Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold491
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: 121303
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:17471 original size:27 final size:27
Alignment explanation
Indices: 17441--17618 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17431 ATATTGAGTC
* * * *
17441 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17468 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17495 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17523 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17550 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17577 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17604 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17619 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17580 original size:82 final size:81
Alignment explanation
Indices: 17462--17617 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17452 TGCTATATAA
* *
17462 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17527 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17544 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17608 CACTTAGTGC
65 CACTTAGTGC
17618 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33388 original size:46 final size:46
Alignment explanation
Indices: 33229--33398 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
33219 GGATGTTGAG
* *
33229 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
33274 TCGAACTCG-TGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
33318 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
33366 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33399 GGGGGGTTAC
Statistics
Matches: 102, Mismatches: 14, Indels: 17
0.77 0.11 0.13
Matches are distributed among these distances:
42 6 0.06
44 14 0.14
45 15 0.15
46 39 0.38
47 18 0.18
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:33653 original size:19 final size:20
Alignment explanation
Indices: 33616--33653 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33606 ATAAGGTGGT
33616 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
33636 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
33654 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40786 original size:46 final size:46
Alignment explanation
Indices: 40734--40861 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
40724 GATGGTTGAG
*
40734 CATCCGAACTCGTTGAGTTGAGTCTGGGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAA
** * * *
40780 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAA
* * *
40826 CACCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
40862 GGGGCGGGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAA
Found at i:41121 original size:18 final size:19
Alignment explanation
Indices: 41084--41121 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
41074 CGATAAGGTG
41084 TAAGATGATGAATGATGTT
1 TAAGATGATGAATGATGTT
41103 TAAGATG-TGATAT-ATGTT
1 TAAGATGATGA-ATGATGTT
41121 T
1 T
41122 TGGTGGTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (19 bp):
TAAGATGATGAATGATGTT
Found at i:42601 original size:25 final size:25
Alignment explanation
Indices: 42564--42613 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
42554 CATTATCTTA
*
42564 CCATTTCATTATA-CACATATATCAT
1 CCATTTCAATATATCA-ATATATCAT
42589 CCATTTCAATATATCAATATATCAT
1 CCATTTCAATATATCAATATATCAT
42614 GTACCATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATTTCAATATATCAATATATCAT
Found at i:47763 original size:13 final size:13
Alignment explanation
Indices: 47745--47770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47735 ACCAAGATAT
47745 CAAAATCTATTGA
1 CAAAATCTATTGA
47758 CAAAATCTATTGA
1 CAAAATCTATTGA
47771 TTTAATCGCT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CAAAATCTATTGA
Found at i:47827 original size:17 final size:16
Alignment explanation
Indices: 47800--47831 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
47790 GATAAAATCT
47800 CCGATGAGCTTCCAAC
1 CCGATGAGCTTCCAAC
47816 CCGATCGAGCTTCCAA
1 CCGAT-GAGCTTCCAA
47832 TAATCTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.25, C:0.38, G:0.19, T:0.19
Consensus pattern (16 bp):
CCGATGAGCTTCCAAC
Found at i:59703 original size:14 final size:15
Alignment explanation
Indices: 59655--59703 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
59645 TATCTTGGGG
*
59655 TTCTTTATCCTGGAT
1 TTCTTTATTCTGGAT
*
59670 CTCTTTATTCTGGAT
1 TTCTTTATTCTGGAT
*
59685 TTCTTTATTC-GGTT
1 TTCTTTATTCTGGAT
59699 TTCTT
1 TTCTT
59704 GTTATCTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.59
Consensus pattern (15 bp):
TTCTTTATTCTGGAT
Found at i:62120 original size:45 final size:45
Alignment explanation
Indices: 62071--62243 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
62061 TGGTTGAGCA
62071 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
62116 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
*
62161 CATCC-AACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* *
62207 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62244 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 4 0.04
45 56 0.52
46 32 0.30
47 3 0.03
48 4 0.04
49 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:62230 original size:91 final size:92
Alignment explanation
Indices: 62068--62235 Score: 286
Period size: 91 Copynumber: 1.8 Consensus size: 92
62058 GGATGGTTGA
* *
62068 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTT
62133 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
62160 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGCCCGAACTCGTTGAGT
62223 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
62236 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
90 9 0.12
91 57 0.79
92 6 0.08
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:67396 original size:47 final size:47
Alignment explanation
Indices: 67345--67450 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
67335 CAAATTATCT
*
67345 TGTAAGACCATGTTTGGAGCATGGCATTTGGTAAGAAAAGGATACCA
1 TGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAAAAGGATACCA
* * * *
67392 TGTAAAACCATTTTTGGAACATGGCATTTGGTAAGATAAGGATATCA
1 TGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAAAAGGATACCA
67439 TGTAAGACCATG
1 TGTAAGACCATG
67451 CCAAGGCATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (47 bp):
TGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAAAAGGATACCA
Found at i:67493 original size:54 final size:54
Alignment explanation
Indices: 67429--67679 Score: 308
Period size: 54 Copynumber: 4.6 Consensus size: 54
67419 TTGGTAAGAT
*
67429 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
67483 AAGGAAATCATGTAAGACCATGCCAATACATGGCATCGATAAGTTCTGTAAGGT
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * **
67537 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAACGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
** * * * *
67592 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGTTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
*
67645 AAGGATATCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCA
67680 ATAGTAAGTT
Statistics
Matches: 166, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
52 4 0.02
53 32 0.19
54 88 0.53
55 38 0.23
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:77858 original size:19 final size:20
Alignment explanation
Indices: 77831--77868 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
77821 GTCAAGGTTA
77831 GGATAGTGA-ATAGAGAAAT
1 GGATAGTGATATAGAGAAAT
* *
77850 GGATGGTGATATAGGGAAA
1 GGATAGTGATATAGAGAAA
77869 AAGGAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (20 bp):
GGATAGTGATATAGAGAAAT
Found at i:79878 original size:51 final size:51
Alignment explanation
Indices: 79793--79933 Score: 151
Period size: 51 Copynumber: 2.8 Consensus size: 51
79783 ACGGATACTC
* *
79793 AGTGGCCTGCACATGGTACCACCCTTGT-AGTCAAAGCTAACTTCTT-CACAA
1 AGTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTAAC-TCTTACACAA
* * * * * *
79844 AGTGGCCTTCACATAGTACTACACTTGTGATCAAAACCATCTCTTACACAT
1 AGTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTAACTCTTACACAA
* * *
79895 AGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTA
1 AGTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
79934 TCAGGTACGC
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
50 4 0.05
51 68 0.93
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (51 bp):
AGTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTAACTCTTACACAA
Found at i:80010 original size:50 final size:51
Alignment explanation
Indices: 79892--80030 Score: 172
Period size: 50 Copynumber: 2.7 Consensus size: 51
79882 ATCTCTTACA
* * * * *
79892 CATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCAGGTACG
* * * *
79943 CATAGTAGCCTGCACTTAGTAATACACATGCGACCTAA-CCATCTGGTACT
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCAGGTACG
* *
79993 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
80031 TTCATCCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 43 0.57
51 32 0.43
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCAGGTACG
Found at i:80373 original size:29 final size:30
Alignment explanation
Indices: 80312--80374 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
80302 ATCCTATGGC
* **
80312 AAAAATTACAATTTTGCCCCTAAAGTTTTA
1 AAAAATTACAATTTTGCCCCTAAAGCTCAA
* *
80342 AAAAATTTCAATTTTGCCCCT-AGGCTCAA
1 AAAAATTACAATTTTGCCCCTAAAGCTCAA
80371 AAAA
1 AAAA
80375 TAATTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAAATTACAATTTTGCCCCTAAAGCTCAA
Found at i:81214 original size:14 final size:14
Alignment explanation
Indices: 81197--81224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
81187 CATCTTATTC
81197 ATAGTTTCTTCTAA
1 ATAGTTTCTTCTAA
81211 ATAGTTTCTTCTAA
1 ATAGTTTCTTCTAA
81225 CTCATCGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTTCTTCTAA
Found at i:83228 original size:31 final size:31
Alignment explanation
Indices: 83193--83256 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
83183 CTTTTTCATA
83193 TTTCATATTTCATAACACTAGGATGAAGCCT
1 TTTCATATTTCATAACACTAGGATGAAGCCT
** * *
83224 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTAGGATGAAGCCT
83255 TT
1 TT
83257 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGATGAAGCCT
Found at i:83520 original size:25 final size:26
Alignment explanation
Indices: 83476--83546 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
83466 CTCTTTTAAT
*
83476 AACTGGGGCACAA-CCCTTTT-GATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
83500 AATTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
83526 AACTGGGGCAAAAGCACTTTT
1 AACTGGGGCAAAAGCCCTTTT
83547 TGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 11 0.28
25 7 0.17
26 22 0.55
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:83532 original size:26 final size:25
Alignment explanation
Indices: 83468--83546 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 25
83458 GGCCTAACCT
* *
83468 CTTTTAAT-AACTGGGGCACAA-CC
1 CTTTTGATAAACTGGGGCAAAAGCC
*
83491 CTTTTGATAAATTGGGGCAAAAGCC
1 CTTTTGATAAACTGGGGCAAAAGCC
* *
83516 CTTTTCGGTAAACTGGGGCAAAAGCA
1 CTTTT-GATAAACTGGGGCAAAAGCC
83542 CTTTT
1 CTTTT
83547 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 7 0.15
24 11 0.23
25 7 0.15
26 22 0.47
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (25 bp):
CTTTTGATAAACTGGGGCAAAAGCC
Found at i:87716 original size:47 final size:47
Alignment explanation
Indices: 87665--88199 Score: 764
Period size: 47 Copynumber: 11.1 Consensus size: 47
87655 TTAGGATTTT
* *
87665 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
87712 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
87763 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
87810 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
87857 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
87908 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** *
87955 ATGTGATGAATGTGAACCTGTATATATATACGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CGTATGT--GTGATAAGGCCGAATGGCCA
88006 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
88053 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
88100 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * * *
88147 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGTCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
88194 ATGTGA
1 ATGTGA
88200 AAGGTGTATG
Statistics
Matches: 444, Mismatches: 32, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
47 308 0.69
49 12 0.03
51 124 0.28
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:87776 original size:98 final size:94
Alignment explanation
Indices: 87665--88199 Score: 764
Period size: 98 Copynumber: 5.6 Consensus size: 94
87655 TTAGGATTTT
* * *
87665 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
***
87730 CGTATATATATGTGTGATAAGGCCGAATGGCCA
64 C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
87763 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
87828 TGCGTATGTGTGATAAGGCCGAATGGCCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
**
87857 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
87922 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
87955 ATGTGATGAATGTGAACCTGTATATATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACATG--CATATGT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
88020 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
88053 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
88118 TGCATATATGAGATAAGGCCGAATGGCCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
* * * * *
88147 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGTCGAATGGCTAATGTGA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
88200 AAGGTGTATG
Statistics
Matches: 403, Mismatches: 26, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
94 155 0.38
96 13 0.03
98 235 0.58
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:87814 original size:145 final size:144
Alignment explanation
Indices: 87665--88199 Score: 821
Period size: 145 Copynumber: 3.7 Consensus size: 144
87655 TTAGGATTTT
* * * *
87665 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
87730 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
87795 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
* * *
87810 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
87875 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
87940 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
* *
87955 ATGTGATGAATGTGAACCTGTATATATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
***
88020 AA--C-ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
62 AACCCGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
88082 GATAAGGCCGAATGGCCA
127 GATAAGGCCGAATGGCCA
* *
88100 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* * *
88165 TGA-ATATATGTG-G-TAAGGTCGAATGGCTAATGTGA
66 CGATATATATGTGTGATAAGGCCGAATGGCCAATGTGA
88200 AAGGTGTATG
Statistics
Matches: 365, Mismatches: 18, Indels: 18
0.91 0.04 0.04
Matches are distributed among these distances:
141 55 0.15
142 1 0.00
143 12 0.03
144 1 0.00
145 255 0.70
147 5 0.01
149 36 0.10
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:87912 original size:24 final size:24
Alignment explanation
Indices: 87884--87959 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
87874 CCGTATATAT
87884 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
87908 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
87931 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
87955 ATGTG
1 ATGTG
87960 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:88033 original size:23 final size:23
Alignment explanation
Indices: 88006--88080 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
87996 CGAATGGCCA
88006 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
88029 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
88053 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
88076 ATGTG
1 ATGTG
88081 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:88259 original size:46 final size:46
Alignment explanation
Indices: 88170--88260 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
88160 GAACATGAAT
* * * * *
88170 ATATGTGGTAAGGTCGAATGGCTAATGTGAAAGGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAAGATGTACGAGATGG
* *
88216 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAAGATGTACGAGATG
88261 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGTGAAAGATGTACGAGATGG
Found at i:88584 original size:37 final size:37
Alignment explanation
Indices: 88402--88583 Score: 274
Period size: 37 Copynumber: 4.9 Consensus size: 37
88392 GGAAATATAT
*
88402 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
88439 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
88476 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
88513 TATGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
88550 TCCGGCTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
88584 TCGTCTGAGC
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:90093 original size:23 final size:23
Alignment explanation
Indices: 90027--90133 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 23
90017 ATATATCCGG
90027 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* * *
90050 GCT-AGT---GA-TA-TATTCGG
1 GCTAAGTCCCGAGGAGCATTCGT
90067 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* * * *
90090 GCT-AGT---GA-TA-TATCCGG
1 GCTAAGTCCCGAGGAGCATTCGT
90107 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
90130 GCTA
1 GCTA
90134 GTGATGTATC
Statistics
Matches: 58, Mismatches: 14, Indels: 24
0.60 0.15 0.25
Matches are distributed among these distances:
17 15 0.26
18 8 0.14
19 4 0.07
21 4 0.07
22 8 0.14
23 19 0.33
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAGGAGCATTCGT
Found at i:90256 original size:40 final size:40
Alignment explanation
Indices: 89852--90244 Score: 615
Period size: 40 Copynumber: 9.8 Consensus size: 40
89842 TGAGAATTGA
*
89852 TAGTGATATATCCGGGCTAAGTCCCGAATAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
89892 TAGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
89932 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* * *
89972 TAGTGATATATCTGGGCTAAGTCTCGAGGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
*
90012 TAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
90052 TAGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
*
90092 TAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
90132 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* ** *
90172 TAGTGATATATCCGTGCTAAACCCCGAAGAGCATTTGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* * *
90212 TGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
90245 ATCATGCTGG
Statistics
Matches: 326, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 326 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
Found at i:94243 original size:24 final size:24
Alignment explanation
Indices: 94215--94290 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
94205 CCGTATATAT
94215 ATGTGTGATAAGGACGAATGGCCA
1 ATGTGTGATAAGGACGAATGGCCA
* **
94239 ATGTGATGA-ATGTGA--ACAT-GCGT
1 ATGTG-TGATAAG-GACGA-ATGGCCA
*
94262 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGACGAATGGCCA
94286 ATGTG
1 ATGTG
94291 ATGTATGTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.45
25 5 0.13
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGACGAATGGCCA
Found at i:94299 original size:145 final size:144
Alignment explanation
Indices: 94141--94674 Score: 758
Period size: 145 Copynumber: 3.7 Consensus size: 144
94131 TTAGGATTTT
*
94141 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
94206 CGTATATATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
94271 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
* *
94286 ATGTGATGTATGTGAACATGCGTATGTGTGATAAGGCCGAATGCCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
94351 CGTATATATATGTGTGATAAGGTCGAATGGCCTATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
*
94416 AAGACCGAATGGCCA
130 AAGGCCGAATGGCCA
* * *
94431 ATGTGATGAATGTGAACCTGTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAACATGCG------TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
***
94496 TGAA--C-ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
60 TGAACCCGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
94558 GTGATAAGGCCGAATGGCCA
125 GTGATAAGGCCGAATGGCCA
* * * *
94578 ATGTGATGAAT-TAGAACATGCATATATGAGATAAGGCCGAATGGCTAATGTGATGAATGTGAAC
1 ATGTGATGAATGT-GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
** *
94642 ATGA-ATATATGTG-G-TAAGGCCGAATGGCTAATG
65 CCGATATATATGTGTGATAAGGCCGAATGGCCAATG
94675 CGAAACGTGT
Statistics
Matches: 351, Mismatches: 28, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
141 55 0.16
142 1 0.00
143 6 0.02
144 1 0.00
145 159 0.45
146 1 0.00
147 88 0.25
149 1 0.00
151 39 0.11
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:94329 original size:23 final size:23
Alignment explanation
Indices: 94256--94329 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
94246 GAATGTGAAC
94256 ATGCGTATGTGTGATAAGGCCGA
1 ATGCGTATGTGTGATAAGGCCGA
** * *
94279 ATGGCCAATGTGATG-TATGTG--AA
1 AT-GCGTATGTG-TGATAAG-GCCGA
94302 CATGCGTATGTGTGATAAGGCCGA
1 -ATGCGTATGTGTGATAAGGCCGA
94326 ATGC
1 ATGC
94330 CCAATGTGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (23 bp):
ATGCGTATGTGTGATAAGGCCGA
Found at i:94477 original size:53 final size:47
Alignment explanation
Indices: 94141--94674 Score: 701
Period size: 47 Copynumber: 11.1 Consensus size: 47
94131 TTAGGATTTT
*
94141 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
94188 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
94239 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
94286 ATGTGATGTATGTGAACATGCGTATGTGTGATAAGGCCGAATGCCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
94333 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGTCGAATGGCCT
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
94384 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
94431 ATGTGATGAATGTGAACCTGTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCG------TATGTGTGATAAGGCCGAATGGCCA
94484 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
94531 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
94578 ATGTGATGAAT-TAGAACATGCATATATGAGATAAGGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
94625 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
94672 ATG
1 ATG
94675 CGAAACGTGT
Statistics
Matches: 433, Mismatches: 38, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
46 1 0.00
47 302 0.70
48 1 0.00
49 4 0.01
51 82 0.19
53 43 0.10
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:94511 original size:23 final size:23
Alignment explanation
Indices: 94484--94558 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
94474 CGAATGGCCA
94484 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
94507 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
94531 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
94554 ATGTG
1 ATGTG
94559 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:94737 original size:46 final size:46
Alignment explanation
Indices: 94648--94738 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
94638 GAACATGAAT
* * * *
94648 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
94694 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
94739 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:95028 original size:37 final size:37
Alignment explanation
Indices: 94883--95027 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
94873 GGAAATATAT
*
94883 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
94920 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
94957 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
94994 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
95028 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:99304 original size:46 final size:46
Alignment explanation
Indices: 99232--99360 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
99222 TGTAACCCGC
* * *
99232 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
99278 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
99324 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
99361 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:99379 original size:46 final size:45
Alignment explanation
Indices: 99237--99379 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
99227 CCCGCCCATA
* ** *
99237 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
** **
99282 GAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* *
99328 AAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
99375 AGTGA
1 AGTGA
99380 CATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:105454 original size:48 final size:48
Alignment explanation
Indices: 105394--105499 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
105384 CGGCCACAAT
* *
105394 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
105442 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
105490 ACATATATAT
1 ATATACATAT
105500 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:108325 original size:31 final size:31
Alignment explanation
Indices: 108290--108353 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
108280 CCTTTTCATA
*
108290 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
***
108321 TTTCATATTTCATATTGCTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
108352 TT
1 TT
108354 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:108588 original size:24 final size:25
Alignment explanation
Indices: 108561--108644 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
108551 CTGGAGGCCT
*
108561 AGCCTCTTTTAAT-ATCTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
108585 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
**
108610 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-AATAAACTGGGGCAAA
108636 AGCCCTTTT
1 AGCCCTTTT
108645 TGCACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
23 7 0.13
24 12 0.22
25 11 0.20
26 24 0.44
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:108617 original size:25 final size:26
Alignment explanation
Indices: 108576--108644 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
108566 CTTTTAATAT
108576 CTGGGGC-AAAGCCCTTTT-GATAAA
1 CTGGGGCAAAAGCCCTTTTCGATAAA
*
108600 CTGGGGCAAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAAGCCCTTTTCGATAAA
108626 CTGGGGCAAAAGCCCTTTT
1 CTGGGGCAAAAGCCCTTTT
108645 TGCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 7 0.17
25 11 0.26
26 24 0.57
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (26 bp):
CTGGGGCAAAAGCCCTTTTCGATAAA
Found at i:108715 original size:20 final size:20
Alignment explanation
Indices: 108692--108738 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
108682 TTATGAATAC
108692 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
108712 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
108732 ATCATGT
1 ATCATGT
108739 ATATCAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:119285 original size:54 final size:54
Alignment explanation
Indices: 119100--119293 Score: 230
Period size: 55 Copynumber: 3.6 Consensus size: 54
119090 AACTTACCAT
* * * *
119100 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCAGCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
** ** *
119153 TGCCATGCCTTGGGATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * *
119208 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* *
119262 TGCCATGCCTTGGCATGATCTTACATGATATC
1 TGCCATGCCTTGACATGGTCTTACATGATATC
119294 TTTATCTTAC
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 38 0.32
55 43 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:119335 original size:47 final size:47
Alignment explanation
Indices: 119275--119374 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
119265 CATGCCTTGG
* *
119275 CATGATCTTACATGATATCTTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
119322 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
119369 CATGGT
1 CATGGT
119375 ATCCTTGTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:119593 original size:45 final size:45
Alignment explanation
Indices: 119525--119610 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
119515 ATCCTTAATC
* *
119525 GTCAATTCCTCATTAAATGCCATGTTATGAA-CATGGACTTTTTTT
1 GTCAATTCCTCATTAAATGCCATGGTA-CAACCATGGACTTTTTTT
* * * *
119570 GTCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCATTAAATGCCATGGTACAACCATGGACTTT
119611 GAGATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 2 0.06
45 32 0.94
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (45 bp):
GTCAATTCCTCATTAAATGCCATGGTACAACCATGGACTTTTTTT
Found at i:120180 original size:30 final size:29
Alignment explanation
Indices: 120146--120206 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
120136 TTCCCTAACT
120146 TAAA-CTTTGGCAAAATTACAATTTTGGCCC
1 TAAACCTTT-GCAAAATTACAATTTT-GCCC
* **
120176 TAAACCTTTGCAGAATTATGATTTTGCCC
1 TAAACCTTTGCAAAATTACAATTTTGCCC
120205 TA
1 TA
120207 GGCTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.22
30 17 0.63
31 4 0.15
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (29 bp):
TAAACCTTTGCAAAATTACAATTTTGCCC
Done.