Found at i:36155011 original size:68 final size:66
Alignment explanation
Indices: 36154939--36155122 Score: 235
Period size: 68 Copynumber: 2.7 Consensus size: 66
36154929 CATCATGTGT
* *
36154939 ACAAGA-AGGCTACGAAATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAAAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
36155003 GTAG
63 GTAG
* *
36155007 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTTTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTAC--GAAAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
36155072 TAG
64 TAG
* * *
36155075 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAGAGCTAC--GAAAGATAAATGTAGCTAGGTCACATGTGTGAT
36155123 TCCAAGTGAA
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 97 0.92
69 5 0.05
70 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (66 bp):
ACAAGAGAGCTACGAAAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTA
G
Found at i:36155196 original size:66 final size:67
Alignment explanation
Indices: 36155068--36155196 Score: 154
Period size: 66 Copynumber: 1.9 Consensus size: 67
36155058 GGATGTATCC
* *
36155068 CATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGAA
1 CATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGGGATACCAAGTGAA
36155133 GGACAT
62 GGACAT
* * *
36155139 CATGTAGACTAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGGGGTACTAAGTG
1 CATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGGGATACCAAGTG
36155197 TTCACCATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
66 23 0.44
67 9 0.17
68 1 0.02
71 19 0.37
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (67 bp):
CATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGGGATACCAAGTGAAGGAC
AT
Found at i:36158329 original size:12 final size:12
Alignment explanation
Indices: 36158312--36158338 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36158302 CACAAGACCG
36158312 TGTGCTAGGCCA
1 TGTGCTAGGCCA
36158324 TGTGCTAGGCCA
1 TGTGCTAGGCCA
36158336 TGT
1 TGT
36158339 AACTCACTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:36159839 original size:56 final size:55
Alignment explanation
Indices: 36159760--36159869 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 55
36159750 ACCATGGCAT
* *
36159760 TGATATATGTGTGCGAGTAAGACCAC-GTTTA-ATATGTTGGCATCGATATGTGATTC
1 TGATATATGCGTGCGAGTAAGACC-CTGTCTAGATA-G-TGGCATCGATATGTGATTC
* *
36159816 TGATATATGCGTGTGAGTCAGACCCTGTCTAGGATAGTGGCATCGATATGTGAT
1 TGATATATGCGTGCGAGTAAGACCCTGTCTA-GATAGTGGCATCGATATGTGAT
36159870 AACATGTAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
55 1 0.02
56 42 0.89
57 1 0.02
58 3 0.06
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (55 bp):
TGATATATGCGTGCGAGTAAGACCCTGTCTAGATAGTGGCATCGATATGTGATTC
Found at i:36161939 original size:27 final size:27
Alignment explanation
Indices: 36161909--36162147 Score: 280
Period size: 27 Copynumber: 8.9 Consensus size: 27
36161899 CCTAGACCCT
* *
36161909 TTATGTGGTAAAGTGACTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* *
36161936 TTATGTGGTGAAATGATTGTTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
*
36161963 TTATGTGGTAAAATGACTGTTTTGCCT
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * *
36161990 TTACGTGGTGAAATGACTGTTTTTCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
*
36162017 TTATGTGGTAAAATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
*
36162044 TTATATGGTAAAATGACTGTTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * * *
36162071 TCATGAGGTAAAATGATTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* ** *
36162098 TCATAAGGTAAAATGATTGTTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * * *
36162125 TTTTATGGTAAGATGATTGTTTT
1 TTATGTGGTAAAATGACTGTTTT
36162148 ACCCCAATGT
Statistics
Matches: 184, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 184 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (27 bp):
TTATGTGGTAAAATGACTGTTTTGCCC
Found at i:36163953 original size:41 final size:41
Alignment explanation
Indices: 36163896--36163978 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
36163886 CTTGTTTTTT
36163896 TGTTAAGTCCGGTTTCAAGGTTTGATTGAATTGTGGTTATG
1 TGTTAAGTCCGGTTTCAAGGTTTGATTGAATTGTGGTTATG
36163937 TGTTAAGTCCGGTTTCAAGGTTTGATTGAATTGTGGTTATG
1 TGTTAAGTCCGGTTTCAAGGTTTGATTGAATTGTGGTTATG
36163978 T
1 T
36163979 TTGATTGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.19, C:0.07, G:0.29, T:0.45
Consensus pattern (41 bp):
TGTTAAGTCCGGTTTCAAGGTTTGATTGAATTGTGGTTATG
Found at i:36169706 original size:40 final size:40
Alignment explanation
Indices: 36169622--36169886 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
36169612 TTGAATGATG
* * * * *
36169622 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
36169662 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36169702 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
36169741 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36169781 TTCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36169821 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
36169862 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
36169887 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.17
40 157 0.78
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36169918 original size:159 final size:159
Alignment explanation
Indices: 36169624--36169919 Score: 361
Period size: 159 Copynumber: 1.9 Consensus size: 159
36169614 GAATGATGTC
*
36169624 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
* ** * *
36169689 GCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
66 GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATC
36169754 CCGAAGGCATTTGTGCGAGTTACTAAATT
131 CCGAAGGCATTTGTGCGAGTTACTAAATT
* * * **
36169783 CGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
* * *
36169846 GTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT-CTGGT
64 GTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGT
*
36169907 TAAATTCCGAAGG
125 TAAATCCCGAAGG
36169920 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
158 4 0.03
159 82 0.71
160 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (159 bp):
CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATC
CCGAAGGCATTTGTGCGAGTTACTAAATT
Found at i:36177760 original size:39 final size:41
Alignment explanation
Indices: 36177665--36177848 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
36177655 TTGAATGCTG
*
36177665 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
36177704 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
*
36177744 TCCGGGCTAAG-CCCGAAGGTATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* * *
36177783 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
36177823 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36177849 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
39 53 0.43
40 59 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:36177870 original size:79 final size:79
Alignment explanation
Indices: 36177717--36177881 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
36177707 GGACTAAGAT
* * * ** *
36177717 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
36177782 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
36177796 CCGAAGGCATTTGTCCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTCCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
36177858 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
36177875 CCGAAGG
1 CCGAAGG
36177882 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:36181642 original size:6 final size:6
Alignment explanation
Indices: 36181624--36181662 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
36181614 CTTCAAAAAT
* *
36181624 AAATAG AAATAA AAGTAAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AA
36181663 TGAGTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:36181652 original size:19 final size:19
Alignment explanation
Indices: 36181624--36181662 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
36181614 CTTCAAAAAT
* *
36181624 AAATAGAAATAAAAGTAAA
1 AAATAAAAATAAAAATAAA
36181643 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
36181662 A
1 A
36181663 TGAGTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:36196803 original size:27 final size:27
Alignment explanation
Indices: 36196769--36197118 Score: 219
Period size: 27 Copynumber: 12.9 Consensus size: 27
36196759 AAGACCCCGA
**
36196769 TTTGTAAAATTACTAAAATACCCCCAG
1 TTTGTAAAATTACCGAAATACCCCCAG
* *
36196796 TTTATAAAATTACCGAAATACCCCGA-
1 TTTGTAAAATTACCGAAATACCCCCAG
*
36196822 TTTGTAAAATTACCGTAATACCCCCAG
1 TTTGTAAAATTACCGAAATACCCCCAG
* *** *** *
36196849 TTTGTAAATTTTTTGAAATACTATCGG
1 TTTGTAAAATTACCGAAATACCCCCAG
* ** *
36196876 TTTGGAAAATTATTGAAATACCCCCAA
1 TTTGTAAAATTACCGAAATACCCCCAG
* *
36196903 TTTGTAAAATTACTGAAAAAACCCCC-G
1 TTTGTAAAATTACCG-AAATACCCCCAG
* * ** *
36196930 ATTTGTAAAATTCCCAAAATA-CTGCTG
1 -TTTGTAAAATTACCGAAATACCCCCAG
* *
36196957 ATTTGTAAAATTACCAAAATA-CCCTAGG
1 -TTTGTAAAATTACCGAAATACCCCCA-G
*
36196985 TTTGTAAAATTACCGAAATACCCCCGAT
1 TTTGTAAAATTACCGAAATACCCCC-AG
* * * *
36197013 TTTGTAAAATTGCTGAAATACACCCAT
1 TTTGTAAAATTACCGAAATACCCCCAG
* * *
36197040 TTTGTGAAATTACCAAAATACCACTGCAG
1 TTTGTAAAATTACCGAAATACC-C-CCAG
* * **
36197069 --TGTAAAATTATCAAAATA-CCCTTG
1 TTTGTAAAATTACCGAAATACCCCCAG
* *
36197093 TAGTGTGAAATTACCGAAATACCCCC
1 T-TTGTAAAATTACCGAAATACCCCC
36197119 GTAGGGCAAA
Statistics
Matches: 249, Mismatches: 61, Indels: 25
0.74 0.18 0.07
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 26 0.10
27 167 0.67
28 51 0.20
29 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCCAG
Found at i:36196920 original size:54 final size:53
Alignment explanation
Indices: 36196765--36197061 Score: 220
Period size: 55 Copynumber: 5.5 Consensus size: 53
36196755 CGTTAAGACC
* * * *
36196765 CCGATTTGTAAAATTACTAAAATACCCCCAGTTTATAAAATTACCGAAATACC
1 CCGATTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACTGAAATACA
* * * **
36196818 CCGATTTGTAAAATTACCGTAATACCCCCAGTTTGTAAATTTTTTGAAATACTA
1 CCGATTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACTGAAATAC-A
* * * * * * *
36196872 TCGGTTTGGAAAATTATTGAAATACCCCCAATTTGTAAAATTACTGAAAAAACCC
1 CCGATTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACTG-AAATA-CA
* ** ** * **
36196927 CCGATTTGTAAAATTCCCAAAATA-CTGCTGATTTGTAAAATTACCAAAATAC-
1 CCGATTTGTAAAATTACTGAAATACCCCCAG-TTTGTAAAATTACTGAAATACA
* * * *
36196979 CCTAGGTTTGTAAAATTACCGAAATACCCCCGATTTTGTAAAATTGCTGAAATACA
1 CC--GATTTGTAAAATTACTGAAATACCCCC-AGTTTGTAAAATTACTGAAATACA
* * **
36197035 CCCATTTTGTGAAATTACCAAAATACC
1 CCGA-TTTGTAAAATTACTGAAATACC
36197062 ACTGCAGTGT
Statistics
Matches: 185, Mismatches: 49, Indels: 18
0.73 0.19 0.07
Matches are distributed among these distances:
52 2 0.01
53 45 0.24
54 61 0.33
55 74 0.40
56 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
CCGATTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACTGAAATACA
Found at i:36196950 original size:82 final size:80
Alignment explanation
Indices: 36196763--36197061 Score: 244
Period size: 82 Copynumber: 3.7 Consensus size: 80
36196753 GTCGTTAAGA
* * * *
36196763 CCCCGA-TTTGTAAAATTACTAAAATACCCCCAGTTTATAAAATTACCGAAATACCCCGATTTGT
1 CCCCGAGTTTGTAAAATTACTAAAATA-CTCCGGTTTGTAAAATTACCGAAATACCCCAATTTGT
*
36196827 AAAATTACCGTAATAC
65 AAAATTACCGAAATAC
* ** * * * **
36196843 CCCC-AGTTTGTAAATTTTTTGAAATACTATCGGTTTGGAAAATTATTGAAATACCCCCAATTTG
1 CCCCGAGTTTGTAAAATTACTAAAATACT-CCGGTTTGTAAAATTACCGAAATA-CCCCAATTTG
* *
36196907 TAAAATTACTGAAAAAAC
64 TAAAATTACCG-AAATAC
* * * * * * *
36196925 CCCCGA-TTTGTAAAATTCCCAAAATACTGCTGATTTGTAAAATTACCAAAATACCCTAGGTTTG
1 CCCCGAGTTTGTAAAATTACTAAAATACT-CCGGTTTGTAAAATTACCGAAATACCCCA-ATTTG
36196989 TAAAATTACCGAAATAC
64 TAAAATTACCGAAATAC
* * * * ** * *
36197006 CCCCGATTTTGTAAAATTGCTGAAATACACCCATTTTGTGAAATTACCAAAATACC
1 CCCCGAGTTTGTAAAATTACTAAAATAC-TCCGGTTTGTAAAATTACCGAAATACC
36197062 ACTGCAGTGT
Statistics
Matches: 171, Mismatches: 40, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
79 2 0.01
80 38 0.22
81 34 0.20
82 96 0.56
83 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (80 bp):
CCCCGAGTTTGTAAAATTACTAAAATACTCCGGTTTGTAAAATTACCGAAATACCCCAATTTGTA
AAATTACCGAAATAC
Found at i:36196963 original size:109 final size:108
Alignment explanation
Indices: 36196769--36197088 Score: 299
Period size: 109 Copynumber: 3.0 Consensus size: 108
36196759 AAGACCCCGA
* * * *
36196769 TTTGTAAAATTACTAAAATACCCCCAGTTTATAAAATTACCGAAATA-CCCCGATTTGTAAAATT
1 TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATT
** * **** * *
36196833 ACCGTAATACCCCCAGTTTGTAAATTTTTTGAAATACTATCGG
66 ACCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCATAGG
* * *
36196876 TTTGGAAAATTATTGAAATACCCCCAATTTGTAAAATTACTGAAAAAACCCCCGATTTGTAAAAT
1 TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTACTG-AAATACCCCCGATTTGTAAAAT
* ** * *
36196941 TCCCAAAATA-CTGCTGATTTGTAAAATTACCAAAATACCCTAGG
65 TACCAAAATACCCCCAG-TTTGTAAAATTACCAAAATACCATAGG
* * * * *
36196985 TTTGTAAAATTACCGAAATACCCCCGATTTTGTAAAATTGCTGAAATACACCC-ATTTTGTGAAA
1 TTTGTAAAATTACTGAAATACCCCC-AATTTGTAAAATTACTGAAATACCCCCGA-TTTGTAAAA
* *
36197049 TTACCAAAATACCACTGCAG--TGTAAAATTATCAAAATACC
64 TTACCAAAATACC-C-CCAGTTTGTAAAATTACCAAAATACC
36197089 CTTGTAGTGT
Statistics
Matches: 172, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
107 36 0.21
108 8 0.05
109 109 0.63
110 16 0.09
112 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (108 bp):
TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATT
ACCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCATAGG
Found at i:36197073 original size:82 final size:81
Alignment explanation
Indices: 36196905--36197089 Score: 194
Period size: 82 Copynumber: 2.3 Consensus size: 81
36196895 ACCCCCAATT
* * * **
36196905 TGTAAAATTACTGAAAAAACCCCCGATTTGTAAAATTCCCAAAATACTGCTGATTTGTAAAATTA
1 TGTAAAATTACCG-AAATACCCCCGATTTGTAAAATTCCCAAAATACTACCCATTTGTAAAATTA
***
36196970 CCAAAATACCCTAGGTT
65 CCAAAATACCCTAGCAG
* ** *
36196987 TGTAAAATTACCGAAATACCCCCGATTTTGTAAAATTGCTGAAATAC-ACCCATTTTGTGAAATT
1 TGTAAAATTACCGAAATACCCCCGA-TTTGTAAAATTCCCAAAATACTACCCA-TTTGTAAAATT
36197051 ACCAAAATACCACT-GCAG
64 ACCAAAATACC-CTAGCAG
* *
36197069 TGTAAAATTATCAAAATACCC
1 TGTAAAATTACCGAAATACCC
36197090 TTGTAGTGTG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
81 13 0.15
82 71 0.83
83 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (81 bp):
TGTAAAATTACCGAAATACCCCCGATTTGTAAAATTCCCAAAATACTACCCATTTGTAAAATTAC
CAAAATACCCTAGCAG
Found at i:36204620 original size:40 final size:40
Alignment explanation
Indices: 36204537--36205559 Score: 1845
Period size: 40 Copynumber: 25.6 Consensus size: 40
36204527 TTGAATGCTG
* * * * * *
36204537 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
36204577 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
36204617 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204657 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204697 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204737 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204777 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204817 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204857 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204897 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204937 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36204977 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205017 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205057 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205097 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205137 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205177 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205217 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205257 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205297 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205337 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205377 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36205417 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
36205457 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
36205497 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
36205536 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36205560 TGAACGAGGA
Statistics
Matches: 961, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 35 0.04
40 918 0.96
41 8 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:36207131 original size:17 final size:18
Alignment explanation
Indices: 36207104--36207137 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36207094 AATTAAATAT
36207104 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
36207122 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
36207138 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:36209325 original size:24 final size:24
Alignment explanation
Indices: 36209297--36209398 Score: 159
Period size: 24 Copynumber: 4.2 Consensus size: 24
36209287 AAAGCTGTCA
36209297 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
36209321 GGAGAAGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
* *
36209345 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
36209369 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
36209393 GGAGAA
1 GGAGAA
36209399 AAGTGTTGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.36, C:0.04, G:0.40, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:36210889 original size:54 final size:53
Alignment explanation
Indices: 36210806--36210915 Score: 166
Period size: 54 Copynumber: 2.1 Consensus size: 53
36210796 GGAAGCGTCT
* *
36210806 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCATTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACAT-TATCTGTTC
* * *
36210860 TGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTTC
36210913 TGG
1 TGG
36210916 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTTC
Found at i:36210912 original size:26 final size:26
Alignment explanation
Indices: 36210806--36210915 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 26
36210796 GGAAGCGTCT
*
36210806 TGGTGGCTA-TGCCACAATTATCTGATC
1 TGGTGGC-ACTGCCAC-ATTATCTGTTC
*
36210833 TGGTGGCATTGCCACATATATCTGTTC
1 TGGTGGCACTGCCACAT-TATCTGTTC
*
36210860 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCACTGCCAC-ATTATCTGTTC
* *
36210887 TGGTGACACTGTCACATTATCTGTTC
1 TGGTGGCACTGCCACATTATCTGTTC
36210913 TGG
1 TGG
36210916 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 17 0.23
27 55 0.74
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
TGGTGGCACTGCCACATTATCTGTTC
Found at i:36219921 original size:13 final size:13
Alignment explanation
Indices: 36219903--36219928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36219893 ATATTATAAT
36219903 TATTTTATGTTAA
1 TATTTTATGTTAA
36219916 TATTTTATGTTAA
1 TATTTTATGTTAA
36219929 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:36227584 original size:13 final size:13
Alignment explanation
Indices: 36227566--36227591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36227556 ATATTATAAT
36227566 TATTTTATGTTAA
1 TATTTTATGTTAA
36227579 TATTTTATGTTAA
1 TATTTTATGTTAA
36227592 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:36229617 original size:61 final size:61
Alignment explanation
Indices: 36229546--36229668 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
36229536 GGTAAAATTT
*
36229546 ACCTTAAAATAGATGCCGACAGTAGCAGTGATGTGAATTTGAAAAATCACTAAAAATAGTA
1 ACCTTAAAATAGATGCCGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAATAGTA
36229607 ACCTTAAAATAGATGCCGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAATAGTA
1 ACCTTAAAATAGATGCCGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAATAGTA
36229668 A
1 A
36229669 GAATGGAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.24
Consensus pattern (61 bp):
ACCTTAAAATAGATGCCGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAATAGTA
Found at i:36233538 original size:562 final size:562
Alignment explanation
Indices: 36232475--36234164 Score: 3076
Period size: 562 Copynumber: 3.0 Consensus size: 562
36232465 ACAATTCCAA
* * **
36232475 CAAGTAATAAAGTGACAAGTAAATGTCGAGTTATCATACCCACAGAGACTGTGAAAAGAATTATT
1 CAAGTAATAAAGTGATAAGTAAATATCGAGTTATTGTACCCACAGAGACTGTGAAAAGAATTATT
36232540 TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAACGGTGATTAAGAA
66 TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAACGGTGATTAAGAA
36232605 ATATAAAATTTAAAAATAAATAAAAATAAAAGTTCTAATGCACGATTCCAAAATATGATTTAATC
131 ATATAAAATTTAAAAATAAATAAAAATAAAAGTTCTAATGCACGATTCCAAAATATGATTTAATC
36232670 AAGATGACATAATTGTGTTGGATTAATCACATTTCTCTAACTTAGAATTATTAAACTCATGTTTA
196 AAGATGACATAATTGTGTTGGATTAATCACATTTCTCTAACTTAGAATTATTAAACTCATGTTTA
36232735 TGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAACTTATGGAAAATATTCACCTACA
261 TGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAACTTATGGAAAATATTCACCTACA
36232800 CAAATCCATTCATCTCTTAACATATCCATATGTTAATTCAAACGATTAAACAAATTTTAATAAGC
326 CAAATCCATTCATCTCTTAACATATCCATATGTTAATTCAAACGATTAAACAAATTTTAATAAGC
36232865 AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTCCATATTCCTATGTCAAT
391 AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTCCATATTCCTATGTCAAT
36232930 TCAAACGTTTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTGTCCTTACC
456 TCAAACGTTTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTGTCCTTACC
36232995 TTGAAACAGTTTAATCATAATAATCTTGCAAGTTATTCAAGG
521 TTGAAACAGTTTAATCATAATAATCTTGCAAGTTATTCAAGG
36233037 CAAGTAATAAAGTGATAAGTAAATATCGAGTTATTGTACCCACAGAGACTGTGAAAAGAATTATT
1 CAAGTAATAAAGTGATAAGTAAATATCGAGTTATTGTACCCACAGAGACTGTGAAAAGAATTATT
36233102 TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAACGGTGATTAAGAA
66 TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAACGGTGATTAAGAA
*
36233167 ATATAAAATTTAAAAATAAATAAAAGTAAAAGTTCTAATGCACGATTCCAAAATATGATTTAATC
131 ATATAAAATTTAAAAATAAATAAAAATAAAAGTTCTAATGCACGATTCCAAAATATGATTTAATC
36233232 AAGATGACATAATTGTGTTGGATTAATCACATTTCTCTAACTTAGAATTATTAAACTCATGTTTA
196 AAGATGACATAATTGTGTTGGATTAATCACATTTCTCTAACTTAGAATTATTAAACTCATGTTTA
36233297 TGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAACTTATGGAAAATATTCACCTACA
261 TGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAACTTATGGAAAATATTCACCTACA
36233362 CAAATCCATTCATCTCTTAACATATCCATATGTTAATTCAAACGATTAAACAAATTTTAATAAGC
326 CAAATCCATTCATCTCTTAACATATCCATATGTTAATTCAAACGATTAAACAAATTTTAATAAGC
36233427 AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTCCATATTCCTATGTCAAT
391 AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTCCATATTCCTATGTCAAT
36233492 TCAAACGTTTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTGTCCTTACC
456 TCAAACGTTTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTGTCCTTACC
36233557 TTGAAACAGTTTAATCATAATAATCTTGCAAGTTATTCAAGG
521 TTGAAACAGTTTAATCATAATAATCTTGCAAGTTATTCAAGG
36233599 CAAGTAATAAAGTGATAAGTAAATATCGAGTTATTGTACCCACAGAGACTGTGAAAAGAATTATT
1 CAAGTAATAAAGTGATAAGTAAATATCGAGTTATTGTACCCACAGAGACTGTGAAAAGAATTATT
*
36233664 TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAAGGGTGATTAAGAA
66 TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAACGGTGATTAAGAA
* * * *
36233729 ATATAAAATTTAAAACTAAATAAAAATAAAAGTTCTAATGCATGATTTCGAAATATGATTTAATC
131 ATATAAAATTTAAAAATAAATAAAAATAAAAGTTCTAATGCACGATTCCAAAATATGATTTAATC
* * * *
36233794 AAGATGACATAATTATGTTTGATTAATTACATTTCTCTAACTCAGAATTATTAAACTCATGTTTA
196 AAGATGACATAATTGTGTTGGATTAATCACATTTCTCTAACTTAGAATTATTAAACTCATGTTTA
* * * * * * *
36233859 TATTGTTATGAATAAATTCAAGGAAACTTGGTAATTTGCTAACTTAT-GAACATATTCACCTACA
261 TGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAACTTATGGAAAATATTCACCTACA
* * *
36233923 CAAATCCATTCATCTCTTAACATATCCTTATGTTAACTCAAACGGTTAAACAAATTTTAATAAGC
326 CAAATCCATTCATCTCTTAACATATCCATATGTTAATTCAAACGATTAAACAAATTTTAATAAGC
* * *
36233988 AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTGCATATCCCTATGTAAAT
391 AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTCCATATTCCTATGTCAAT
** * *
36234053 TCAAACAATTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTATCATTACC
456 TCAAACGTTTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTGTCCTTACC
* *
36234118 TTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGG
521 TTGAAACAGTTTAATCATAATAATCTTGCAAGTTATTCAAGG
36234160 CAAGT
1 CAAGT
36234165 GTATCACCAG
Statistics
Matches: 1094, Mismatches: 34, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
561 246 0.22
562 848 0.78
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (562 bp):
CAAGTAATAAAGTGATAAGTAAATATCGAGTTATTGTACCCACAGAGACTGTGAAAAGAATTATT
TATGAATGCTATTTAAAACACTTTGGTGAGGAAAAATATTTTGTTTTGAAAACGGTGATTAAGAA
ATATAAAATTTAAAAATAAATAAAAATAAAAGTTCTAATGCACGATTCCAAAATATGATTTAATC
AAGATGACATAATTGTGTTGGATTAATCACATTTCTCTAACTTAGAATTATTAAACTCATGTTTA
TGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAACTTATGGAAAATATTCACCTACA
CAAATCCATTCATCTCTTAACATATCCATATGTTAATTCAAACGATTAAACAAATTTTAATAAGC
AAACATGTTATTGCACATACATACTCATTAAATTGAACTAATCTCTTCCATATTCCTATGTCAAT
TCAAACGTTTAATTAAATCTAATAAGCACATAAAAGACTATGTGAGGTAACAAGGTGTCCTTACC
TTGAAACAGTTTAATCATAATAATCTTGCAAGTTATTCAAGG
Found at i:36234411 original size:14 final size:14
Alignment explanation
Indices: 36234392--36234419 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36234382 GAGAATAATT
36234392 TTAAAACTTGCATC
1 TTAAAACTTGCATC
36234406 TTAAAACTTGCATC
1 TTAAAACTTGCATC
36234420 ACTATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
TTAAAACTTGCATC
Found at i:36235124 original size:43 final size:42
Alignment explanation
Indices: 36235059--36235142 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
36235049 CTGGTCTCAG
* * **
36235059 CACTAACAGTATTTGCAGCAGAGCTGCCAGTGTTAGGCTTAT
1 CACTAACAGTAATTGCAACAGAGCTGCCAGTAATAGGCTTAT
36235101 CACTAATCAGTAATTGCAACAGAGCTGCCAGTAATAGGCTTA
1 CACTAA-CAGTAATTGCAACAGAGCTGCCAGTAATAGGCTTA
36235143 AAGCCATCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 6 0.16
43 31 0.84
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
CACTAACAGTAATTGCAACAGAGCTGCCAGTAATAGGCTTAT
Found at i:36235339 original size:27 final size:27
Alignment explanation
Indices: 36235309--36235360 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36235299 TCAGTTATTC
*
36235309 TACCCTA-AGAAGGTATTTCGGTCATCT
1 TACCCTATA-AAGGTATATCGGTCATCT
*
36235336 TACCCTATAAGGGTATATCGGTCAT
1 TACCCTATAAAGGTATATCGGTCAT
36235361 TTTATCACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCTATAAAGGTATATCGGTCATCT
Found at i:36235372 original size:27 final size:26
Alignment explanation
Indices: 36235342--36235562 Score: 219
Period size: 27 Copynumber: 8.3 Consensus size: 26
36235332 ATCTTACCCT
36235342 ATAAGGGTATATCGGTCATTTTATCAC
1 ATAAGGGTATATC-GTCATTTTATCAC
* *
36235369 ATAAGGGAAAAATCGTCATTTTATCAC
1 ATAAGGG-TATATCGTCATTTTATCAC
* * * *
36235396 GTGAGGGCAAAATCGTCATTTTATCAC
1 ATAAGGG-TATATCGTCATTTTATCAC
* *
36235423 ATAAGGGCAATATTGTCATTTTATCAC
1 ATAAGGG-TATATCGTCATTTTATCAC
*
36235450 ATAAGGGTAAAATCGTCATTTTATCAC
1 ATAAGGGT-ATATCGTCATTTTATCAC
* * * *
36235477 TTCA-GGTAATAACGTCATCTTATCAC
1 ATAAGGGT-ATATCGTCATTTTATCAC
*
36235503 ATAAGGGTAAAATCGTCATTTTATCAC
1 ATAAGGGT-ATATCGTCATTTTATCAC
** *
36235530 ATAAGGCAATATCGTCATCTTATCAC
1 ATAAGGGTATATCGTCATTTTATCAC
36235556 ATAAGGG
1 ATAAGGG
36235563 GGTCTAGTAT
Statistics
Matches: 164, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
26 43 0.26
27 117 0.71
28 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (26 bp):
ATAAGGGTATATCGTCATTTTATCAC
Found at i:36235420 original size:54 final size:54
Alignment explanation
Indices: 36235329--36235562 Score: 278
Period size: 54 Copynumber: 4.4 Consensus size: 54
36235319 AGGTATTTCG
* *
36235329 GTCATCTTA-CCCTATAAGGGT-ATATCGGTCATTTTATCACATAAGGGAAAAATC
1 GTCATCTTATCAC-ATAAGGGTAAAATC-GTCATTTTATCACATAAGGGAAAAATC
* * * * * * *
36235383 GTCATTTTATCACGTGAGGGCAAAATCGTCATTTTATCACATAAGGGCAATATT
1 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
* * * * *
36235437 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACTTCAGGTAATAA-C
1 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
* *
36235490 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAA-GGCAATATC
1 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
36235543 GTCATCTTATCACATAAGGG
1 GTCATCTTATCACATAAGGG
36235563 GGTCTAGTAT
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
52 3 0.02
53 62 0.41
54 80 0.53
55 6 0.04
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (54 bp):
GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
Found at i:36235509 original size:53 final size:53
Alignment explanation
Indices: 36235329--36235562 Score: 283
Period size: 53 Copynumber: 4.4 Consensus size: 53
36235319 AGGTATTTCG
* * * *
36235329 GTCATCTTA-CCCTATAAGGGT-ATATCGGTCATTTTATCACATAAGGGAAAAATC
1 GTCATCTTATCAC-ATAAGGGTAAAATC-GTCATTTTATCACATAAGGCAATAA-C
* * * * **
36235383 GTCATTTTATCACGTGAGGGCAAAATCGTCATTTTATCACATAAGGGCAATATT
1 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAA-GGCAATAAC
* * * *
36235437 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACTTCAGGTAATAAC
1 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGCAATAAC
*
36235490 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGCAATATC
1 GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGCAATAAC
36235543 GTCATCTTATCACATAAGGG
1 GTCATCTTATCACATAAGGG
36235563 GGTCTAGTAT
Statistics
Matches: 154, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
53 74 0.48
54 69 0.45
55 11 0.07
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (53 bp):
GTCATCTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGCAATAAC
Found at i:36237923 original size:28 final size:27
Alignment explanation
Indices: 36237872--36237933 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
36237862 CCTATTAAAC
*
36237872 AACAGTAAAGTCTGGGCCATAGCCCTA
1 AACAGTAAAGTCTGGGCCATAGCCCAA
* *
36237899 TACAGTAACAGTGTGGGCC-TAAGCCCAA
1 AACAGTAA-AGTCTGGGCCAT-AGCCCAA
36237927 AACAGTA
1 AACAGTA
36237934 TTAGTACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (27 bp):
AACAGTAAAGTCTGGGCCATAGCCCAA
Found at i:36245834 original size:18 final size:19
Alignment explanation
Indices: 36245797--36245834 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
36245787 GATTTGATAC
*
36245797 GATATGCACATGATATGTAT
1 GATATACACATGA-ATGTAT
36245817 GATATACACATG-ATGTAT
1 GATATACACATGAATGTAT
36245835 TCATTTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
GATATACACATGAATGTAT
Found at i:36245930 original size:25 final size:25
Alignment explanation
Indices: 36245877--36245971 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
36245867 GAGGAAGTGC
*
36245877 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
36245901 GAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
36245926 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
36245951 AAAAGGGCCTTTGCCCCAGTT
1 AAAAGGG-CTTTGCCCCAGTT
36245972 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 16 0.24
25 37 0.56
26 13 0.20
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:36246227 original size:31 final size:31
Alignment explanation
Indices: 36246191--36246269 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
36246181 TTGTTACATT
*
36246191 AAAGGCTTCGGCCTAGTGATACGAATAATGA
1 AAAGGCTTCGGCCCAGTGATACGAATAATGA
* *
36246222 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATACGAATAATGA
*
36246253 GAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
36246270 ATATGCTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATACGAATAATGA
Found at i:36249003 original size:27 final size:27
Alignment explanation
Indices: 36248973--36249036 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
36248963 AATGTGGCGT
36248973 AGCCACTA-ATAT-CAAAACACGTGGCAA
1 AGCCACTAGA-ATGCAAAA-ACGTGGCAA
* *
36249000 AGCCACCAGAATGGTAAAAACGTGGCAA
1 AGCCACTAGAAT-GCAAAAACGTGGCAA
36249028 AGCCACTAG
1 AGCCACTAG
36249037 TACAGTACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 9 0.29
28 18 0.58
29 4 0.13
ACGTcount: A:0.42, C:0.25, G:0.20, T:0.12
Consensus pattern (27 bp):
AGCCACTAGAATGCAAAAACGTGGCAA
Found at i:36252495 original size:41 final size:41
Alignment explanation
Indices: 36252438--36252519 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
36252428 TGGAAATCTC
*
36252438 GTATAACTCATACAATGCCATATCCTAGATATGGTCTTACA
1 GTATAACTCATACAATGCCATATCCTAAATATGGTCTTACA
36252479 GTATAACTCATACAATGCCATATCCTAAATATGGTCTTACA
1 GTATAACTCATACAATGCCATATCCTAAATATGGTCTTACA
36252520 TTTTATAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (41 bp):
GTATAACTCATACAATGCCATATCCTAAATATGGTCTTACA
Found at i:36252625 original size:43 final size:43
Alignment explanation
Indices: 36252528--36252682 Score: 185
Period size: 43 Copynumber: 3.6 Consensus size: 43
36252518 CATTTTATAG
*
36252528 TATATCGATGCCAATAG-CCCAG-CTATGGTCTTACAC-AAATC-
1 TATAACGATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAAATCA
* *
36252569 TCATATCGATGCCAATGTCCAAGACATGGTCTTACACGAAATCA
1 T-ATAACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
* *
36252613 TATAACGATGCCAATGTCCCAGAAATGGTCTTACACGTAATCA
1 TATAACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
*
36252656 TA-ATACAATGCCAATGTCCCAGACATG
1 TATA-ACGATGCCAATGTCCCAGACATG
36252683 TAATCACATC
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.31
43 67 0.66
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
TATAACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
Found at i:36263134 original size:49 final size:50
Alignment explanation
Indices: 36263060--36263284 Score: 258
Period size: 49 Copynumber: 4.5 Consensus size: 50
36263050 TAAGGTGACG
*
36263060 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* * * * * *
36263109 TGTGTAGTACTAAGTGCAGGTTACTATGCGTACTC-GATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-TTAGGTCACA
* * ** ** *
36263160 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* *
36263210 TGTGTGGTACTAAGTGCAGGCTACTACGTGTACCGGATAGTT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
*
36263259 TGTGTAGTACTAAGTGCAGGATACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
36263285 TGCGTATCAG
Statistics
Matches: 147, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 65 0.44
50 48 0.33
51 34 0.23
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
Found at i:36265614 original size:79 final size:80
Alignment explanation
Indices: 36265513--36265695 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
36265503 TACTCGTTCA
* *
36265513 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAACCCGG
* *
36265576 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
36265593 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGAT
*
36265657 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
36265672 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
36265696 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:36265695 original size:40 final size:40
Alignment explanation
Indices: 36265492--36265695 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
36265482 CGGAATTTAA
** *
36265492 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36265532 CCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36265572 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36265611 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
36265651 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36265691 CCGGA
1 CCGGA
36265696 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36269349 original size:15 final size:15
Alignment explanation
Indices: 36269320--36269364 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
36269310 AGTGCTGTAA
36269320 ATGGTATTTCCTTATC
1 ATGG-ATTTCCTTATC
*
36269336 ATGGATTTCTTTATC
1 ATGGATTTCCTTATC
*
36269351 TTGGATTTCCTTAT
1 ATGGATTTCCTTAT
36269365 TCTGGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (15 bp):
ATGGATTTCCTTATC
Found at i:36272029 original size:50 final size:50
Alignment explanation
Indices: 36271856--36272097 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 50
36271846 ATCTATTGCG
*
36271856 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
36271906 -GGTCGCATGTGTAGTACTAAGTGCAGGCAACTA-TTCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATAA-TT
* * ** **
36271956 TGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
36272006 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
36272056 -GGTCGCATGTTTAGTACTAAGTGTAGGCTACTATGCGTACCA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
36272098 AATAGCTTTG
Statistics
Matches: 158, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 74 0.47
50 47 0.30
51 35 0.22
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:36272131 original size:150 final size:150
Alignment explanation
Indices: 36271856--36272133 Score: 398
Period size: 150 Copynumber: 1.9 Consensus size: 150
36271846 ATCTATTGCG
36271856 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAATTGGTCGCATGTGTAGT
* ** * * *
36271921 ACTAAGTGCAGGCAACTATTCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCAACTATGCGTACCAAATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCT
36271986 ACTACGTGTATTAGATGGTT
131 ACTACGTGTATTAGATGGTT
* * *
36272006 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTTTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAATTGGTCGCATGTGTAGT
* * * * *
36272071 ACTAAGTGTAGGCTACTATGCGTACCAAATAGCTTTGGCTACAAGTGTG-A-AAATACGTGCAGG
66 ACTAAGTGCAGGCAACTATGCGTACCAAATAACTTT-GAT-CAAGTGTGTAGAAATAAGTGCAGG
36272134 GAACTGAGTA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 102 0.91
151 3 0.03
152 7 0.06
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCAACTATGCGTACCAAATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCT
ACTACGTGTATTAGATGGTT
Found at i:36274092 original size:20 final size:21
Alignment explanation
Indices: 36274050--36274092 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
36274040 TTTCTAGTTT
36274050 AATTATGTTATAATTGTTGTA
1 AATTATGTTATAATTGTTGTA
*
36274071 AATTGTGTT-TAATT-TTGCTA
1 AATTATGTTATAATTGTTG-TA
36274091 AA
1 AA
36274093 ATCGATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 9 0.45
21 8 0.40
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (21 bp):
AATTATGTTATAATTGTTGTA
Found at i:36278280 original size:22 final size:22
Alignment explanation
Indices: 36278232--36278283 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
36278222 TACTTCATGG
* * *
36278232 AGTGTGAACACATTTATGTTTT
1 AGTGTGAACACAATTAAGTGTT
36278254 AGTGTGAACA-AATTAAGTGTT
1 AGTGTGAACACAATTAAGTGTT
36278275 AGGTGTGAA
1 A-GTGTGAA
36278284 TGTGTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (22 bp):
AGTGTGAACACAATTAAGTGTT
Found at i:36278549 original size:10 final size:9
Alignment explanation
Indices: 36278533--36278569 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
36278523 ACCTACAAAC
36278533 AAACACATT
1 AAACACATT
36278542 ACAACACATT
1 A-AACACATT
36278552 AAACACATTT
1 AAACACA-TT
36278562 AAACACAT
1 AAACACAT
36278570 ATTAGACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:36278557 original size:19 final size:19
Alignment explanation
Indices: 36278533--36278569 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
36278523 ACCTACAAAC
36278533 AAACACA-TTACAACACATT
1 AAACACATTTA-AACACATT
36278552 AAACACATTTAAACACAT
1 AAACACATTTAAACACAT
36278570 ATTAGACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (19 bp):
AAACACATTTAAACACATT
Found at i:36278609 original size:44 final size:39
Alignment explanation
Indices: 36278561--36278651 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 39
36278551 TAAACACATT
*
36278561 TAAACACATATTAGACTCAATAAGCTTAA-TTAATAAACTGTAAA
1 TAAACACAT-TTA-ACAC-ATAA-CTTAATTTAATAAACT-T-AA
*
36278605 TAAACACATTTAACACTTAACTTAATTTAATAAACTTAA
1 TAAACACATTTAACACATAACTTAATTTAATAAACTTAA
36278644 -AAACACAT
1 TAAACACAT
36278652 GCAACAAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
38 8 0.18
39 2 0.05
40 6 0.14
41 13 0.30
42 3 0.07
43 3 0.07
44 9 0.20
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (39 bp):
TAAACACATTTAACACATAACTTAATTTAATAAACTTAA
Found at i:36278700 original size:19 final size:19
Alignment explanation
Indices: 36278673--36278711 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36278663 TTATTCCAGC
36278673 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
36278692 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
36278711 A
1 A
36278712 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:36278723 original size:54 final size:54
Alignment explanation
Indices: 36278663--36278780 Score: 200
Period size: 54 Copynumber: 2.2 Consensus size: 54
36278653 CAACAAGAAA
*
36278663 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
* * *
36278717 TTATTCCAGCAATTTAATTAACTAGGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
36278771 TTATTCCAGC
1 TTATTCCAGC
36278781 GACTTAAGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:36281161 original size:46 final size:46
Alignment explanation
Indices: 36281104--36281220 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
36281094 GATGAGTGCT
36281104 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGAT-AGCC
* * * * *
36281150 AGTGTAAGACATGTCTGAGACATGCGTCGGCTACGATATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGATAGCC
36281196 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
36281221 GCTTTGACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 45 0.73
47 15 0.24
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGATAGCC
Found at i:36281253 original size:47 final size:45
Alignment explanation
Indices: 36281104--36281252 Score: 140
Period size: 46 Copynumber: 3.2 Consensus size: 45
36281094 GATGAGTGCT
* * * **
36281104 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCTTC-GACTTGAGATATAAGCC
* * * *
36281150 AGTGTAAGACATGTCTGAGACATGCGTCGGC-T-ACGATATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCTTCGACTTGA-GATAT-A-AGCC
*
36281196 AGTGTAAGACCATGTCTGGGACATGGCTTTGACTTGAGATATAAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCTTCGACTTGAGATATAAGCC
36281243 AGTGTAAGAC
1 AGTGTAAGAC
36281253 CGAGTTTGGG
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
45 3 0.04
46 39 0.46
47 25 0.30
48 6 0.07
49 6 0.07
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGACTTGAGATATAAGCC
Found at i:36282426 original size:21 final size:22
Alignment explanation
Indices: 36282387--36282427 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36282377 TTGGAATTTT
36282387 CACACGAGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
*
36282409 CACACGGGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
36282428 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:36292968 original size:27 final size:27
Alignment explanation
Indices: 36292937--36293112 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
36292927 TAAATTGTAC
*
36292937 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
36292964 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
36292990 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
36293018 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
36293046 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
36293073 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
36293100 AGCACTGAGTGTG
1 AGCACTAAGTGTG
36293113 TGGACTCAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:36293051 original size:82 final size:81
Alignment explanation
Indices: 36292938--36293093 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36292928 AAATTGTACA
* * *
36292938 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36293002 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36293019 GCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36293084 TGCGAGTTGA
65 TGCGAATTGA
36293094 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36293105 original size:82 final size:81
Alignment explanation
Indices: 36292934--36293112 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 81
36292924 GATTAAATTG
* * *
36292934 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36292999 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36293015 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36293079 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36293097 TATAGCACTGAGTGTG
1 TACAGCACTAAGTGTG
36293113 TGGACTCAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36301584 original size:46 final size:46
Alignment explanation
Indices: 36301415--36301586 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
36301405 GGTTGAGCAT
* *
36301415 CCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * * *
36301461 CCGAACTCGTTGAGTTGAGTCCGAGATC-GTGA--GATG-TAACTAGGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
*
36301506 ATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
36301554 CCGAGA-TCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGA-ACTCATTGAGTTGAGTCCGAGTTCACTTA
36301587 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 56 0.55
47 26 0.25
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:36320999 original size:42 final size:41
Alignment explanation
Indices: 36320940--36321068 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 41
36320930 TAGGGGTATT
36320940 TGAGATTACATGTAAGACCATATCTGGGATATGGCATTGATA
1 TGAGATT-CATGTAAGACCATATCTGGGATATGGCATTGATA
* *
36320982 TGAGACTTCATGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGA-TTCATGTAAGACCATA-TCTGGGATA-TGGCATTGATA
* * *
36321025 TGAGATCCTATGTAAGGCCATATCTGGGATATGGCATTGGTA
1 TGAGATTC-ATGTAAGACCATATCTGGGATATGGCATTGATA
36321067 TG
1 TG
36321069 GTGCTATGAG
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
42 39 0.52
43 36 0.48
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATATCTGGGATATGGCATTGATA
Found at i:36321028 original size:43 final size:41
Alignment explanation
Indices: 36320940--36321061 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 41
36320930 TAGGGGTATT
*
36320940 TGAGATTACATGTAAGACCATATCTGGGATATGGCATTGATA
1 TGAGATT-CATGTAAGACCATATCTGGGATATGGCATCGATA
*
36320982 TGAGACTTCATGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGA-TTCATGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* *
36321025 TGAGATCCTATGTAAGGCCATATCTGGGATATGGCAT
1 TGAGATTC-ATGTAAGACCATATCTGGGATATGGCAT
36321062 TGGTATGGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
42 34 0.49
43 36 0.51
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:36329725 original size:16 final size:16
Alignment explanation
Indices: 36329704--36329743 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
36329694 TCAAATTCAT
36329704 GCACTGTTGCTGTCCA
1 GCACTGTTGCTGTCCA
36329720 GCACTGTTGCTGTCCA
1 GCACTGTTGCTGTCCA
*
36329736 ACACTGTT
1 GCACTGTT
36329744 TTACTACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.33
Consensus pattern (16 bp):
GCACTGTTGCTGTCCA
Found at i:36330053 original size:49 final size:49
Alignment explanation
Indices: 36329981--36330955 Score: 1617
Period size: 49 Copynumber: 19.8 Consensus size: 49
36329971 TAGCTGAAGC
* *
36329981 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
36330030 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * * *
36330080 CATCTGATACACGTAGTAGCCTGCACTTATTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * *
36330131 TATCAGCTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330180 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330229 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330278 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330327 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330376 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330425 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330474 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330523 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330572 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330621 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330670 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
36330719 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
36330768 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * * *
36330818 CATCTGATACACGTAGTAGCCTGCACTTATTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * *
36330869 TATCAGCTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
36330918 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAC
36330956 CGTGACCTCA
Statistics
Matches: 870, Mismatches: 50, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
49 702 0.81
50 94 0.11
51 74 0.09
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:36330728 original size:26 final size:26
Alignment explanation
Indices: 36330699--36330777 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
36330689 CCTGCACTTA
36330699 GTACTACACATGCGACCAATTATCTG
1 GTACTACACATGCGACCAATTATCTG
* *** *
36330725 GTAC-ACATAGTAGCCTGCACTTA---G
1 GTACTACACA-T-GCGACCAATTATCTG
36330749 -TACTACACATGCGACCAATTATCTG
1 GTACTACACATGCGACCAATTATCTG
36330774 GTAC
1 GTAC
36330778 ACGTAATAGC
Statistics
Matches: 36, Mismatches: 10, Indels: 14
0.60 0.17 0.23
Matches are distributed among these distances:
22 7 0.19
23 4 0.11
24 5 0.14
25 5 0.14
26 8 0.22
27 7 0.19
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (26 bp):
GTACTACACATGCGACCAATTATCTG
Found at i:36331645 original size:30 final size:30
Alignment explanation
Indices: 36331610--36331670 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
36331600 CCTTTAATAC
36331610 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* * *
36331640 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
36331670 A
1 A
36331671 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:36333747 original size:15 final size:15
Alignment explanation
Indices: 36333718--36333756 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
36333708 AACAGAGAAG
36333718 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
36333734 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
36333749 CCATGATA
1 CCAAGATA
36333757 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:36336272 original size:16 final size:17
Alignment explanation
Indices: 36336236--36336274 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
36336226 CAAATTCATG
36336236 CACTGTTGCTGTCCAGA
1 CACTGTTGCTGTCCAGA
36336253 -ACTGTTGCTGTCCA-A
1 CACTGTTGCTGTCCAGA
36336268 CACTGTT
1 CACTGTT
36336275 TTACTACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (17 bp):
CACTGTTGCTGTCCAGA
Found at i:36336589 original size:49 final size:49
Alignment explanation
Indices: 36336512--36336756 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
36336502 TAGCCGAAGC
* * *
36336512 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * *
36336561 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACAAACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
36336611 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* ** * *
36336662 TATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
36336711 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
36336757 TCACAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.49
50 46 0.28
51 37 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:36337439 original size:30 final size:30
Alignment explanation
Indices: 36337405--36337464 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36337395 CTTTAATATG
36337405 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
36337435 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
36337465 GGCTCGGGAA
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:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:36344923 original size:79 final size:81
Alignment explanation
Indices: 36344820--36345001 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 81
36344810 GCTCCTCGTT
* *
36344820 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36344883 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
36344900 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
36344964 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
36344980 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
36345002 AGACATCATT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:36344937 original size:39 final size:40
Alignment explanation
Indices: 36344820--36345001 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
36344810 GCTCCTCGTT
*
36344820 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
36344860 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36344900 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
36344939 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
36344980 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
36345002 AGACATCATT
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36347768 original size:47 final size:44
Alignment explanation
Indices: 36347656--36347827 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 44
36347646 GGGTTATTGT
36347656 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTATGA
* *
36347702 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATT-ATGA
* *
36347747 CGAGTGCTAGTGTACGACATGTCTGGGACATGCATCGGCC-TCTA-GAA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-TATG-A
* * *
36347794 GTAAGCCAGTGTAAGACGTGTCTAGGACATGCAT
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCAT
36347828 TGGCTACGAG
Statistics
Matches: 105, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
45 6 0.06
46 52 0.50
47 29 0.28
48 18 0.17
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTATGA
Found at i:36350285 original size:48 final size:48
Alignment explanation
Indices: 36350197--36350475 Score: 353
Period size: 48 Copynumber: 5.8 Consensus size: 48
36350187 AAATAAAGTA
* * ** *
36350197 CCAATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCG
* * * * * *
36350245 TCAATACCGTGTCCCAGACATGGTCTTACACTGGCACACATATCATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCG
* * * * *
36350293 CCTATGCCATGTCTCAAACATGGTCTTACACAGGCACATATATCAACA
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCG
* *
36350341 CCGATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCG
* * *
36350389 CCGATGCCATGTCCCAGGCATGGTCTTACACAGGAACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCG
36350437 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
36350476 TTAGCACGAT
Statistics
Matches: 200, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
47 1 0.00
48 199 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCG
Found at i:36352714 original size:39 final size:39
Alignment explanation
Indices: 36352687--36353029 Score: 479
Period size: 39 Copynumber: 8.7 Consensus size: 39
36352677 TAGTACCAAT
* * * *
36352687 ACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGT
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
*
36352726 ACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
* * *
36352765 ACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGC
1 ACGAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGC
* * * *
36352805 ACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGT
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
*
36352844 ACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
* * * *
36352883 ACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGT
1 ACGAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGC
* * *
36352923 ATGAAGCCTGGGGACCTTAAGTCCGGATACAATTCCAGT
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
*
36352962 ACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
36353001 ACGAAGCCTGCGGACCTTAAGTCCGGATA
1 ACGAAGCCTGCGGACCTTAAGTCCGGATA
36353030 TACATCAAAT
Statistics
Matches: 266, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
39 199 0.75
40 67 0.25
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.20
Consensus pattern (39 bp):
ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
Found at i:36352811 original size:79 final size:79
Alignment explanation
Indices: 36352687--36353029 Score: 469
Period size: 79 Copynumber: 4.4 Consensus size: 79
36352677 TAGTACCAAT
* * * * *
36352687 ACGAAGCCTGC-GGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCCG
1 ACGAAGCCTGCGGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCG
36352751 GATACAATTCCAGC
66 GATACAATTCCAGC
* * *
36352765 ACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCG
1 ACGAAGCCTGCGGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCG
* * * *
36352830 GATATAGTACCAGT
66 GATACAATTCCAGC
* * * *
36352844 ACGAAGCCTGC-GGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCC
1 ACGAAGCCTGCGGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGTCC
*
36352908 GGATACAATTCCAGT
65 GGATACAATTCCAGC
* * *
36352923 ATGAAGCCTG-GGGACCTTAAGTCCGGATACAATTCCAGTACGAAGCCTGCAGACCTTAAGTCCG
1 ACGAAGCCTGCGGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCG
36352987 GATACAATTCCAGC
66 GATACAATTCCAGC
36353001 ACGAAGCCTGC-GGACCTTAAGTCCGGATA
1 ACGAAGCCTGCGGGACCTTAAGTCCGGATA
36353030 TACATCAAAT
Statistics
Matches: 230, Mismatches: 31, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
78 96 0.42
79 134 0.58
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.20
Consensus pattern (79 bp):
ACGAAGCCTGCGGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCG
GATACAATTCCAGC
Found at i:36352858 original size:118 final size:118
Alignment explanation
Indices: 36352662--36353013 Score: 596
Period size: 118 Copynumber: 3.0 Consensus size: 118
36352652 GCCTACGGTA
* * * *
36352662 CTTTAAGCCCGGATATAGTACCAATACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTA
1 CTTTAAGCCCGGATACAATTCCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTA
36352727 CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
66 CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
*
36352780 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTA
1 CTTTAAGCCCGGATACAATTCCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTA
36352845 CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
66 CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * * * *
36352898 CTTTAAGCCCGGATACAATTCCAGTATGAAGCCTGGGGACCTTAAGTCCGGATACAATTCCAGTA
1 CTTTAAGCCCGGATACAATTCCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTA
* *
36352963 CGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGG
66 CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGG
36353014 ACCTTAAGTC
Statistics
Matches: 221, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 221 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (118 bp):
CTTTAAGCCCGGATACAATTCCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTA
CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
Found at i:36352943 original size:157 final size:157
Alignment explanation
Indices: 36352650--36353029 Score: 537
Period size: 157 Copynumber: 2.4 Consensus size: 157
36352640 CACCAACACA
* * * *
36352650 AAGCCTACGGTACTTTAAGCCCGGATATAGTACCAATACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGG-ACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGAT
* * * * *
36352715 ATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
65 ACAATACCAGCACGAAGCCTGCGGATCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGA
*
36352780 CTTTAAGCCCGGATACAATTCCAGCACG
130 CCTTAAGCCCGGATACAATTCCAGCACG
*
36352808 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATA
* * * *
36352873 CAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGTATGAAGCCTG-GGGA
66 CAATACCAGCACGAAGCCTGCGGATC-TTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGA
* *
36352937 CCTTAAGTCCGGATACAATTCCAGTACG
130 CCTTAAGCCCGGATACAATTCCAGCACG
* * * * *
36352965 AAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATA
36353030 TACATCAAAT
Statistics
Matches: 198, Mismatches: 23, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
157 159 0.80
158 39 0.20
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (157 bp):
AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATA
CAATACCAGCACGAAGCCTGCGGATCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGAC
CTTAAGCCCGGATACAATTCCAGCACG
Found at i:36359131 original size:31 final size:31
Alignment explanation
Indices: 36359084--36359147 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
36359074 TTTAGGTATT
*
36359084 CTTATTCTCTAAATGCATAGAAGCCAAAATC
1 CTTAGTCTCTAAATGCATAGAAGCCAAAATC
*
36359115 CTTAGTCTTTAAATGCATAGAAGCCAAAATC
1 CTTAGTCTCTAAATGCATAGAAGCCAAAATC
36359146 CT
1 CT
36359148 AAACCAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (31 bp):
CTTAGTCTCTAAATGCATAGAAGCCAAAATC
Found at i:36359190 original size:8 final size:8
Alignment explanation
Indices: 36359177--36359203 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
36359167 TCGAAATTGG
36359177 GAACTAGA
1 GAACTAGA
36359185 GAACTAGA
1 GAACTAGA
36359193 GAACTAGA
1 GAACTAGA
36359201 GAA
1 GAA
36359204 ATGGGACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.26, T:0.11
Consensus pattern (8 bp):
GAACTAGA
Found at i:36361267 original size:108 final size:108
Alignment explanation
Indices: 36361078--36361293 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
36361068 CTATTGGATC
*
36361078 ATCCCCTGATCTTACAATATTCAGCTTCTGTCTTAGTAGACTTCCAATCATTCTTGTCTTGGTTA
1 ATCCCCTGATCTTACAATATTCAGCTTCTATCTTAGTAGACTTCCAATCATTCTTGTCTTGGTTA
36361143 TGTGGCATGTAAATAGGTTTTGGTATGTCAAAGTGTATATATT
66 TGTGGCATGTAAATAGGTTTTGGTATGTCAAAGTGTATATATT
*
36361186 ATCCCCTGATCTTACACTATTCAGCTTCTATCTTAGTAGACTTCCAATCATTCTTGTCTTGGTTA
1 ATCCCCTGATCTTACAATATTCAGCTTCTATCTTAGTAGACTTCCAATCATTCTTGTCTTGGTTA
36361251 TGTGGCATGTAAATAGGTTTTGGTATGTCAAAGTGTATATATT
66 TGTGGCATGTAAATAGGTTTTGGTATGTCAAAGTGTATATATT
36361294 TGTTGGTAAA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (108 bp):
ATCCCCTGATCTTACAATATTCAGCTTCTATCTTAGTAGACTTCCAATCATTCTTGTCTTGGTTA
TGTGGCATGTAAATAGGTTTTGGTATGTCAAAGTGTATATATT
Found at i:36363327 original size:45 final size:45
Alignment explanation
Indices: 36363263--36363373 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
36363253 GCCTAACATA
* * *
36363263 AGTAAGACCATAGTTGAAAGATAATATTACATTATGATAAAGATG
1 AGTAAGACCATAGTTGAAAGATAATATGACATCATGATAAAAATG
* ** *
36363308 AGTAAAACCATAGTTGAAAGATGTTATGGCATCATGATAAAAATG
1 AGTAAGACCATAGTTGAAAGATAATATGACATCATGATAAAAATG
* *
36363353 AGTAAGACCATTGCTGAAAGA
1 AGTAAGACCATAGTTGAAAGA
36363374 AGCTATGGCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGATAATATGACATCATGATAAAAATG
Found at i:36363381 original size:45 final size:45
Alignment explanation
Indices: 36363296--36363384 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
36363286 ATATTACATT
* * * *
36363296 ATGATAAAGATGAGTAAAACCATAGTTGAAAGATGTTATGGCATC
1 ATGATAAAAATGAGTAAAACCATAGCTGAAAGAAGCTATGGCATC
* *
36363341 ATGATAAAAATGAGTAAGACCATTGCTGAAAGAAGCTATGGCAT
1 ATGATAAAAATGAGTAAAACCATAGCTGAAAGAAGCTATGGCAT
36363385 TAGGTGAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (45 bp):
ATGATAAAAATGAGTAAAACCATAGCTGAAAGAAGCTATGGCATC
Found at i:36366291 original size:18 final size:19
Alignment explanation
Indices: 36366262--36366301 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
36366252 AAATTAATAC
*
36366262 TTATATTTTTTAATTTAAT
1 TTATATTTTTTAATTAAAT
*
36366281 TTATA-TTTTTAGTTAAAT
1 TTATATTTTTTAATTAAAT
36366299 TTA
1 TTA
36366302 CTCATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATATTTTTTAATTAAAT
Found at i:36369100 original size:11 final size:11
Alignment explanation
Indices: 36369084--36369110 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
36369074 AACTTGGTAA
36369084 TTTATATCTAT
1 TTTATATCTAT
36369095 TTTATATCTAT
1 TTTATATCTAT
36369106 TTTAT
1 TTTAT
36369111 CGTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTATATCTAT
Found at i:36370106 original size:44 final size:44
Alignment explanation
Indices: 36370029--36370115 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
36370019 TCCTTTTAAA
* * * *
36370029 ATTTTAGGTTTAACGATAATACTAGTTAAATTCTTAAGAAGAGG
1 ATTTTAGATGTAACGATAAGACTAGTTAAATTCTTAAAAAGAGG
*
36370073 ATTTTAGATGTAACGATAAGAC-ACGTTACATTCTTAAAAAGAG
1 ATTTTAGATGTAACGATAAGACTA-GTTAAATTCTTAAAAAGAG
36370116 AATGTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.33
Consensus pattern (44 bp):
ATTTTAGATGTAACGATAAGACTAGTTAAATTCTTAAAAAGAGG
Found at i:36370836 original size:15 final size:16
Alignment explanation
Indices: 36370818--36370857 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
36370808 ATTACAACTA
36370818 TAATAATTATATTT-T
1 TAATAATTATATTTAT
36370833 TAATAATT-TATTTAT
1 TAATAATTATATTTAT
36370848 TAATATATTA
1 TAATA-ATTA
36370858 ATTATGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.23
15 14 0.64
16 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATAATTATATTTAT
Found at i:36378470 original size:13 final size:13
Alignment explanation
Indices: 36378452--36378478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36378442 TGAATTGACA
36378452 TGTGTGAAAATTT
1 TGTGTGAAAATTT
36378465 TGTGTGAAAATTT
1 TGTGTGAAAATTT
36378478 T
1 T
36378479 ATCATTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:36382500 original size:53 final size:53
Alignment explanation
Indices: 36382325--36382528 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 53
36382315 AGGGTTTAAG
* * * * * *
36382325 GATACCAGGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * *
36382379 GAAATCATGTAAGACCATGTCAAGACATGG-AATTGATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAA-TGGT-AAGTTC-ATAAGGCAAA
* * *
36382434 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* * *
36382487 GATACCACGTAAGACCATGTCAAAACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
36382529 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 47 0.39
54 32 0.27
55 38 0.32
56 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:36386174 original size:37 final size:37
Alignment explanation
Indices: 36386118--36386196 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
36386108 CCGAGCTCTA
* * *
36386118 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
36386155 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36386192 AAGAC
1 AAGAC
36386197 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36398617 original size:14 final size:14
Alignment explanation
Indices: 36398581--36398624 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
36398571 GTACAATATA
36398581 TATATGTTATAATAAT
1 TATATG-TAT-ATAAT
* *
36398597 AAAATGTATATAAT
1 TATATGTATATAAT
36398611 TATATGTATATAAT
1 TATATGTATATAAT
36398625 ATAAGTTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 17 0.71
15 3 0.12
16 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TATATGTATATAAT
Found at i:36399957 original size:13 final size:13
Alignment explanation
Indices: 36399939--36399963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36399929 AGAAAAAAAA
36399939 ATATGTGTATTTG
1 ATATGTGTATTTG
36399952 ATATGTGTATTT
1 ATATGTGTATTT
36399964 ATTTGTGATT
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:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
ATATGTGTATTTG
Found at i:36405286 original size:49 final size:49
Alignment explanation
Indices: 36405228--36405380 Score: 135
Period size: 49 Copynumber: 3.2 Consensus size: 49
36405218 GACTTTTTTT
36405228 TTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATTTTATATTGA
1 TTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATTTTATATTGA
* ** * * *
36405277 TTAGGATAAGGTGTCCATATAAA--ACTAGACTTCT-T-T-TTTT-T-TT--
1 TTAGAATAAGGT-T-TTTAAAAATTATTAAAC-TCTATCTATTTTATATTGA
**
36405320 TTAGAATAAGGTTTTTAAACCTTATTAAACTCTATCTATTTTATATTGA
1 TTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATTTTATATTGA
*
36405369 TTAGGATAAGGT
1 TTAGAATAAGGT
36405381 GTTTCAATCC
Statistics
Matches: 77, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
41 3 0.04
42 4 0.05
43 17 0.22
44 1 0.01
45 6 0.08
46 2 0.03
47 6 0.08
48 1 0.01
49 28 0.36
50 4 0.05
51 5 0.06
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (49 bp):
TTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATTTTATATTGA
Found at i:36405314 original size:86 final size:87
Alignment explanation
Indices: 36405204--36405382 Score: 288
Period size: 92 Copynumber: 2.0 Consensus size: 87
36405194 AAAAGTAAAA
36405204 TCCATATAAAACTAGACTT-TTTTTTTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATT
1 TCCATATAAAACTAGACTTCTTTTTTTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATT
36405268 TTATATTGATTAGGATAAGGTG
66 TTATATTGATTAGGATAAGGTG
**
36405290 TCCATATAAAACTAGACTTCTTTTTTTTTTTTAGAATAAGGTTTTTAAACCTTATTAAACTCTAT
1 TCCATATAAAACTAGACTTC-----TTTTTTTAGAATAAGGTTTTTAAAAATTATTAAACTCTAT
36405355 CTATTTTATATTGATTAGGATAAGGTG
61 CTATTTTATATTGATTAGGATAAGGTG
36405382 T
1 T
36405383 TTCAATCCTA
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
86 19 0.22
92 66 0.78
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (87 bp):
TCCATATAAAACTAGACTTCTTTTTTTAGAATAAGGTTTTTAAAAATTATTAAACTCTATCTATT
TTATATTGATTAGGATAAGGTG
Found at i:36408680 original size:57 final size:57
Alignment explanation
Indices: 36408619--36408736 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 57
36408609 AAACTTGATT
*
36408619 TGTCTATATTGATGTTAAATTCGA-TCATAAA-GCTGTCCAAAATAAGGTTATTCAAGC
1 TGTCTATATTGATGTTAAATT-GAGTCA-AAATGCTGTCCAAAATAACGTTATTCAAGC
* * * *
36408676 TGTCTATATTGATGTTTAATTGAGTCAAAATGTTGTCCAAATTAACGTTTTTCAAGC
1 TGTCTATATTGATGTTAAATTGAGTCAAAATGCTGTCCAAAATAACGTTATTCAAGC
36408733 TGTC
1 TGTC
36408737 CATTTGGACA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 5 0.09
57 49 0.91
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (57 bp):
TGTCTATATTGATGTTAAATTGAGTCAAAATGCTGTCCAAAATAACGTTATTCAAGC
Found at i:36414055 original size:43 final size:42
Alignment explanation
Indices: 36413907--36414057 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 42
36413897 TGTGATTACT
* * * * *
36413907 TGTAAGACCATGTCTGGGAAATTGGCAT-TATATTGAGAATACG
1 TGTAAGACCATATCTGGGATATTGGCATCGATATTGA-TA-ACA
* * * **
36413950 TGTAAGACCATGTCTGGGACATTGGCATC-ATTAATCGATTTCA
1 TGTAAGACCATATCTGGGATATTGGCATCGA-T-ATTGATAACA
* *
36413993 TGTAAGACCCTATCTGGGATAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATATCTGGGATATTGGCATCGATAT-TGATAACA
36414036 TGTAAGACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGATAT
36414058 GACATTGTAC
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.02
43 80 0.91
44 2 0.02
45 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATTGGCATCGATATTGATAACA
Found at i:36416033 original size:31 final size:31
Alignment explanation
Indices: 36415995--36416073 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
36415985 TTTAACGGTT
* *
36415995 ACTGGGCCGAAGTCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
36416026 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
36416057 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
36416074 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:36416169 original size:42 final size:42
Alignment explanation
Indices: 36416101--36416188 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
36416091 CCTTAGGCCT
* ** *
36416101 ATTTCAATATCACCTATAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATATAATACCAATGAATGTATGCAAGCCC
*
36416143 ATTTCAATATCACATGA-AATACCAATGAATGTATGCAAGCCT
1 ATTTCAATATCACAT-ATAATACCAATGAATGTATGCAAGCCC
36416185 ATTT
1 ATTT
36416189 GGGGAGACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (42 bp):
ATTTCAATATCACATATAATACCAATGAATGTATGCAAGCCC
Found at i:36416378 original size:26 final size:26
Alignment explanation
Indices: 36416333--36416456 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
36416323 CCTCTTTAAT
36416333 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
***
36416358 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
36416384 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
36416410 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
36416436 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
36416457 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 10 0.11
26 78 0.89
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:36416410 original size:52 final size:52
Alignment explanation
Indices: 36416333--36416456 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
36416323 CCTCTTTAAT
* *
36416333 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTA
36416384 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTA
36416436 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
36416457 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 10 0.14
52 60 0.86
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTA
Found at i:36417318 original size:27 final size:27
Alignment explanation
Indices: 36417257--36417321 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
36417247 GGCATATTCG
*
36417257 TCATTTTACCATACAGGGGCCTTACGA
1 TCATTTTACCTTACAGGGGCCTTACGA
* * *
36417284 TCACTTTACCTTACAGGGGCTTTACGG
1 TCATTTTACCTTACAGGGGCCTTACGA
*
36417311 TCTTTTTACCT
1 TCATTTTACCT
36417322 ATTAGGGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGCCTTACGA
Found at i:36417404 original size:27 final size:27
Alignment explanation
Indices: 36417374--36417621 Score: 135
Period size: 27 Copynumber: 9.1 Consensus size: 27
36417364 GTAAATCTAC
36417374 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
36417401 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
36417427 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* ** **
36417457 AAATC-AGGTGTATTTTGGTAATTTTAC
1 AAACCAAGG-GTATTTCAGTAATTTTGT
*** * ***
36417484 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
* ** **
36417511 AAA-CTAGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTGT
* * **
36417538 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
36417565 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *** *
36417592 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
36417619 AAA
1 AAA
36417622 TTGAGGGTAA
Statistics
Matches: 181, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
26 6 0.03
27 145 0.80
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:36417577 original size:54 final size:54
Alignment explanation
Indices: 36417351--36417589 Score: 232
Period size: 54 Copynumber: 4.4 Consensus size: 54
36417341 TTTCATCCTA
* * * * *
36417351 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
* * * * * *
36417405 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAAC
* * ***
36417461 C-AGGTGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGG-GTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
* * *
36417514 CTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
*
36417569 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
36417590 GTAAATCGAG
Statistics
Matches: 149, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
53 1 0.01
54 91 0.61
55 23 0.15
56 34 0.23
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
Found at i:36417622 original size:27 final size:27
Alignment explanation
Indices: 36417581--36417711 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
36417571 AGGGTATTTT
*
36417581 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
36417608 AGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
36417635 -GATAATTCTGTAAATTGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
36417662 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
36417689 GGTGATTCTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
36417712 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:36417630 original size:81 final size:81
Alignment explanation
Indices: 36417545--36417724 Score: 180
Period size: 81 Copynumber: 2.2 Consensus size: 81
36417535 TACAAACTAG
* **** * *
36417545 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAG
*
36417610 TAATTCTGTAAATTGA
66 TAATTCTGTAAATCGA
*** * * *** **
36417626 GGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGG
1 GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAG
*
36417691 TGATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
*
36417707 GGGTACTTTGGTAATTTT
1 GGGTAATTTGGTAATTTT
36417725 ACAAATTGAG
Statistics
Matches: 74, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGA
Found at i:36420084 original size:31 final size:31
Alignment explanation
Indices: 36420046--36420120 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
36420036 ACGGTTACTA
36420046 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
36420077 GGCCGAAGCCTTTTTATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
36420108 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
36420121 ACTGTAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:36420216 original size:42 final size:42
Alignment explanation
Indices: 36420144--36420235 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
36420134 TGGCCCTTAG
* * ** *
36420144 GCCCATTTCAGTATCACCTATAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAATGTATGCAA
36420186 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAATGTATGCAA
36420228 GCCCATTT
1 GCCCATTT
36420236 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAATGTATGCAA
Found at i:36420456 original size:26 final size:26
Alignment explanation
Indices: 36420379--36420527 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
36420369 CCTCTTTAAT
36420379 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
36420404 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
36420429 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
36420455 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
36420481 AACTGGGGCGTAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
36420507 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
36420528 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 33 0.30
26 77 0.70
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:36420489 original size:52 final size:52
Alignment explanation
Indices: 36420379--36420527 Score: 257
Period size: 52 Copynumber: 2.9 Consensus size: 52
36420369 CCTCTTTAAT
36420379 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
36420429 AACTGGGGCATAAGCCCTTTTTGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
36420481 AACTGGGGCGTAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
36420528 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 10 0.11
51 24 0.26
52 59 0.63
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:36421365 original size:27 final size:26
Alignment explanation
Indices: 36421330--36421423 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
36421320 TGGCATATTC
*
36421330 GTCATTTTACCATATAGGGG-TATTACG
1 GTCATTTTACC-TACAGGGGCT-TTACG
*
36421357 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTA-CCTACAGGGGCTTTACG
* *
36421384 GTTAGTTTACCTTACAGGGGCTTTACG
1 GTCATTTTACC-TACAGGGGCTTTACG
*
36421411 GTCTTTTTACCTA
1 GTCATTTTACCTA
36421424 TTAGGGGTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.07
27 50 0.88
28 3 0.05
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGCTTTACG
Found at i:36421505 original size:27 final size:27
Alignment explanation
Indices: 36421479--36421852 Score: 204
Period size: 27 Copynumber: 13.8 Consensus size: 27
36421469 ATCTACAAAC
* *
36421479 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* **
36421506 CAATGGTATTTCTATAATTTT-TAGAAAGT
1 CAAGGGTATTTCGGTAATTTTGT--AAA-T
*
36421535 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* **
36421562 C-AGGTGTATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTCGGTAATTTTGTAAAT
** ***
36421589 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* * **
36421615 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTGTAAAT
* * *
36421642 CTAGGGGTATTTTGGTAATTTTGTAAAC
1 C-AAGGGTATTTCGGTAATTTTGTAAAT
**
36421670 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* ***
36421697 CGAGGGTAAAACGGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* ** *
36421724 CGAGGGTAAAAT-GGTAATTCTGTAAAT
1 CAAGGGT-ATTTCGGTAATTTTGTAAAT
** ** *
36421751 TGAGGGTAAAAT-GGTAATTTTATAAAT
1 CAAGGGT-ATTTCGGTAATTTTGTAAAT
* *** *
36421778 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* ***
36421805 CGAGGGTAAAACGGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
*
36421832 CGAGGGTACTTT-GGTAATTTT
1 CAAGGGTA-TTTCGGTAATTTT
36421853 ACAAATTGAG
Statistics
Matches: 292, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.03
27 249 0.85
28 14 0.05
29 19 0.07
30 1 0.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTGTAAAT
Done.