Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 249 of 332
Found at i:82977662 original size:18 final size:18
Alignment explanation
Indices: 82977618--82977652 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82977608 AATATTATTC
*
82977618 TCAAAAGTATTTTTAAAA
1 TCAAAAGCATTTTTAAAA
82977636 TCAAAAGCATTTTTAAA
1 TCAAAAGCATTTTTAAA
82977653 GTAAGAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (18 bp):
TCAAAAGCATTTTTAAAA
Found at i:82978129 original size:34 final size:34
Alignment explanation
Indices: 82978090--82978156 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
82978080 TTTATAATAT
*
82978090 AATGTCTAAAATAGACATTTTATTTATTAAAAGC
1 AATGTCTAAAATAGACACTTTATTTATTAAAAGC
82978124 AATGTCTAAAATAGACACTTTATTTATTAAAAG
1 AATGTCTAAAATAGACACTTTATTTATTAAAAG
82978157 TATTTTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (34 bp):
AATGTCTAAAATAGACACTTTATTTATTAAAAGC
Found at i:82978217 original size:13 final size:13
Alignment explanation
Indices: 82978201--82978264 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
82978191 TAAATTAAAA
82978201 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
82978214 TTTTCAAAA-TCAC
1 TTTTCAAAAGT-AC
* *
82978227 TTTTCCACAA-CAC
1 TTTT-CAAAAGTAC
*
82978240 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
*
82978253 TTCTCAAAAGTA
1 TTTTCAAAAGTA
82978265 ATTCTAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:82981282 original size:27 final size:27
Alignment explanation
Indices: 82981244--82981295 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
82981234 ACTTCATCAT
82981244 TAGTTTTCATTGTATACACCCAAACAC
1 TAGTTTTCATTGTATACACCCAAACAC
82981271 TAGTTTTCATTGTATACACCCAAAC
1 TAGTTTTCATTGTATACACCCAAAC
82981296 TCTTCTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.35
Consensus pattern (27 bp):
TAGTTTTCATTGTATACACCCAAACAC
Found at i:82982060 original size:20 final size:20
Alignment explanation
Indices: 82982035--82982075 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
82982025 AGTATCTCGC
82982035 TCTATAATACATGCATCTAG
1 TCTATAATACATGCATCTAG
82982055 TCTATAATACATGCATCTAG
1 TCTATAATACATGCATCTAG
82982075 T
1 T
82982076 GCACTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCTATAATACATGCATCTAG
Found at i:82985182 original size:63 final size:63
Alignment explanation
Indices: 82985109--82985234 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
82985099 GTGACAGCGA
*
82985109 CTCATTATATATTGACCAGAACACATTCAACATAATTTATTCACCAATGCTTGTAAATTGATG
1 CTCATTATATATTGACCAGAACACATTCAACATAATTTATTCACCAATGCTCGTAAATTGATG
*
82985172 CTCATTATATATTGACCAGAACACATTCAACATAATTTATTCACCAGTGCTCGTAAATTGATG
1 CTCATTATATATTGACCAGAACACATTCAACATAATTTATTCACCAATGCTCGTAAATTGATG
82985235 TCAAATTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (63 bp):
CTCATTATATATTGACCAGAACACATTCAACATAATTTATTCACCAATGCTCGTAAATTGATG
Found at i:82985326 original size:28 final size:28
Alignment explanation
Indices: 82985295--82985351 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
82985285 TAGAACGTTG
82985295 AAGTTAATAAAAATAAATATAAGATTTA
1 AAGTTAATAAAAATAAATATAAGATTTA
82985323 AAGTTAATAAAAATAAATATAAGATTTA
1 AAGTTAATAAAAATAAATATAAGATTTA
82985351 A
1 A
82985352 CTATCTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (28 bp):
AAGTTAATAAAAATAAATATAAGATTTA
Found at i:82988359 original size:55 final size:56
Alignment explanation
Indices: 82988294--82988398 Score: 126
Period size: 56 Copynumber: 1.9 Consensus size: 56
82988284 AGCATGGCTG
* *
82988294 CCAGATACAGA-A-AGTGTGACAGAGTCACCAGATACAGATATTTTGTGGCAATGCCA
1 CCAGATACAGATATA-TGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAATGCCA
* * *
82988350 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAATAGATAATTTGTGGCA
1 CCAGATACAGATATATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
82988399 TAACCACCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
55 20 0.48
56 21 0.50
57 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (56 bp):
CCAGATACAGATATATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAATGCCA
Found at i:82988376 original size:27 final size:27
Alignment explanation
Indices: 82988319--82988398 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
82988309 GTGACAGAGT
*
82988319 CACCAGATACAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATA-TTTGTGGCAAGGC
* *
82988348 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAAGGC
*
82988375 CACCAGAATAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
82988399 TAACCACCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.49
28 16 0.36
29 7 0.16
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAGGC
Found at i:82988405 original size:28 final size:27
Alignment explanation
Indices: 82988319--82988408 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
82988309 GTGACAGAGT
*
82988319 CACCAGATACAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATAATTTGTGGCAA-GC
* *
82988348 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
* *
82988375 CACCAGAATAGATAATTTGTGGCATAAC
1 CACCAGAACAGATAATTTGTGGCA-AGC
82988403 CACCAG
1 CACCAG
82988409 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCAAGC
Found at i:82988561 original size:28 final size:28
Alignment explanation
Indices: 82988514--82988580 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
82988504 AAATTAACCC
*
82988514 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
82988542 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
82988570 TAGGGGTATAA
1 TAGGGGTATAA
82988581 TAGTACATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:82995571 original size:27 final size:27
Alignment explanation
Indices: 82995519--82995598 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
82995509 GTGATAGAGT
*
82995519 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
82995548 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
*
82995575 CACAAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
82995599 TAACCACCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 23 0.50
28 16 0.35
29 7 0.15
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:82995761 original size:28 final size:28
Alignment explanation
Indices: 82995714--82995806 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
82995704 AAATTAACCC
* * *
82995714 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
82995742 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
82995770 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
82995798 TAGGGGTAT
1 TAGGGGTAT
82995807 AATAGTACAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.37
Consensus pattern (28 bp):
TAGGGGTATTATGGTAATTTTGCATACA
Found at i:82996092 original size:8 final size:8
Alignment explanation
Indices: 82996058--82996088 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
82996048 AATACCAGCC
82996058 TTTCGGCA
1 TTTCGGCA
82996066 TTTCGGCA
1 TTTCGGCA
*
82996074 TTTCGGCT
1 TTTCGGCA
82996082 TTTCGGC
1 TTTCGGC
82996089 TTTTACCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.06, C:0.26, G:0.26, T:0.42
Consensus pattern (8 bp):
TTTCGGCA
Found at i:82996908 original size:5 final size:5
Alignment explanation
Indices: 82996893--82996936 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
82996883 AGATAGATGG
* *
82996893 AGAAA AAAAA AGAAA AGAAA AGAAA A-AAA AGGAAA GGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A-GAAA AGAAA AGAA
82996937 GGAAGAATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 26 0.79
6 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:82996916 original size:20 final size:20
Alignment explanation
Indices: 82996893--82996936 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
82996883 AGATAGATGG
82996893 AGAAAAAAAAAGAAAAGAAA
1 AGAAAAAAAAAGAAAAGAAA
* *
82996913 AGAAAAAAAAGGAAAGGAAA
1 AGAAAAAAAAAGAAAAGAAA
82996933 AGAA
1 AGAA
82996937 GGAAGAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAGAAAAGAAA
Found at i:83008859 original size:30 final size:30
Alignment explanation
Indices: 83008825--83008912 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
83008815 TTTTCGATCA
83008825 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
*
83008855 TAGGGATAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
* * *
83008885 TTGAGGTAAAATGGTCATTTTACCAAAG
1 TAGGGGTAAAATGGTCATTTTGCCAAAG
83008913 ATGTAAATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
TAGGGGTAAAATGGTCATTTTGCCAAAGTC
Found at i:83009357 original size:47 final size:48
Alignment explanation
Indices: 83009285--83009561 Score: 182
Period size: 47 Copynumber: 5.9 Consensus size: 48
83009275 CGGCCACATT
* * *
83009285 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAG
1 ATGAGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAG
** *
83009333 ATGAGTGCTAGTGTAAGA-CATGTCTAGGACAT-ATATCGGCCTCGAG
1 ATGAGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAG
* * *
83009379 ATGA-TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAG
1 ATGAGT-GCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAG
* * * * ** * *
83009426 ACGTA-AGCCAGTATAAGA-CATGAGTGGGACAT-GCATCGAC-TACGAG
1 ATG-AGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT-CGAG
** * * *
83009472 ATGA-TATTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAG
1 ATGAGTGCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAG
* * * *
83009519 ATGTA-AGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGCA
1 ATG-AGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
83009562 CCTTACCTAT
Statistics
Matches: 184, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
45 12 0.07
46 48 0.26
47 91 0.49
48 33 0.18
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
ATGAGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAG
Found at i:83009474 original size:93 final size:93
Alignment explanation
Indices: 83009294--83009537 Score: 321
Period size: 93 Copynumber: 2.6 Consensus size: 93
83009284 TATGAGAGCT
* * * * * *
83009294 AGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGATG-AGTGCTAGTGTAAGACATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGTA-AGCCAGTGTAAGACATGACT
* *
83009358 AGGACATATATCGGCCTCGAGATGATAGTC
64 AGGACATACATCGGACTCGAGATGATAGTC
* * * *
83009388 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTATAAGACATGAGTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGACATGACTAG
* *
83009453 GACATGCATC-GACTACGAGATGATATTC
66 GACATACATCGGACT-CGAGATGATAGTC
83009481 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGAC
83009538 CGTGTCTGGG
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
92 3 0.02
93 98 0.74
94 31 0.23
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGACATGACTAG
GACATACATCGGACTCGAGATGATAGTC
Found at i:83017139 original size:47 final size:47
Alignment explanation
Indices: 83016976--83017290 Score: 200
Period size: 47 Copynumber: 6.7 Consensus size: 47
83016966 TGTGTGGGAT
* * *
83016976 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGATAGCC
* * * * ** * *
83017022 AGTGTAAGTGACCATGTGTAGGACATGGCGTCGGCATTAAGACGAGT-GCT
1 AGTGTAA--GACCATGTCTGGGACAT-GCATCGGCCTCGAGATGA-TAGCC
* * *
83017072 AGTGTAAGA-TATGTCTGGGACATGCGTCGGCCTCGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
* * * * *
83017118 AGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGATACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGAT-AGCC
* * * *
83017165 AGTGTAAGA-CATGTCTGGGATATGCATCGG-TTACTAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGATAGCC
* * *
83017211 AATGTAAGACCATGTCTGGGACATGACATC-GACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGATGAT-AGCC
* * *
83017258 AGTGTAAGACCGTGTTTGGAACATTGCATCGGC
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGGC
83017291 ACCTTACCCA
Statistics
Matches: 204, Mismatches: 46, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
45 7 0.03
46 61 0.30
47 88 0.43
48 16 0.08
49 12 0.06
50 19 0.09
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
Found at i:83017204 original size:93 final size:92
Alignment explanation
Indices: 83016976--83017290 Score: 301
Period size: 93 Copynumber: 3.3 Consensus size: 92
83016966 TGTGTGGGAT
* * * * *
83016976 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGTGACCATGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA-GATGATAGTCAGTGTAA--GACCATGTCT
* * * * * *
83017041 AGGACATGGCGTCGGCATTAAGACG-AGTGCT
63 GGGACATGGCATCGAC-TTGAGACGTA-AGCC
* * *
83017072 AGTGTAAGATATGTCTGGGACATGCGTCGGCCT-CGAGATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTAC-AGATGATAGTCAGTGTAAGACCATGTCTG
*
83017136 GGACATGGCATCGACTTGATACGTAAGCC
64 GGACATGGCATCGACTTGAGACGTAAGCC
* * *
83017165 AGTGTAAGACATGTCTGGGATATGCATCGGTTACTAGATGATAGTCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-AGATGATAGTCAGTGTAAGACCATGTCTGG
* ** *
83017230 GACATGACATCGACTTGAGATATGAGCC
65 GACATGGCATCGACTTGAGACGTAAGCC
* * *
83017258 AGTGTAAGACCGTGTTTGGAACATTGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGC
83017291 ACCTTACCCA
Statistics
Matches: 182, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
92 1 0.01
93 96 0.53
94 32 0.18
95 8 0.04
96 43 0.24
97 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGATGATAGTCAGTGTAAGACCATGTCTGGG
ACATGGCATCGACTTGAGACGTAAGCC
Found at i:83022956 original size:27 final size:27
Alignment explanation
Indices: 83022889--83023015 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 27
83022879 CATCAAGTAG
* * *
83022889 GGGCAAAATAGTCATCTTATCACCTAA
1 GGGCAAAATAGTCATTTTACCACATAA
* *
83022916 GGGTAAATTAGTCATTTTACCACATAA
1 GGGCAAAATAGTCATTTTACCACATAA
* *
83022943 GGGCAAAATCGTCATTTTACCACATGA
1 GGGCAAAATAGTCATTTTACCACATAA
* ****
83022970 GGGCAAAATAGTCAGTTTGTTGCATAA
1 GGGCAAAATAGTCATTTTACCACATAA
*
83022997 GGGAAAAATAGTCATTTTA
1 GGGCAAAATAGTCATTTTA
83023016 TTTTACAGGG
Statistics
Matches: 81, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCACATAA
Found at i:83023085 original size:27 final size:27
Alignment explanation
Indices: 83023006--83023095 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
83022996 AGGGAAAAAT
** * *
83023006 AGTCATTTTATTTTACAGGGGTATTAC
1 AGTCATTTTATCCTACTGGGGTATTTC
* * *
83023033 AATCATTTTATCCTACTAGGGAATTTC
1 AGTCATTTTATCCTACTGGGGTATTTC
*
83023060 AGTCATTTTATCCTA-TGGGGGTATTTT
1 AGTCATTTTATCCTACT-GGGGTATTTC
*
83023087 GGTCATTTT
1 AGTCATTTT
83023096 CAAGTAAATA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (27 bp):
AGTCATTTTATCCTACTGGGGTATTTC
Found at i:83029200 original size:18 final size:18
Alignment explanation
Indices: 83029177--83029213 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
83029167 CTTGGCCAAT
83029177 TACAATAATAGTAAACAG
1 TACAATAATAGTAAACAG
83029195 TACAATAATAGTAAACAG
1 TACAATAATAGTAAACAG
83029213 T
1 T
83029214 GCAGTAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
TACAATAATAGTAAACAG
Found at i:83029630 original size:27 final size:28
Alignment explanation
Indices: 83029563--83029696 Score: 116
Period size: 27 Copynumber: 5.0 Consensus size: 28
83029553 CATCACGTAG
* * *
83029563 GGGCAAAAC-AGTCATCTTAACATCTAA
1 GGGCAAAACTAGTCATTTTACCATATAA
* *
83029590 GGG-TAAATTAGTCATTTTACCATATAA
1 GGGCAAAACTAGTCATTTTACCATATAA
* *
83029617 GGGCAAAACT-GTCATTTTACCACATGA
1 GGGCAAAACTAGTCATTTTACCATATAA
* * **
83029644 GGGCAAAA-TAGTCAATTTATCGCATAA
1 GGGCAAAACTAGTCATTTTACCATATAA
* *
83029671 GGG-AAAAATAGTCATTTTACCTTATA
1 GGGCAAAACTAGTCATTTTACCATATA
83029697 GGGGTGTTAC
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
26 8 0.09
27 74 0.86
28 4 0.05
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (28 bp):
GGGCAAAACTAGTCATTTTACCATATAA
Found at i:83032471 original size:937 final size:936
Alignment explanation
Indices: 83030657--83032526 Score: 2800
Period size: 937 Copynumber: 2.0 Consensus size: 936
83030647 AGAAGTCGAT
*
83030657 AGAAGAAGGAGGATGGAAAAGAACTAACTATTCGGCCAAAGGAACAAAGAACACCAAAGCCAAAC
1 AGAAGAAGGAGGATGGAAAAGAACTAACTATTCGACCAAAGGAACAAAGAACACCAAAGCCAAAC
* ** *
83030722 CCCCTTTTCCTAGAGGAAAACTGAAAGTAGGAGAGGGAAAAGAATGAGGTATTCAGTTTTAAATA
66 CCCCTTTTCCTAGAGAAAAACCAAAAGCAGGAGAGGGAAAAGAATGAGGTATTCAGTTTTAAATA
* * *
83030787 AAGGAAAGGATACACGATAAAAGTCGAAGAATAAAGGGAGAAGAGTAGAAAAGGGTATTCGGCTA
131 AAGGAAAAGATACACGATAAAAGCCAAAGAATAAAGGGAGAAGAGTAGAAAAGGGTATTCGGCTA
* * *
83030852 TCTCACACCAAGATGGAGGAGAGGGAAGGATACAGCTAAACAACAAGGTGATAGAAATAGGAAGA
196 TCTCACACCAAGATGGAGGAGAGGGAAGGACACAGCCAAACAACAAGGTGAAAGAAATAGGAAGA
* *
83030917 ATTGAGAGAGGATGCTAGCAAAAATTGGCAAAGGTTTAAGCAAGGAAAAGAAAGATAGAGATGAG
261 ATTGAGAGAGGATGCTAGCAAAAATCGGCAAAGGTTTAAGCAAGGAAAAGAAAGACAGAGATGAG
* ** *
83030982 CAGATTAACAAAAAGAACAGAATTTTATGAATAGGAACCCAAACCAGAAGTATAACGGCAGAAAA
326 CACATTAACAAAAAGAACAGAATCCTATGAATAGGAACCCAAACCAGAAGTATAACGGCAAAAAA
* * * *
83031047 ATCGAGGCATAAGAAGAGAACAAAGAGAAAAAGAAAAAGGAAAACATGTTATCAGTCATCAAAAT
391 ATAGAGGCATAAGAAGAGAACAAAGAGAAAAAGAAAAAGGAAAACAGGTTAACAGTCACCAAAAT
* * * * *
83031112 GAGGAGCACTTGCCAGTCTCTAAAACCAAACTCTGAGTGTTGAGAGTCCACAATTGGCACCAATA
456 AAGAAGCACTTGCCAGTCTCCAAAACCAAACTCTGAGTGTTGAGAGTCCACAAATGGCACCAACA
* * *
83031177 CTCCCACCAATTCGAATTCCCCAATTTCCCCTTAAAAGCCTTCCTGTTCACAAACCTTAACAACT
521 CTCCCACCAATTCAAATTCCCCAATTTCCCCTTAAAAGCCCTCCTGTTCACAAACCTCAACAACT
* * * * *
83031242 GAAAATCCCCTTTTTCACTCCCTAAATTCGGCTAACAACAACCCCATTCAAATATGTTCAAACTC
586 AAAAATCCCCCTTTTCACTCCCCAAATTCAGCAAACAACAACCCCATTCAAATATGTTCAAACTC
* * * *
83031307 TAGGTGTTTCGGTCAAACACAACTTCCTCCCATGACCACCAGAAAAAATAATCCCTATTTGCATA
651 TAGGTGTTTCGGACAAACACAACTTCCTCCCATGACCACCAGAAAAAATAATCCCCAGTTGCACA
* * * * * **
83031372 AGTAGGGATTCGAACCTCAGACTAGTAGCACACTCCACACGCCACTATCCACTAGACTTGCAGGC
716 AGCAAGGATTCAAACCTCAGACCACTAGCACACTCCACACGCCACTATCCACTAGACCAGCAGGC
**
83031437 CCTTTCTATTTTGTTTTTACCAAAATAAACTTATAACCCTACTGGCCAAAAATAGGGGTTTTATC
781 CCTTTCTATCATGTTTTTACCAAAATAAACTTATAACCCTACTGGCCAAAAATAGGGGTTTTATC
* * *
83031502 CTGAAAAAGAAAAATTTTGTGGAAGTTAGGACTTGAACCCATAAATTTCCAAACACTTCCAGAGC
846 CTGAAAAAGAAAAATTTTGTGGAAGCTAGGACTTGAACCCATAAATTCCCAAACACTTCCAGAAC
*
83031567 ACACAGCCACTAAGCCAAACACTTCC
911 ACACAACCACTAAGCCAAACACTTCC
* *
83031593 AGAAGAAGGAGGATGGAAAAGAACTAACTATTCGACCAAAGGAACAGAGAACACCAAAGCCAAAT
1 AGAAGAAGGAGGATGGAAAAGAACTAACTATTCGACCAAAGGAACAAAGAACACCAAAGCCAAAC
*
83031658 CCCC-TTTCCTAGAGAAAAACCAAAAGCAGGAGAGGGGAAAA-AATGAGGTATTTAGTTTTAAAA
66 CCCCTTTTCCTAGAGAAAAACCAAAAGCAGGAGA-GGGAAAAGAATGAGGTATTCAGTTTT-AAA
* *
83031721 TGAAGGAAAAGATACTCGATAAAAGCCAAAGAATAAAGGGAGAAGAGTAGAAAAGGGTATTCGGC
129 TAAAGGAAAAGATACACGATAAAAGCCAAAGAATAAAGGGAGAAGAGTAGAAAAGGGTATTCGGC
* * *
83031786 TATCTCACACCAAGATGGAGAGAGAGGGAAGGACACAGCCAAACAGCAAGGTGAAAGCAATAGGG
194 TATCTCACACCAAGATGGAG-GAGAGGGAAGGACACAGCCAAACAACAAGGTGAAAGAAATAGGA
*
83031851 AGAATTGAGAGAGGATGCTAGCAAAAATCGGCAAAGGTTTAAGCAAGGAAAAGAAAGACAGTG-T
258 AGAATTGAGAGAGGATGCTAGCAAAAATCGGCAAAGGTTTAAGCAAGGAAAAGAAAGACAGAGAT
* * ** *
83031915 GAGCACATTAACAAAGAGAAC-GAAATCCTATTAATAGGAACCTGAACCAGTAGTATAACGGCAA
323 GAGCACATTAACAAAAAGAACAG-AATCCTATGAATAGGAACCCAAACCAGAAGTATAACGGCAA
* * * *
83031979 AAAAATAGGGGC-TGAAGGAGTGAACAAAGAGAAAAAGAAAAAGGAAAATAGGTTAACAGTCACC
387 AAAAATAGAGGCAT-AAGAAGAGAACAAAGAGAAAAAGAAAAAGGAAAACAGGTTAACAGTCACC
* * * *
83032043 GAAATAAGAAGCACTTGCCAGTCTCCAAAATCGAACTCTGAGTGTTGAGAGTCCATAAATGGCAC
451 AAAATAAGAAGCACTTGCCAGTCTCCAAAACCAAACTCTGAGTGTTGAGAGTCCACAAATGGCAC
* * *
83032108 CAACACTCCCACCAAATTCAAATTCCCCTATTTCCTCTTAAAATCCCTCCTGTTCACAAACCTCA
516 CAACACTCCCACC-AATTCAAATTCCCCAATTTCCCCTTAAAAGCCCTCCTGTTCACAAACCTCA
* *
83032173 ACAA-TCAAAAATCCCCCTTTTCACTCCCCAAATTCAGCAAACAGCAACCCCATTCAAATCTGTT
580 ACAACT-AAAAATCCCCCTTTTCACTCCCCAAATTCAGCAAACAACAACCCCATTCAAATATGTT
* * **
83032237 CAAACTCTGGGTGTTTCGGACAAGCACAACTTCCTCCCATGGTCACCAGCAAAAAA-AATCCCCA
644 CAAACTCTAGGTGTTTCGGACAAACACAACTTCCTCCCATGACCACCAG-AAAAAATAATCCCCA
* *
83032301 GTTGCACAAGCAATGATTCAAACCTCAGACCACTAGCACACTCTACACGCCACTATCCACTAGAC
708 GTTGCACAAGCAAGGATTCAAACCTCAGACCACTAGCACACTCCACACGCCACTATCCACTAGAC
* *
83032366 CAGCAGGCCTTTTCTATCATGTTTTTACCAAAATAAACTTATAACCCTACTGGCCAAAGATAGGG
773 CAGCAGGCCCTTTCTATCATGTTTTTACCAAAATAAACTTATAACCCTACTGGCCAAAAATAGGG
* * * *
83032431 GTTTTATCCTTAAAAAGAAAAATTTTGTGGAAGCTAGGACTTGAACCCATGACTTCCCAGACACT
838 GTTTTATCCTGAAAAAGAAAAATTTTGTGGAAGCTAGGACTTGAACCCATAAATTCCCAAACACT
*
83032496 TCCAGAACGCACAACCACTAAGCCAAACACT
903 TCCAGAACACACAACCACTAAGCCAAACACT
83032527 CAATTGTGTC
Statistics
Matches: 835, Mismatches: 91, Indels: 15
0.89 0.10 0.02
Matches are distributed among these distances:
935 44 0.05
936 334 0.40
937 451 0.54
938 6 0.01
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (936 bp):
AGAAGAAGGAGGATGGAAAAGAACTAACTATTCGACCAAAGGAACAAAGAACACCAAAGCCAAAC
CCCCTTTTCCTAGAGAAAAACCAAAAGCAGGAGAGGGAAAAGAATGAGGTATTCAGTTTTAAATA
AAGGAAAAGATACACGATAAAAGCCAAAGAATAAAGGGAGAAGAGTAGAAAAGGGTATTCGGCTA
TCTCACACCAAGATGGAGGAGAGGGAAGGACACAGCCAAACAACAAGGTGAAAGAAATAGGAAGA
ATTGAGAGAGGATGCTAGCAAAAATCGGCAAAGGTTTAAGCAAGGAAAAGAAAGACAGAGATGAG
CACATTAACAAAAAGAACAGAATCCTATGAATAGGAACCCAAACCAGAAGTATAACGGCAAAAAA
ATAGAGGCATAAGAAGAGAACAAAGAGAAAAAGAAAAAGGAAAACAGGTTAACAGTCACCAAAAT
AAGAAGCACTTGCCAGTCTCCAAAACCAAACTCTGAGTGTTGAGAGTCCACAAATGGCACCAACA
CTCCCACCAATTCAAATTCCCCAATTTCCCCTTAAAAGCCCTCCTGTTCACAAACCTCAACAACT
AAAAATCCCCCTTTTCACTCCCCAAATTCAGCAAACAACAACCCCATTCAAATATGTTCAAACTC
TAGGTGTTTCGGACAAACACAACTTCCTCCCATGACCACCAGAAAAAATAATCCCCAGTTGCACA
AGCAAGGATTCAAACCTCAGACCACTAGCACACTCCACACGCCACTATCCACTAGACCAGCAGGC
CCTTTCTATCATGTTTTTACCAAAATAAACTTATAACCCTACTGGCCAAAAATAGGGGTTTTATC
CTGAAAAAGAAAAATTTTGTGGAAGCTAGGACTTGAACCCATAAATTCCCAAACACTTCCAGAAC
ACACAACCACTAAGCCAAACACTTCC
Found at i:83036940 original size:15 final size:16
Alignment explanation
Indices: 83036920--83036949 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83036910 TTTATTTATG
83036920 ACAATCAT-ACATTTC
1 ACAATCATAACATTTC
83036935 ACAATCATAACATTT
1 ACAATCATAACATTT
83036950 AATTTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (16 bp):
ACAATCATAACATTTC
Found at i:83044581 original size:42 final size:43
Alignment explanation
Indices: 83044534--83044640 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 43
83044524 GATGTGTTTC
* * *
83044534 CATGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATTT
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
* *
83044576 CATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
*
83044619 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCATGTCTGGGAC
83044641 GTTAGCATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 29 0.51
43 28 0.49
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
Found at i:83051399 original size:13 final size:13
Alignment explanation
Indices: 83051381--83051405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83051371 AAATTAAAAT
83051381 GTGTGAAAATTTC
1 GTGTGAAAATTTC
83051394 GTGTGAAAATTT
1 GTGTGAAAATTT
83051406 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:83052570 original size:42 final size:43
Alignment explanation
Indices: 83052521--83052635 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
83052511 GATGTGTTTT
*
83052521 CATGTAAGACCATGTCTGGGACA-TCGGCATCG-TATATGATTT
1 CATGTAAGACCATGTCTGGGACAGT-GGCATCGATATATGATTA
** * *
83052563 TTTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
*
83052606 CATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CATGTAAGACCATGTCTGGGACAG-TGGCAT
83052636 TGTACAAGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
Found at i:83066580 original size:13 final size:13
Alignment explanation
Indices: 83066562--83066587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83066552 TATTTGTAAA
83066562 CTTGTTCATTTCC
1 CTTGTTCATTTCC
83066575 CTTGTTCATTTCC
1 CTTGTTCATTTCC
83066588 TTTCTCTTTA
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:0.08, C:0.31, G:0.08, T:0.54
Consensus pattern (13 bp):
CTTGTTCATTTCC
Found at i:83068653 original size:53 final size:53
Alignment explanation
Indices: 83068573--83068679 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
83068563 TATGCATGTC
** *
83068573 TGATTAATCTGTTTTCTGTATATAAGCTTGTTGTGTATGTTTAATCTGTTATT
1 TGATTAATCCATTTTCTGTATATAAGCTTGTTGTGTATGTTTAATATGTTATT
83068626 TGATTAATCCATTTTCTGTATATAAGCTTGTTGTGTATGTTTAATATGTTATT
1 TGATTAATCCATTTTCTGTATATAAGCTTGTTGTGTATGTTTAATATGTTATT
83068679 T
1 T
83068680 CTGTATCTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.54
Consensus pattern (53 bp):
TGATTAATCCATTTTCTGTATATAAGCTTGTTGTGTATGTTTAATATGTTATT
Found at i:83074018 original size:28 final size:27
Alignment explanation
Indices: 83073952--83074075 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
83073942 ACCCCCCCCA
* ** *
83073952 ATTTATAAAATTACCCAAATATCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
83073979 ATTTGTAAAATTACTAAAATAAACCCT-G
1 ATTTGTAAAATTACTAAAAT--ACCCTCG
*
83074007 ATTTGTAAAATTACTGAAATACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
* * *
83074034 ACTTGTAAAATTACCAAAGTACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
* *
83074061 ATTTATAGAATTACT
1 ATTTGTAAAATTACT
83074076 GTTTTACTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.06
27 52 0.64
28 20 0.25
29 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCTCG
Found at i:83074090 original size:27 final size:28
Alignment explanation
Indices: 83074056--83074140 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 28
83074046 ACCAAAGTAC
83074056 CCTCGATTTATAGAATTACTGTTTTACT
1 CCTCGATTTATAGAATTACTGTTTTACT
* *
83074084 -CTTGATTTACT-GAATTATTGTTTTA-T
1 CCTCGATTTA-TAGAATTACTGTTTTACT
* *
83074110 CCTCGATTTACAAAATTACTGTTTTAC-
1 CCTCGATTTATAGAATTACTGTTTTACT
83074137 CCTC
1 CCTC
83074141 AATTGTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
26 1 0.02
27 45 0.96
28 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (28 bp):
CCTCGATTTATAGAATTACTGTTTTACT
Found at i:83074166 original size:27 final size:26
Alignment explanation
Indices: 83074136--83074278 Score: 110
Period size: 27 Copynumber: 5.3 Consensus size: 26
83074126 TACTGTTTTA
**
83074136 CCCTCAATTGTGAAATTACTGAAATAC
1 CCCT-AATTGTGAAATTACCAAAATAC
* *
83074163 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTAATTGTG-A-AATTACCAAAATAC
* *
83074190 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTA-ATTGTGAAATTACCAAAATAC
* ** *
83074217 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-AATTGTGAAATTACCAAAATAC
*
83074243 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-AA-TTGTGAAATTACCAAAATAC
83074271 CCCTAATT
1 CCCTAATT
83074279 TACAAAATTA
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
25 4 0.04
26 6 0.07
27 74 0.81
28 5 0.05
29 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
CCCTAATTGTGAAATTACCAAAATAC
Found at i:83074215 original size:54 final size:53
Alignment explanation
Indices: 83074134--83074275 Score: 146
Period size: 54 Copynumber: 2.7 Consensus size: 53
83074124 ATTACTGTTT
* **
83074134 TACCCTCAA-TTGTGAAATTACTGAAATACCCCTATAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAT-GGGTGA-AATTACCAAAA
* * * ** *
83074187 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCT-ATGGGTGAAATTACCAAAA
83074241 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
83074276 ATTTACAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.08
54 62 0.86
55 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.28
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTATGGGTGAAATTACCAAAA
Found at i:83074241 original size:81 final size:81
Alignment explanation
Indices: 83074143--83074298 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
83074133 TTACCCTCAA
* * * * **
83074143 TTGTGAAATTACTGAAATACCC-CTATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATT
1 TTGTGAAATTACCGAAATACCCTCAAT-GGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
83074207 ACCA-AAATACCACTGGT
65 A-CAGAAATACCACTGGT
**
83074224 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
1 TTGTGAAATTACCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
83074289 CAGAAATACC
66 CAGAAATACC
83074299 CTTGACTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.92
82 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTGGT
Found at i:83074279 original size:27 final size:27
Alignment explanation
Indices: 83074176--83074299 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
83074166 TATAGGGTAG
*
83074176 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
83074203 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
83074230 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
83074257 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
83074284 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
83074300 TTGACTTTCT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.06
27 74 0.89
28 4 0.05
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:83074287 original size:54 final size:54
Alignment explanation
Indices: 83074176--83074377 Score: 183
Period size: 54 Copynumber: 3.7 Consensus size: 54
83074166 TATAGGGTAG
* * ***
83074176 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTC-AGTTTGTAAAATTACCAAAATACCACTAGTTTACAA
* * *
83074230 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCACTAGTTTACAA
* * * * * *
83074284 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTAGTTTACAA
1 AATTACCGAAATACCC-TCAGTTTGT-AAAATTACCA-AAATACCACTAGTTTACAA
* ** * *
83074340 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAA
83074378 CACCCCTTGT
Statistics
Matches: 119, Mismatches: 24, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
54 67 0.56
55 14 0.12
56 38 0.32
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCACTAGTTTACAA
Found at i:83074350 original size:27 final size:28
Alignment explanation
Indices: 83074277--83074354 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
83074267 ATACCCCTAA
* *
83074277 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTGAC
*
83074305 TTT-CTAAAAATTA-TAGAAATACCATT-AG
1 TTTAC--AAAATTACT-GAAATACCATTGAC
83074333 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACTGAAATACC
83074355 CTTGGTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
27 16 0.38
28 8 0.19
29 18 0.43
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (28 bp):
TTTACAAAATTACTGAAATACCATTGAC
Found at i:83074362 original size:27 final size:27
Alignment explanation
Indices: 83074277--83074362 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
83074267 ATACCCCTAA
* *
83074277 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
* *
83074305 TTT-CTAAAAATTA-TAGAAATACCATTAG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
83074333 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
83074360 TTT
1 TTT
83074363 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 22 0.47
28 7 0.15
29 18 0.38
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:83074459 original size:27 final size:27
Alignment explanation
Indices: 83074404--83074481 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
83074394 AAATGACTAC
* * *
83074404 AATACCCCTAATA-GGTAAAAAGACAGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
83074431 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
83074458 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
83074482 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:83075134 original size:25 final size:25
Alignment explanation
Indices: 83075105--83075152 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83075095 TTATAATGTG
*
83075105 AAAATAACTGTTTTGCCCCTAGGTA
1 AAAATAACTGTTTTACCCCTAGGTA
* *
83075130 AAAATGATTGTTTTACCCCTAGG
1 AAAATAACTGTTTTACCCCTAGG
83075153 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (25 bp):
AAAATAACTGTTTTACCCCTAGGTA
Found at i:83075197 original size:14 final size:15
Alignment explanation
Indices: 83075180--83075213 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
83075170 ATACGTGGGG
83075180 TATGATAT-ACATGA
1 TATGATATCACATGA
83075194 TATGATATGCACATGA
1 TATGATAT-CACATGA
83075210 TATG
1 TATG
83075214 CATGATATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (15 bp):
TATGATATCACATGA
Found at i:83075211 original size:11 final size:11
Alignment explanation
Indices: 83075195--83075250 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
83075185 TATACATGAT
83075195 ATGATATGCAC
1 ATGATATGCAC
83075206 ATGATATG--C
1 ATGATATGCAC
83075215 ATGATATGCAC
1 ATGATATGCAC
*
83075226 ATGATATG--T
1 ATGATATGCAC
*
83075235 ATGAAATGCAC
1 ATGATATGCAC
83075246 ATGAT
1 ATGAT
83075251 GAATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:83075220 original size:20 final size:20
Alignment explanation
Indices: 83075195--83075250 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
83075185 TATACATGAT
83075195 ATGATATGCACATGATATGC
1 ATGATATGCACATGATATGC
*
83075215 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGC
*
83075235 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
83075251 GAATTCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGATATGCACATGATATGC
Found at i:83075378 original size:52 final size:51
Alignment explanation
Indices: 83075300--83075422 Score: 230
Period size: 52 Copynumber: 2.4 Consensus size: 51
83075290 GAGGAAGTGC
83075300 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
83075352 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
83075403 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
83075423 ATTAAAGAGG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 10 0.14
51 25 0.35
52 36 0.51
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:83075397 original size:25 final size:26
Alignment explanation
Indices: 83075300--83075422 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
83075290 GAGGAAGTGC
**
83075300 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
83075326 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
83075352 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
83075378 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
83075403 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
83075423 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.36
26 58 0.64
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:83075628 original size:42 final size:42
Alignment explanation
Indices: 83075569--83075654 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
83075559 GTCTCCCCAG
*
83075569 ATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTGAA
1 ATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGAA
*
83075611 ATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTGAA
1 ATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGAA
83075653 AT
1 AT
83075655 AGGCCTATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (42 bp):
ATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGAA
Found at i:83077495 original size:28 final size:27
Alignment explanation
Indices: 83077429--83077804 Score: 181
Period size: 27 Copynumber: 13.9 Consensus size: 27
83077419 TACCCCCCCA
* ** *
83077429 ATTTATAAAATTACCCAAATATCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
*
83077456 ATTTGTAAAATTACTAAAATACCCCCTG
1 ATTTGTAAAATTACTAAAATACCCTC-G
*
83077484 ATTTGTAAAATTACTGAAATACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
* * *
83077511 ACTTGTAAAATTACCAAAGTACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
* * **** * *
83077538 ATTTATAGAATTACTGTTTTACTCTTG
1 ATTTGTAAAATTACTAAAATACCCTCG
** * **** *
83077565 ATTTACAGAATTACTGTTTTATCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
** *****
83077592 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCG
* *
83077619 A-TTGTGAAATTACTAAAATACCC-CT
1 ATTTGTAAAATTACTAAAATACCCTCG
** * * *
83077644 ATAGGGTAGAATTACCAAAATACCC-CT
1 AT-TTGTAAAATTACTAAAATACCCTCG
* *
83077671 AGTTTGTAAAATTACCAAAGTACCACT-G
1 A-TTTGTAAAATTACTAAAATACC-CTCG
* * *
83077699 GTTTGTGAAATTACTAAAATACCCTCA
1 ATTTGTAAAATTACTAAAATACCCTCG
*
83077726 ATTTGTAAAATTACCAAAATACCC-CTG
1 ATTTGTAAAATTACTAAAATACCCTC-G
** *
83077753 ATTTACAAAATTAC-AGAAATACCCTTG
1 ATTTGTAAAATTACTA-AAATACCCTCG
*
83077780 ACTTTTTAAAAATTA-TAGAAATACC
1 A-TTTGT-AAAATTACTA-AAATACC
83077805 ATTAGTTTAC
Statistics
Matches: 275, Mismatches: 61, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.01
26 18 0.07
27 209 0.76
28 30 0.11
29 16 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCTCG
Found at i:83077827 original size:27 final size:29
Alignment explanation
Indices: 83077754--83077830 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
83077744 ATACCCCTGA
* * *
83077754 TTTACAAAATTACAGAAATACCCTTGACTT
1 TTTACAAAATTACTGAAATACCATTGAC-G
83077784 TTTA-AAAATTA-TAGAAATACCATT-A-G
1 TTTACAAAATTACT-GAAATACCATTGACG
83077810 TTTACAAAATTACTGAAATAC
1 TTTACAAAATTACTGAAATAC
83077831 TCTTGGTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.10
27 14 0.34
28 2 0.05
29 17 0.41
30 4 0.10
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (29 bp):
TTTACAAAATTACTGAAATACCATTGACG
Found at i:83077839 original size:27 final size:26
Alignment explanation
Indices: 83077754--83077839 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 26
83077744 ATACCCCTGA
* *
83077754 TTTACAAAATTACAGAAATACCCTTGACTT
1 TTTACAAAATTACTGAAATA-CCTTG---G
*
83077784 TTTA-AAAATTA-TAGAAATACCATTAG
1 TTTACAAAATTACT-GAAATACC-TTGG
83077810 TTTACAAAATTACTGAAATACTCTTGG
1 TTTACAAAATTACTGAAATAC-CTTGG
83077837 TTT
1 TTT
83077840 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
26 4 0.09
27 20 0.43
28 4 0.09
29 15 0.32
30 4 0.09
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (26 bp):
TTTACAAAATTACTGAAATACCTTGG
Found at i:83077957 original size:27 final size:27
Alignment explanation
Indices: 83077892--83077957 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
83077882 TACCCCTAAT
*
83077892 TGGTAAAAAGACCGTAAAGCCCCTGTA
1 TGGTAAAATGACCGTAAAGCCCCTGTA
* * *
83077919 GGGTAAAGTGACCGTAATA-CCCTTGTA
1 TGGTAAAATGACCGTAA-AGCCCCTGTA
83077946 TGGTAAAATGAC
1 TGGTAAAATGAC
83077958 GAATATGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (27 bp):
TGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:83078609 original size:25 final size:25
Alignment explanation
Indices: 83078581--83078628 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
83078571 TTATAATGTG
83078581 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTGTTTTGCCCCTAGGTA
83078606 AAAATGACTGTTTTGCCCCTAGG
1 AAAATGACTGTTTTGCCCCTAGG
83078629 GTTTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
AAAATGACTGTTTTGCCCCTAGGTA
Found at i:83078673 original size:14 final size:15
Alignment explanation
Indices: 83078656--83078689 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
83078646 ATACGTGGGG
83078656 TATGATAT-ACATGA
1 TATGATATCACATGA
83078670 TATGATATGCACATGA
1 TATGATAT-CACATGA
83078686 TATG
1 TATG
83078690 CATGATATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (15 bp):
TATGATATCACATGA
Found at i:83078687 original size:11 final size:11
Alignment explanation
Indices: 83078671--83078726 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
83078661 TATACATGAT
83078671 ATGATATGCAC
1 ATGATATGCAC
83078682 ATGATATG--C
1 ATGATATGCAC
83078691 ATGATATGCAC
1 ATGATATGCAC
*
83078702 ATGATATG--T
1 ATGATATGCAC
*
83078711 ATGAAATGCAC
1 ATGATATGCAC
83078722 ATGAT
1 ATGAT
83078727 GAATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:83078696 original size:20 final size:20
Alignment explanation
Indices: 83078671--83078726 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
83078661 TATACATGAT
83078671 ATGATATGCACATGATATGC
1 ATGATATGCACATGATATGC
*
83078691 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGC
*
83078711 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
83078727 GAATTCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGATATGCACATGATATGC
Found at i:83078854 original size:52 final size:51
Alignment explanation
Indices: 83078776--83078898 Score: 230
Period size: 52 Copynumber: 2.4 Consensus size: 51
83078766 GAGGAAGTGC
83078776 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
83078828 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
83078879 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
83078899 ATTAAAGAGG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 10 0.14
51 25 0.35
52 36 0.51
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:83078873 original size:25 final size:26
Alignment explanation
Indices: 83078776--83078898 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
83078766 GAGGAAGTGC
**
83078776 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
83078802 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
83078828 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
83078854 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
83078879 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
83078899 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.36
26 58 0.64
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:83079104 original size:42 final size:42
Alignment explanation
Indices: 83079045--83079134 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
83079035 GTCTCTCCAG
*
83079045 ATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTGAA
1 ATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGAA
*
83079087 ATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTGAA
1 ATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGAA
83079129 ATGGGC
1 ATGGGC
83079135 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (42 bp):
ATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGAA
Found at i:83082041 original size:31 final size:31
Alignment explanation
Indices: 83081999--83082061 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
83081989 GGAGTATGTT
*
83081999 TCTACTGAAGATATTGTGTGCAAACGGTTCG
1 TCTACTAAAGATATTGTGTGCAAACGGTTCG
83082030 TCTACTAAAGATATTGTGTGCAAACGGTTCG
1 TCTACTAAAGATATTGTGTGCAAACGGTTCG
83082061 T
1 T
83082062 TGATCGGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (31 bp):
TCTACTAAAGATATTGTGTGCAAACGGTTCG
Found at i:83105591 original size:51 final size:51
Alignment explanation
Indices: 83105505--83105748 Score: 346
Period size: 51 Copynumber: 4.8 Consensus size: 51
83105495 CGGATACACG
* * ** *
83105505 GTGGCCTTCACATAGTACCACCCGTGTAG-AGAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
**
83105556 GTGGCCTTCACATAGTACCACACTTGTGTTTAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
*
83105607 GTGGCCTTCACATAGTACCACACTCGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * *
83105658 GTGACCTTGACATAGTACCACACTTGTGTCCAAAGCTATTATATTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* **
83105709 GTGGCCTTCATATAGTACCGTACTTGTGTCCAAAGCTATT
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT
83105749 TTGTTCCTAA
Statistics
Matches: 175, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 174 0.99
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:83105817 original size:28 final size:28
Alignment explanation
Indices: 83105778--83105848 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
83105768 GGGAAATTTC
* *
83105778 TCACTTATCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGAACTTATT
*
83105806 TCACTTAGCACATTGCCATGAACTTATT
1 TCACTTAGCACAATGCCATGAACTTATT
83105834 TCACTTAGCACAATG
1 TCACTTAGCACAATG
83105849 TCATATCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGAACTTATT
Found at i:83108502 original size:47 final size:48
Alignment explanation
Indices: 83108399--83108531 Score: 153
Period size: 47 Copynumber: 2.8 Consensus size: 48
83108389 TTATTAGGGA
* *
83108399 ATTCATTGATTTGGCTTCGGGACATGATATTGGTACTTTGAGTGCAAG
1 ATTCATTGATTTGGCTTCGGGACATGATATTGGCACTTCGAGTGCAAG
* * * * **
83108447 -TTAAATTGATGTGGCTCCGGG-CATGATATTGGCACTTCGGGTGTGAG
1 ATT-CATTGATTTGGCTTCGGGACATGATATTGGCACTTCGAGTGCAAG
* *
83108494 ATTCATTGATTTAGCTTCGGGCCATGATATTGGCACTT
1 ATTCATTGATTTGGCTTCGGGACATGATATTGGCACTT
83108532 AGGTTGCGAG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
47 37 0.53
48 33 0.47
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (48 bp):
ATTCATTGATTTGGCTTCGGGACATGATATTGGCACTTCGAGTGCAAG
Found at i:83113793 original size:26 final size:26
Alignment explanation
Indices: 83113741--83113847 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
83113731 TGATACAAAT
83113741 TGATAATGGGTTAGGT-AATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83113766 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83113792 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83113818 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83113844 TGAT
1 TGAT
83113848 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 15 0.19
26 62 0.81
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83115485 original size:27 final size:27
Alignment explanation
Indices: 83115445--83115603 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
83115435 AGGAAGCGTC
* *
83115445 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
83115472 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
83115498 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
83115526 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
83115553 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
83115580 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
83115604 GCAACCTCGC
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 101 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:83115528 original size:54 final size:54
Alignment explanation
Indices: 83115442--83115603 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
83115432 TGGAGGAAGC
*
83115442 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
83115496 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
83115550 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTTTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
83115603 G
1 G
83115604 GCAACCTCGC
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 88 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:83115584 original size:81 final size:80
Alignment explanation
Indices: 83115445--83115603 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
83115435 AGGAAGCGTC
*
83115445 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
83115510 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* ** *
83115526 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
83115589 TTGTCACAATATCTG
64 ATGCCACAATATCTG
83115604 GCAACCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:83117047 original size:18 final size:19
Alignment explanation
Indices: 83117024--83117059 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
83117014 TAAATCAAGT
*
83117024 TACAAAGAT-ATTAAAAAA
1 TACAAAAATCATTAAAAAA
83117042 TACAAAAATCATTAAAAA
1 TACAAAAATCATTAAAAA
83117060 CGGGGCAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.22
Consensus pattern (19 bp):
TACAAAAATCATTAAAAAA
Found at i:83119464 original size:43 final size:43
Alignment explanation
Indices: 83119416--83119670 Score: 217
Period size: 43 Copynumber: 6.0 Consensus size: 43
83119406 GCATTTATAA
* * * *
83119416 AAAAATGGCACTAAAGGTCATGATCTTTAACGGCGCTTTTCCC
1 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
**
83119459 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCATTTTTCCC
1 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
83119502 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
1 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * ** * * * *
83119545 ACAAACGCTGCTAAAGAACATGACCTTTAGCGACGCTTCTCTC
1 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * * * * * *
83119588 ACAAACGTCGCTAAAAAACATGACCTTTAGCGGCACTTTTACC
1 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
83119631 ACAAATGCCGCTATAA-AACAT-ACCTTTAGCGGCACTTTTC
1 AAAAATGCCACTA-AAGATCATGACCTTTAGCGGCGCTTTTC
83119671 TCACAAACAC
Statistics
Matches: 184, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
42 18 0.10
43 164 0.89
44 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
Found at i:83119536 original size:86 final size:86
Alignment explanation
Indices: 83119434--83119701 Score: 351
Period size: 86 Copynumber: 3.1 Consensus size: 86
83119424 CACTAAAGGT
* * * * * *
83119434 CATGATCTTTAACGGCGCTTTTCCCAAAAATGCCACTAAAGATCATGACCTTTAGCGGCATTTTT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGAACATGACCTTTAGCGGCACTTTT
* *
83119499 CCCACAAACGCCGCTAAAGAA
66 CTCACAAACGCCGCTAAAAAA
* * * * *
83119520 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGAACATGACCTTTAGCGACGCTTCT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGAACATGACCTTTAGCGGCACTTTT
*
83119585 CTCACAAACGTCGCTAAAAAA
66 CTCACAAACGCCGCTAAAAAA
* *
83119606 CATGACCTTTAGCGGCACTTTTACCACAAATGCCGCTATAA-AACAT-ACCTTTAGCGGCACTTT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTA-AAGAACATGACCTTTAGCGGCACTTT
*
83119669 TCTCACAAACACCGCTAAAAAA
65 TCTCACAAACGCCGCTAAAAAA
*
83119691 GATGACCTTTA
1 CATGACCTTTA
83119702 AAAATATATT
Statistics
Matches: 157, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 44 0.28
86 111 0.71
87 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (86 bp):
CATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGAACATGACCTTTAGCGGCACTTTT
CTCACAAACGCCGCTAAAAAA
Found at i:83123616 original size:41 final size:41
Alignment explanation
Indices: 83123569--83123686 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
83123559 ATTTATTGTT
* *
83123569 GCGTTTTCACCAAAAACGTCATTATAGTTCAATTTTTTACG
1 GCGTTTTCACCAAAAACGCCATTATAGCTCAATTTTTTACG
* * * * * **
83123610 GCGTTTTTATCAAAAATGCCACTATAGCTCAACTTTTTGTG
1 GCGTTTTCACCAAAAACGCCATTATAGCTCAATTTTTTACG
* *
83123651 GCATTTTGC-CCAAAAACGCCATTATTGCTCAATTTT
1 GCGTTTT-CACCAAAAACGCCATTATAGCTCAATTTT
83123687 AATTTTTTTC
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (41 bp):
GCGTTTTCACCAAAAACGCCATTATAGCTCAATTTTTTACG
Found at i:83123816 original size:7 final size:7
Alignment explanation
Indices: 83123788--83123846 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
83123778 ATATGGACTA
*
83123788 AAATATT
1 AAATTTT
*
83123795 AAATATTA
1 AAAT-TTT
83123803 AAATTTT
1 AAATTTT
*
83123810 AAGTTTTT
1 AA-ATTTT
*
83123818 AAGTTTTT
1 AA-ATTTT
83123826 AAATTTT
1 AAATTTT
83123833 AAATTTT
1 AAATTTT
83123840 AAATTTT
1 AAATTTT
83123847 TTTGAAGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
7 26 0.58
8 19 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:83123829 original size:23 final size:23
Alignment explanation
Indices: 83123803--83123848 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
83123793 TTAAATATTA
* *
83123803 AAATTTTAAGTTTTTAAGTTTTT
1 AAATTTTAAATTTTAAAGTTTTT
*
83123826 AAATTTTAAATTTTAAATTTTTT
1 AAATTTTAAATTTTAAAGTTTTT
83123849 TGAAGATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
AAATTTTAAATTTTAAAGTTTTT
Found at i:83123847 original size:8 final size:8
Alignment explanation
Indices: 83123800--83123847 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
83123790 ATATTAAATA
*
83123800 TTAAAATT
1 TTAAATTT
*
83123808 TTAAGTTT
1 TTAAATTT
*
83123816 TTAAGTTT
1 TTAAATTT
83123824 TTAAA-TT
1 TTAAATTT
83123831 TTAAA-TT
1 TTAAATTT
83123838 TTAAATTT
1 TTAAATTT
83123846 TT
1 TT
83123848 TTGAAGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 14 0.39
8 22 0.61
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:83123847 original size:15 final size:15
Alignment explanation
Indices: 83123788--83123847 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
83123778 ATATGGACTA
* * *
83123788 AAATATTAAATATTA
1 AAATTTTAAATTTTT
*
83123803 AAATTTTAAGTTTTT
1 AAATTTTAAATTTTT
*
83123818 AAGTTTTTAAA-TTTT
1 AA-ATTTTAAATTTTT
83123833 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
83123848 TTGAAGATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 7 0.19
15 23 0.64
16 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:83124331 original size:21 final size:21
Alignment explanation
Indices: 83124307--83124352 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
83124297 GCAAACATCG
*
83124307 AACCCCAAATCCTAGATCATA
1 AACCCCAAATCCTAGACCATA
* *
83124328 AACCCTAAATCTTAGACCATA
1 AACCCCAAATCCTAGACCATA
83124349 AACC
1 AACC
83124353 TACACCCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.33, G:0.04, T:0.20
Consensus pattern (21 bp):
AACCCCAAATCCTAGACCATA
Found at i:83124562 original size:21 final size:21
Alignment explanation
Indices: 83124538--83124579 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
83124528 TATAAAACAA
*
83124538 TAAATCATAAACCCCAAACTC
1 TAAACCATAAACCCCAAACTC
*
83124559 TAAACCATAAACCCTAAACTC
1 TAAACCATAAACCCCAAACTC
83124580 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCATAAACCCCAAACTC
Found at i:83124714 original size:53 final size:53
Alignment explanation
Indices: 83124649--83124751 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
83124639 GACATTTAAC
*
83124649 CTTAAATCATAAACCTTAAACCCTAAAATAAAATGATTTTTTTGCGACGTGTT
1 CTTAAATAATAAACCTTAAACCCTAAAATAAAATGATTTTTTTGCGACGTGTT
83124702 CTTAAATAATAAACCTTAAACCCTAAAATAAAATGATTTTTTTGCGACGT
1 CTTAAATAATAAACCTTAAACCCTAAAATAAAATGATTTTTTTGCGACGT
83124752 TTTTATCAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (53 bp):
CTTAAATAATAAACCTTAAACCCTAAAATAAAATGATTTTTTTGCGACGTGTT
Found at i:83124914 original size:40 final size:40
Alignment explanation
Indices: 83124869--83124980 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
83124859 GCATTTCCTG
* *
83124869 AAAAGCGTCGCTAATGGC-CAACCTATAGCGGCATTTTTTA
1 AAAAGCGTCGCTAAT-GCTCAATCTATAGCGGCATTTTTAA
* * * *
83124909 AAAAGCGCCGGTAATGCTCGATCTATAGTGGCATTTTTAA
1 AAAAGCGTCGCTAATGCTCAATCTATAGCGGCATTTTTAA
83124949 AAAAGCGTCGCTAATGCTCAATCTATAGCGGC
1 AAAAGCGTCGCTAATGCTCAATCTATAGCGGC
83124981 GTTTGTTATC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 2 0.03
40 59 0.97
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAAGCGTCGCTAATGCTCAATCTATAGCGGCATTTTTAA
Found at i:83126737 original size:27 final size:28
Alignment explanation
Indices: 83126680--83126749 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
83126670 GTGACAGAGT
**
83126680 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGTGC
83126709 CACCAGAACAGATA-TACGTGGCAAG-GC
1 CACCAGAACAGATATTACGTGGC-AGTGC
*
83126736 CACCAGAATAGATA
1 CACCAGAACAGATA
83126750 ATTTGTGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 21 0.57
28 9 0.24
29 7 0.19
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGTGC
Found at i:83126766 original size:28 final size:28
Alignment explanation
Indices: 83126680--83126769 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
83126670 GTGACAGAGT
*
83126680 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
**
83126709 CACCAGAACAGAT-ATACGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
*
83126736 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
83126764 CACCAG
1 CACCAG
83126770 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 21 0.41
28 22 0.43
29 8 0.16
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:83126923 original size:28 final size:28
Alignment explanation
Indices: 83126877--83126940 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
83126867 ATTAACCCTA
*
83126877 AGGGGTATAAAGGTCATTTTGCACACAT
1 AGGGGTATAAAGGTAATTTTGCACACAT
* *
83126905 AGGGGTATAATGGTAATTTTGCATACAT
1 AGGGGTATAAAGGTAATTTTGCACACAT
83126933 AGGGGTAT
1 AGGGGTAT
83126941 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATTTTGCACACAT
Found at i:83128027 original size:12 final size:13
Alignment explanation
Indices: 83128008--83128040 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
83127998 GGGTTCAACT
83128008 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
83128021 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
83128033 ATGGAGAA
1 ATGGAGAA
83128041 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:83130429 original size:16 final size:16
Alignment explanation
Indices: 83130408--83130440 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
83130398 TTACTTAATC
83130408 CAGATTGAACTCAGCA
1 CAGATTGAACTCAGCA
83130424 CAGATTGAACTCAGCA
1 CAGATTGAACTCAGCA
83130440 C
1 C
83130441 TAAAGCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (16 bp):
CAGATTGAACTCAGCA
Found at i:83132250 original size:23 final size:23
Alignment explanation
Indices: 83132224--83132268 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
83132214 ACTTAAAGCC
83132224 ATAGTCCAACTATGGTCTTACAG
1 ATAGTCCAACTATGGTCTTACAG
83132247 ATAGTCCAACTATGGTCTTACA
1 ATAGTCCAACTATGGTCTTACA
83132269 CATACATTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (23 bp):
ATAGTCCAACTATGGTCTTACAG
Found at i:83132848 original size:50 final size:49
Alignment explanation
Indices: 83132726--83132947 Score: 185
Period size: 50 Copynumber: 4.6 Consensus size: 49
83132716 TCACAATACA
* * * *
83132726 ATGCCAATGTCCCAGACATGGTCTTACA-TGTAATCAC--ATATTGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACTG-ACTCTCTTATATCGAGGCG
83132774 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGC-G
* * * * *
83132824 ATGCCGTATCCCAGACATGGTCTTACACTGCCTCTCCTCT-TTTC-ACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CT-TATATCGA-GGCG
* * * * *
83132874 ATGCCATGTCCTAGACATGGTCTTACACTG--GCAC--ATAT-GAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCG-AGGCG
83132919 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
83132948 AGCTCACATG
Statistics
Matches: 147, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
45 33 0.22
46 1 0.01
47 27 0.18
48 8 0.05
49 8 0.05
50 62 0.42
51 7 0.05
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGCG
Found at i:83142088 original size:32 final size:31
Alignment explanation
Indices: 83142014--83142095 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
83142004 GGACCCACAT
* * * * *
83142014 GCCCGTGTGGGCCCACACGTCCAGATTGGCCTT
1 GCCCGTGT-GG-CCACATGCCCAAATTAGCCTA
83142047 GCCCGTGTGGCCTACATGCCCAAATTAGCCTA
1 GCCCGTGTGGCC-ACATGCCCAAATTAGCCTA
83142079 GCCCGTGTGGCCACATG
1 GCCCGTGTGGCCACATG
83142096 GCCATACTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 7 0.16
32 28 0.65
33 8 0.19
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (31 bp):
GCCCGTGTGGCCACATGCCCAAATTAGCCTA
Found at i:83144883 original size:41 final size:42
Alignment explanation
Indices: 83144838--83144996 Score: 225
Period size: 42 Copynumber: 3.8 Consensus size: 42
83144828 TATAAAACAC
* * *
83144838 CGGCA-CAGAGCCTACTAGGTAATAAACCTGAT-TCAATACAT
1 CGGCATCAAAGCCTACTAGGCAATAAGCCTGATATC-ATACAT
* *
83144879 CGGCAT-AAAGCCTGCTAGGCAATAAGCCTGATATCATACAC
1 CGGCATCAAAGCCTACTAGGCAATAAGCCTGATATCATACAT
83144920 CGGCATCAAAGCCTACTAGGCAATAAGCCTGATATCATACAT
1 CGGCATCAAAGCCTACTAGGCAATAAGCCTGATATCATACAT
**
83144962 CGGCATCAAAGCCTGTTAGGCAATAAGCCTGATAT
1 CGGCATCAAAGCCTACTAGGCAATAAGCCTGATAT
83144997 ATCACTGTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 38 0.36
42 68 0.64
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (42 bp):
CGGCATCAAAGCCTACTAGGCAATAAGCCTGATATCATACAT
Found at i:83144960 original size:83 final size:83
Alignment explanation
Indices: 83144834--83144996 Score: 258
Period size: 83 Copynumber: 2.0 Consensus size: 83
83144824 CTTGTATAAA
* *
83144834 ACACCGGCACAGAGCCTACTAGGTAATAAACCTGATTCAATACATCGGCAT-AAAGCCTGCTAGG
1 ACACCGGCACAAAGCCTACTAGGCAATAAACCTGATTCAATACATCGGCATCAAAGCCTGCTAGG
83144898 CAATAAGCCTGATATCAT
66 CAATAAGCCTGATATCAT
* *
83144916 ACACCGGCATCAAAGCCTACTAGGCAATAAGCCTGATATC-ATACATCGGCATCAAAGCCTGTTA
1 ACACCGGCA-CAAAGCCTACTAGGCAATAAACCTGAT-TCAATACATCGGCATCAAAGCCTGCTA
83144980 GGCAATAAGCCTGATAT
64 GGCAATAAGCCTGATAT
83144997 ATCACTGTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
82 9 0.12
83 36 0.49
84 29 0.39
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (83 bp):
ACACCGGCACAAAGCCTACTAGGCAATAAACCTGATTCAATACATCGGCATCAAAGCCTGCTAGG
CAATAAGCCTGATATCAT
Found at i:83148452 original size:23 final size:23
Alignment explanation
Indices: 83148422--83148465 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
83148412 CATGCAGTAG
83148422 CAGTCTGGGCCAGAGCCCTATTA
1 CAGTCTGGGCCAGAGCCCTATTA
**
83148445 CAGTCTGGGCCTTAGCCCTAT
1 CAGTCTGGGCCAGAGCCCTAT
83148466 ACAAAAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (23 bp):
CAGTCTGGGCCAGAGCCCTATTA
Found at i:83148662 original size:26 final size:25
Alignment explanation
Indices: 83148614--83148666 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
83148604 ACCAACACAC
83148614 TAATATCGCAACAAAGCTACCAGTAA
1 TAATATCGCAACAAAGCTACCAG-AA
* *
83148640 TAATATCGCAGCATAA-CTGCCAGAA
1 TAATATCGCAACA-AAGCTACCAGAA
83148665 TA
1 TA
83148667 GTAAACGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 18 0.75
27 2 0.08
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (25 bp):
TAATATCGCAACAAAGCTACCAGAA
Found at i:83148729 original size:27 final size:26
Alignment explanation
Indices: 83148659--83148729 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
83148649 AGCATAACTG
* *
83148659 CCAG-AATAGTAAACGTGGCAAAGCTA
1 CCAGTAATAGT-AATGTGGCAAAGCCA
* *
83148685 CCAGTAACAGTAATTGTGGCATAGCCA
1 CCAGTAATAGTAA-TGTGGCAAAGCCA
*
83148712 CTAGTAATAGTGAATGTG
1 CCAGTAATAGT-AATGTG
83148730 ACGTATTCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 6 0.17
27 28 0.78
28 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (26 bp):
CCAGTAATAGTAATGTGGCAAAGCCA
Found at i:83148916 original size:27 final size:27
Alignment explanation
Indices: 83148885--83148965 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
83148875 GGGCATAATC
* *
83148885 GTCATATTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
83148912 GTCATTTTACCCTACAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* *
83148939 TTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
83148966 TGTAACACCC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:83149716 original size:27 final size:26
Alignment explanation
Indices: 83149686--83149745 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
83149676 ACGAGGCTGC
*
83149686 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
83149713 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
83149739 CAGATAT
1 CAGATAT
83149746 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:83150466 original size:26 final size:27
Alignment explanation
Indices: 83150437--83150490 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
83150427 TCACACAAGT
*
83150437 TAGTCATTT-ACGCACG-AGGGGCAAAA
1 TAGTCATTTAACAC-CGTAGGGGCAAAA
83150463 TAGTCATTTAACACCGTAGGGGCAAAA
1 TAGTCATTTAACACCGTAGGGGCAAAA
83150490 T
1 T
83150491 GGTAATTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACCGTAGGGGCAAAA
Found at i:83150489 original size:27 final size:26
Alignment explanation
Indices: 83150437--83150490 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
83150427 TCACACAAGT
*
83150437 TAGTCATTTACGCACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGCAAAA
83150463 TAGTCATTTA-ACACCGTAGGGGCAAAA
1 TAGTCATTTACACA-CG-AGGGGCAAAA
83150490 T
1 T
83150491 GGTAATTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 2 0.08
26 12 0.48
27 11 0.44
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGCAAAA
Found at i:83151417 original size:27 final size:27
Alignment explanation
Indices: 83151379--83151506 Score: 179
Period size: 27 Copynumber: 4.7 Consensus size: 27
83151369 GGGGCGTTAC
* *
83151379 ATTACGATCATTTTACCTTATAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
83151406 ATTACGATCATTTTAGCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
83151433 ATTACAATCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
83151460 ATTAC-AGTCATTTTACCCTACAGGGGT
1 ATTACGA-TCATTTTACCCTACAGGGGT
*
83151487 ATTAC-AGTTATTTTACCCTA
1 ATTACGA-TCATTTTACCCTA
83151507 GATAACAACC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 1 0.01
27 93 0.99
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTACAGGGGT
Found at i:83155459 original size:27 final size:27
Alignment explanation
Indices: 83155425--83155514 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
83155415 TGAATAAGTT
83155425 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
83155452 GTAGAATTACTGAAGTACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
83155479 GTAGAATTATCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
83155505 GATAGAATTA
1 G-TAGAATTA
83155515 TCAAGATACC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:83155515 original size:27 final size:26
Alignment explanation
Indices: 83155425--83155525 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 26
83155415 TGAATAAGTT
*
83155425 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGT-AG
*
83155452 GTAGAATTA-CTGAAGTACCCCTGTAGG
1 GTAGAATTATC-GAAATACCCCTGTA-G
83155479 GTAGAATTATCGAAATACCCCTGTAG
1 GTAGAATTATCGAAATACCCCTGTAG
83155505 GATAGAATTATC-AAGATACCC
1 G-TAGAATTATCGAA-ATACCC
83155526 TTATGGGGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
26 6 0.09
27 60 0.90
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
GTAGAATTATCGAAATACCCCTGTAG
Found at i:83155535 original size:54 final size:54
Alignment explanation
Indices: 83155425--83155543 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
83155415 TGAATAAGTT
* *
83155425 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAGTACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTCAAGTACCCCTATAGG
* * *
83155479 GTAGAATTATCGAAATACCCCTGT-AGGATAGAATTA-TCAAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTGTAAGG-TAGAATTACTCAAG-TACCCCTATAGG
*
83155533 GTAAAATTACC
1 GTAGAATTACC
83155544 ATTTTACCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 7 0.12
54 49 0.88
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTCAAGTACCCCTATAGG
Found at i:83156328 original size:27 final size:27
Alignment explanation
Indices: 83156288--83156347 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
83156278 GCATATATAT
* *
83156288 ATATCT-TTTCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
83156314 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
83156341 ATATCTG
1 ATATCTG
83156348 GTAGCCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:83163928 original size:43 final size:43
Alignment explanation
Indices: 83163880--83164032 Score: 184
Period size: 43 Copynumber: 3.6 Consensus size: 43
83163870 TGTGTGTGCA
* *
83163880 TGTAAGACCACATCTGGGATGTTGGCATCAATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACG
* ** *
83163923 TGTAAGACTACGTCCAGGACGTTGGCATCTATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACG
* * *
83163966 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATGTGATTACG
*
83164009 TGTAAGACCATGTCTGGGACGTTG
1 TGTAAGACCACGTCTGGGACGTTG
83164033 TCATTGTACG
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 89 0.97
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACG
Found at i:83186671 original size:27 final size:27
Alignment explanation
Indices: 83186642--83186827 Score: 239
Period size: 27 Copynumber: 6.9 Consensus size: 27
83186632 CTCAATTTGT
* * *
83186642 AGAATTATCATTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
*
83186669 AGAATTACCGTTTCACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
83186696 AAAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
*
83186723 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
83186750 AGAATTACTGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * * *
83186777 AAAATTACCATTTTACCCAC-AGTTTAA
1 AGAATTACCGTTTTACCCTCGA-TTTAC
*
83186804 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCGTTTTACCCTCGATT
83186828 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:83186712 original size:54 final size:54
Alignment explanation
Indices: 83186652--83186827 Score: 264
Period size: 54 Copynumber: 3.3 Consensus size: 54
83186642 AGAATTATCA
* *
83186652 TTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACCG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCG
* *
83186706 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCG
* * * *
83186760 TTTTACCCTCGATTTACAAAATTACCATTTTACCCAC-AGTTTAAAAAATTACCG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTACAAAATTACCG
83186814 TTTTACCCTCGATT
1 TTTTACCCTCGATT
83186828 GTGAAATTAC
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 110 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (54 bp):
TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCG
Found at i:83186745 original size:81 final size:80
Alignment explanation
Indices: 83186630--83186827 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 80
83186620 TACTGAAATG
* * *
83186630 CCCTCAATTTGTAGAATTATCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
*
83186695 CAAAATTACCGTTTTA
65 CAAAATTACCATTTTA
* *
83186711 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
83186776 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
* * * *
83186792 CCCACAGTTTAAAAAATTACCGTTTTACCCTCGATT
1 CCCTCA-TTTATAGAATTACCATTTTACCCTCGATT
83186828 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 104 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (80 bp):
CCCTCATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:83186891 original size:27 final size:27
Alignment explanation
Indices: 83186861--83187036 Score: 207
Period size: 27 Copynumber: 6.5 Consensus size: 27
83186851 TAGGATAGAG
83186861 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
83186888 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* *
83186915 TTACCAAAATAACCCTAGTTCGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* * * *
83186942 TTACCGAAATACCACTAGGTTGTGAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
83186969 TTA-CAGAAATA-CCCTCAATTTGTAAAA
1 TTACCA-AAATACCCCT-AGTTTGTAAAA
**
83186996 TTACCAAAATACCCCT-GATTTACAAAA
1 TTACCAAAATACCCCTAG-TTTGTAAAA
83187023 TTA-CAGAAATACCC
1 TTACCA-AAATACCC
83187037 TTGACTTTCT
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.05
27 115 0.91
28 6 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:83186900 original size:54 final size:52
Alignment explanation
Indices: 83186817--83187011 Score: 180
Period size: 54 Copynumber: 3.6 Consensus size: 52
83186807 ATTACCGTTT
* * * ** *
83186817 TACCCTCGATTGTGAAATTACTGAAATACCCCT-GTAGGATAGAGTTACCAAAA
1 TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTGGATA-A-TTACCAAAA
* *
83186870 TACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TA-CCCTAGTTTGTAAAATTACCAAAATACCCCTAG-TTGGATAATTACCAAAA
* * *
83186924 TAACCCTAGTTCGTAAAATTACCGAAATACCACTAGGTTGTGA-AATTA-CAGAAA
1 T-ACCCTAGTTTGTAAAATTACCAAAATACCCCTA-GTTG-GATAATTACCA-AAA
*
83186978 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCT-AGTTTGTAAAATTACCAAAATACCCCT
83187012 GATTTACAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
53 9 0.08
54 100 0.85
55 5 0.04
56 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (52 bp):
TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTGGATAATTACCAAAA
Found at i:83187024 original size:54 final size:53
Alignment explanation
Indices: 83186867--83187093 Score: 174
Period size: 54 Copynumber: 4.2 Consensus size: 53
83186857 AGAGTTACCA
* * **
83186867 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-
1 AAATA-CCCTAATTTGTAAAATTACCAAAATACCACTGA-TTTACAAAATTA-CAG
* * * * *
83186921 AAATAACCCTAGTTCGTAAAATTACCGAAATACCACTAGGTTGT--GAAATTACAG
1 AAAT-ACCCTAATTTGTAAAATTACCAAAATACCACT-GATT-TACAAAATTACAG
*
83186975 AAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAG
1 AAATACCCT-AATTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAG
* * ** * * *
83187029 AAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACAAAATTACTG
1 AAATACCC-T-AATTTGT-AAAATTACCAAAATACCACTGATTTACAAAATTACAG
*
83187085 AAACACCCT
1 AAATACCCT
83187094 TGGTTTGTAG
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 10 0.07
54 82 0.58
55 10 0.07
56 39 0.27
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
AAATACCCTAATTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAG
Found at i:83187074 original size:56 final size:55
Alignment explanation
Indices: 83186966--83187095 Score: 154
Period size: 56 Copynumber: 2.4 Consensus size: 55
83186956 CTAGGTTGTG
* * * *
83186966 AAATTACAGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACAGAAATACCCTTGAATTTCTAAAATTACAAAAATACCACTGATTTACA
* * * *
83187020 AAATTACAGAAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGAATTTCT-AAAATTACAAAAATACCACTGATTTACA
* *
83187076 AAATTACTGAAACACCCTTG
1 AAATTACAGAAATACCCTTG
83187096 GTTTGTAGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 17 0.27
55 6 0.09
56 41 0.64
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (55 bp):
AAATTACAGAAATACCCTTGAATTTCTAAAATTACAAAAATACCACTGATTTACA
Found at i:83187096 original size:27 final size:27
Alignment explanation
Indices: 83186992--83187099 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
83186982 CTCAATTTGT
** * *
83186992 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
83187019 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
83187046 TAAAAATTA-TAAAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
*
83187075 AAAATTACTGAAACACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
83187100 GTAGATTTAC
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
27 39 0.61
28 7 0.11
29 18 0.28
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:83187183 original size:27 final size:27
Alignment explanation
Indices: 83187140--83187213 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
83187130 AAATAACTAA
*
83187140 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
83187167 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
83187194 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
83187214 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:83187217 original size:27 final size:27
Alignment explanation
Indices: 83187153--83187217 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
83187143 ACCCCTAATA
*
83187153 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
83187180 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
83187207 GGTAAAATGAC
1 GGTAAAATGAC
83187218 GAATATGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:83194329 original size:39 final size:40
Alignment explanation
Indices: 83194252--83194358 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
83194242 TAGCTCCTCG
* * *
83194252 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
83194292 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
83194331 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
83194359 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:83194347 original size:40 final size:39
Alignment explanation
Indices: 83194295--83194425 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
83194285 TAACTCATTC
* *
83194295 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
83194335 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
83194375 AAGGCCTTCGGGACTTAACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
*
83194415 AATACCTTCGG
1 AATGCCTTCGG
83194426 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 76 0.96
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:83194438 original size:80 final size:80
Alignment explanation
Indices: 83194298--83194471 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
83194288 CTCATTCAAT
* * * *
83194298 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
*
83194362 AGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
83194377 GGCCTTCGGGACTTAACCCAGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
*
83194440 ATAGTCACTTAGCTCAAA
63 ATAGTCACTTAGCACAAA
83194458 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
83194472 GCCCGGACAG
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
79 7 0.09
80 64 0.79
81 9 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:83202201 original size:39 final size:40
Alignment explanation
Indices: 83202124--83202270 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
83202114 TAGCTCCTCG
* * *
83202124 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
83202164 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
83202203 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
83202243 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
83202271 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:83202281 original size:80 final size:80
Alignment explanation
Indices: 83202170--83202350 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
83202160 CTCATTCAAT
* * *
83202170 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
83202233 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
83202249 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
83202313 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
83202330 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
83202351 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:83202310 original size:40 final size:40
Alignment explanation
Indices: 83202167--83202350 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
83202157 TAACTCATTC
* *
83202167 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
83202207 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
83202247 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
83202287 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
83202328 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
83202351 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:83209199 original size:5 final size:5
Alignment explanation
Indices: 83209193--83209235 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
83209183 TAGTAGCCTT
*
83209193 AAATT AAATA AAATA TAAAT- AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA -AAATA AAATA AAATA AAATA AAATA AAA
83209236 ACAATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
6 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Done.