Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 442 of 770
Found at i:136086014 original size:26 final size:26
Alignment explanation
Indices: 136085960--136086016 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
136085950 TATGAAGGTT
136085960 TAAGTG-CATGAAATTATGTCATGTG
1 TAAGTGCCATGAAATTATGTCATGTG
* *
136085985 -AAGTGCCATTGAAGTTATGT-TTGTG
1 TAAGTGCCA-TGAAATTATGTCATGTG
136086010 TAAGTGC
1 TAAGTGC
136086017 AATTAAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 6 0.22
26 16 0.59
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (26 bp):
TAAGTGCCATGAAATTATGTCATGTG
Found at i:136090371 original size:20 final size:20
Alignment explanation
Indices: 136090346--136090390 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
136090336 AGGGACTAAA
* *
136090346 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
136090366 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
136090386 ATGAA
1 ATGAA
136090391 TGCATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:136090548 original size:27 final size:27
Alignment explanation
Indices: 136090507--136090575 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
136090497 AAGTTAGAGG
*
136090507 TAAATTGAGTTCATTAAGCCTAGGACA
1 TAAATTGAGTCCATTAAGCCTAGGACA
136090534 TAAATTGAGTCCATTAAGCCTAGGACA
1 TAAATTGAGTCCATTAAGCCTAGGACA
*
136090561 TAAGTTGAGTCCATT
1 TAAATTGAGTCCATT
136090576 TAAATATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (27 bp):
TAAATTGAGTCCATTAAGCCTAGGACA
Found at i:136092659 original size:47 final size:47
Alignment explanation
Indices: 136092601--136092752 Score: 259
Period size: 47 Copynumber: 3.2 Consensus size: 47
136092591 CTGGAGGCCT
*
136092601 AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATA
*
136092649 AGCCCTTTTAATAACTAGGGCATAAGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCC-TTTTATAACTGGGGCATA
*
136092697 AGCCCTTTTTATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATA
136092744 AGCCCTTTT
1 AGCCCTTTT
136092753 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
47 51 0.52
48 48 0.48
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (47 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATA
Found at i:136092663 original size:24 final size:24
Alignment explanation
Indices: 136092601--136092752 Score: 254
Period size: 24 Copynumber: 6.4 Consensus size: 24
136092591 CTGGAGGCCT
136092601 AGCCTCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATA
136092626 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
136092649 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
136092673 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
136092697 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
136092721 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
136092744 AGCCCTTTT
1 AGCCCTTTT
136092753 GCACTTCCTC
Statistics
Matches: 123, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
23 46 0.37
24 73 0.59
25 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:136092824 original size:9 final size:9
Alignment explanation
Indices: 136092810--136092866 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
136092800 ATCTCGTGTG
136092810 CATATCATA
1 CATATCATA
*
136092819 CATATCATGTG
1 CATATCA--TA
136092830 CATATCATA
1 CATATCATA
* *
136092839 CATGTCATGTG
1 CATATCA--TA
136092850 CATATCATA
1 CATATCATA
136092859 CATATCAT
1 CATATCAT
136092867 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:136092829 original size:20 final size:20
Alignment explanation
Indices: 136092806--136092868 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
136092796 GAACATCTCG
136092806 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
136092826 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
136092846 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
136092866 TGT
1 TGT
136092869 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:136092933 original size:25 final size:25
Alignment explanation
Indices: 136092905--136092952 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
136092895 ATATATAAAC
* * *
136092905 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
136092930 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
136092953 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:136101168 original size:39 final size:39
Alignment explanation
Indices: 136101117--136101278 Score: 261
Period size: 39 Copynumber: 4.2 Consensus size: 39
136101107 TATGGTAACC
* * *
136101117 CGCACAAATGCCTTCGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
136101156 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
136101195 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
136101234 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
136101273 CGCACA
1 CGCACA
136101279 TTCATACACA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:136103168 original size:40 final size:40
Alignment explanation
Indices: 136103107--136103324 Score: 201
Period size: 40 Copynumber: 5.5 Consensus size: 40
136103097 CGATATCTCT
* * * *
136103107 CACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATAG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATAG
* * * * * **
136103147 CACACTAAGTACTATATATAGCTGAAGCTATCTGGATCTCA-
1 CACACTAAGTGCCATATATAGCCGAAGCTATGT-CAAAT-AG
*
136103188 CACACTAAGTGCCATATATAGCCGAAGCTATGTC-GA-A-
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATAG
* * *
136103225 CACACTAAGTGCCACATATAGCCGAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATAG
* * * * *
136103265 CACACTAAGTTCCACATATAGCCGAAACTATGTCGAATTG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATAG
*
136103305 CACACTAAGTTCCATATATA
1 CACACTAAGTGCCATATATA
136103325 CAATTTATGC
Statistics
Matches: 152, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
37 34 0.22
38 1 0.01
40 85 0.56
41 31 0.20
42 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATAG
Found at i:136107782 original size:27 final size:28
Alignment explanation
Indices: 136107725--136107794 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
136107715 AAATTTGTAC
**
136107725 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
136107753 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
136107780 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
136107795 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:136107803 original size:27 final size:27
Alignment explanation
Indices: 136107725--136107806 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
136107715 AAATTTGTAC
* *
136107725 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
136107753 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
136107780 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
136107807 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:136115705 original size:27 final size:28
Alignment explanation
Indices: 136115648--136115717 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
136115638 AAATTTGTAC
**
136115648 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
136115676 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
136115703 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
136115718 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:136115726 original size:27 final size:27
Alignment explanation
Indices: 136115648--136115729 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
136115638 AAATTTGTAC
* *
136115648 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
136115676 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
136115703 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
136115730 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:136121507 original size:18 final size:18
Alignment explanation
Indices: 136121476--136121510 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
136121466 ATTTAGTCGG
* *
136121476 TTTCTTCTTTCCCTTAGC
1 TTTCTGCTTCCCCTTAGC
136121494 TTTCTGCTTCCCCTTAG
1 TTTCTGCTTCCCCTTAG
136121511 AGGACGAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.34, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCTGCTTCCCCTTAGC
Found at i:136126879 original size:48 final size:48
Alignment explanation
Indices: 136126778--136127116 Score: 628
Period size: 48 Copynumber: 7.1 Consensus size: 48
136126768 TATATATGTG
*
136126778 TGTGGTAAAGCCGAATGGCTAGTGTGAAAT-TGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136126825 CGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136126873 TGTGGTAAAGCC-ATATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGA-ATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136126921 TGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136126969 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136127017 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136127065 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136127113 TGTG
1 TGTG
136127117 AAATATGTAT
Statistics
Matches: 284, Mismatches: 5, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
47 29 0.10
48 254 0.89
49 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:136127115 original size:26 final size:26
Alignment explanation
Indices: 136127086--136127142 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
136127076 CGAATGGCTA
136127086 ATGTGAAATATGTATGAGATATGTAT
1 ATGTGAAATATGTATGAGATATGTAT
136127112 ATGTGAAATATGTATGAGATATGTAT
1 ATGTGAAATATGTATGAGATATGTAT
136127138 ATGTG
1 ATGTG
136127143 GTAAAGCCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.39
Consensus pattern (26 bp):
ATGTGAAATATGTATGAGATATGTAT
Found at i:136127123 original size:122 final size:122
Alignment explanation
Indices: 136126990--136127238 Score: 471
Period size: 122 Copynumber: 2.0 Consensus size: 122
136126980 CGAATGGCTA
*
136126990 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
136127055 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
136127112 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
136127177 GATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTAT
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
136127234 ATGTG
1 ATGTG
136127239 GTAAAGCCGA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 124 1.00
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (122 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
Found at i:136127140 original size:13 final size:13
Alignment explanation
Indices: 136127098--136127140 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
136127088 GTGAAATATG
136127098 TATGAGATATGTA
1 TATGAGATATGTA
* * * *
136127111 TATGTGAAATATG
1 TATGAGATATGTA
136127124 TATGAGATATGTA
1 TATGAGATATGTA
136127137 TATG
1 TATG
136127141 TGGTAAAGCC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (13 bp):
TATGAGATATGTA
Found at i:136127167 original size:48 final size:48
Alignment explanation
Indices: 136127112--136127275 Score: 276
Period size: 48 Copynumber: 3.4 Consensus size: 48
136127102 AGATATGTAT
136127112 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
136127160 ATGTGAAATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
136127208 GTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
136127256 GA-GTGAAATATGTAGGAGAT
1 -ATGTGAAATATGTATGAGAT
136127276 GTGTGTATAT
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:136127224 original size:170 final size:170
Alignment explanation
Indices: 136126942--136127275 Score: 616
Period size: 170 Copynumber: 2.0 Consensus size: 170
136126932 CGAGTGGCTA
*
136126942 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
136127007 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
*
136127072 AAGCCGAATGGCTA-ATGTGAAATATGTATGAGATATGTAT
131 AAGCCGAATGGCTAGA-GTGAAATATGTAGGAGATATGTAT
136127112 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
136127177 GATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
136127242 AAGCCGAATGGCTAGAGTGAAATATGTAGGAGAT
131 AAGCCGAATGGCTAGAGTGAAATATGTAGGAGAT
136127276 GTGTGTATAT
Statistics
Matches: 159, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
170 158 0.99
171 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (170 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAGAGTGAAATATGTAGGAGATATGTAT
Found at i:136127467 original size:37 final size:37
Alignment explanation
Indices: 136127416--136127555 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
136127406 GGAAATGTAT
136127416 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
136127453 TCCGGGTAAAACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
136127490 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
136127527 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
136127556 GGACTATTCG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:136129122 original size:40 final size:40
Alignment explanation
Indices: 136128852--136129110 Score: 455
Period size: 40 Copynumber: 6.5 Consensus size: 40
136128842 TATATAGCCA
*
136128852 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGTCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
136128892 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
136128932 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
* *
136128972 GGCTAAGTCCCGAAGAGTATTCGTGCTGGTGTTATGTCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
* *
136129012 TGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
136129052 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
* *
136129092 GGCTAGGTCCTGAAGAGCA
1 GGCTAAGTCCCGAAGAGCA
136129111 ATCATGTTGG
Statistics
Matches: 208, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
Found at i:136129336 original size:25 final size:25
Alignment explanation
Indices: 136129286--136129336 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
136129276 TGTGTAACAA
* *
136129286 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
136129311 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
136129336 C
1 C
136129337 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:136135184 original size:48 final size:48
Alignment explanation
Indices: 136135122--136135629 Score: 790
Period size: 48 Copynumber: 10.9 Consensus size: 48
136135112 TATATATGTG
*
136135122 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136135170 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136135218 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136135266 TATGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136135314 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136135362 TGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
136135410 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * * * *
136135458 TGTGGTAAAG-C---T-G-AAATATG---TATG-A-GATATGTATA--
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
136135493 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
136135541 TGTGGTAAAGCCGAACGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
136135589 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
136135630 GTGTGTATAT
Statistics
Matches: 422, Mismatches: 25, Indels: 26
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.02
36 1 0.00
37 7 0.02
38 1 0.00
39 5 0.01
40 1 0.00
41 5 0.01
42 5 0.01
43 1 0.00
44 4 0.01
45 1 0.00
46 7 0.02
47 1 0.00
48 373 0.88
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:136135476 original size:35 final size:35
Alignment explanation
Indices: 136135434--136135503 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
136135424 ATGGCTAATG
136135434 TGAAATATGTATGAGATATGTATATGTGGTAAAGC
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGC
136135469 TGAAATATGTATGAGATATGTATATGTGGTAAAGC
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGC
136135504 CGAATGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (35 bp):
TGAAATATGTATGAGATATGTATATGTGGTAAAGC
Found at i:136135489 original size:131 final size:132
Alignment explanation
Indices: 136135194--136135599 Score: 643
Period size: 131 Copynumber: 3.0 Consensus size: 132
136135184 ATGGCTAATG
*
136135194 TGAAATATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
*
136135259 ATGTATATATGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
66 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT--A-
136135324 CCGAATGGCTAA
128 ---AA--GC--A
* *
136135336 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAG
1 --TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
136135401 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
64 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
136135466 AGC-
129 AGCA
136135469 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
* *
136135534 ATGTATATGTGGTAAAGCCGAACGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
66 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
136135599 C
131 C
136135600 CGAATGGCTA
Statistics
Matches: 254, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
131 127 0.50
136 2 0.01
138 2 0.01
142 1 0.00
144 122 0.48
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (132 bp):
TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
CA
Found at i:136135530 original size:83 final size:83
Alignment explanation
Indices: 136135386--136135551 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
136135376 GTGGCTAATG
*
136135386 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
136135451 ATGTATATGTGGTAAAGC
66 ATGTATATGTGGTAAAGC
136135469 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
136135534 ATGTATATGTGGTAAAGC
66 ATGTATATGTGGTAAAGC
136135552 CGAACGGCTA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (83 bp):
TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
ATGTATATGTGGTAAAGC
Found at i:136135820 original size:37 final size:37
Alignment explanation
Indices: 136135770--136135909 Score: 262
Period size: 37 Copynumber: 3.8 Consensus size: 37
136135760 GGAAATGTAT
136135770 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
136135807 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
136135844 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
136135881 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
136135910 GGACTATTCG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:136137647 original size:29 final size:29
Alignment explanation
Indices: 136137614--136137688 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
136137604 AATATGACTG
* * *
136137614 GGCCTAACGGGCTATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAAGGTGATTTA
* *
136137643 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTA
136137672 GGCCTAATGGGCCATAT
1 GGCCTAATGGGCCATAT
136137689 GAATATGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGATTTA
Found at i:136138570 original size:3 final size:3
Alignment explanation
Indices: 136138562--136138598 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
136138552 TTTCATTATG
136138562 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
136138599 CATTGTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:136138757 original size:18 final size:18
Alignment explanation
Indices: 136138727--136138761 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
136138717 ATTGAAAGTA
136138727 GTTTATTTTTTTTAAGAT
1 GTTTATTTTTTTTAAGAT
136138745 GTTT-TTTTATTTTAAGA
1 GTTTATTTT-TTTTAAGA
136138762 AGGGATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (18 bp):
GTTTATTTTTTTTAAGAT
Found at i:136140364 original size:23 final size:24
Alignment explanation
Indices: 136140316--136140372 Score: 98
Period size: 23 Copynumber: 2.4 Consensus size: 24
136140306 CTAGAGGCCT
136140316 AGCCTCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATA
136140341 AGCCCTTTTAATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
136140364 AGCCCTTTT
1 AGCCCTTTT
136140373 GCACTTCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 16 0.50
24 12 0.38
25 4 0.12
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:136140447 original size:20 final size:20
Alignment explanation
Indices: 136140422--136140488 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
136140412 TTATGAATAC
*
136140422 ATCATGTGCCTATCATACAT
1 ATCATGTGCATATCATACAT
136140442 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
136140462 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
136140482 ACCATGT
1 ATCATGT
136140489 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:136145742 original size:48 final size:46
Alignment explanation
Indices: 136145627--136145946 Score: 313
Period size: 48 Copynumber: 6.8 Consensus size: 46
136145617 AAAGGGTAAG
* * *
136145627 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GC-TATAG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCATATAA
* ** * **
136145670 GTGCCGATGCCATGTTACAAACATGGCCTTACACTAGCCCATATGTCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCATA--TAA
* * *
136145718 AGGCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCCAATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-CC-ATATAA
* * *
136145766 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-C-CATATAA
*** * *
136145814 ATGCCGATGCCATGTTTTAAACATGGTCTTACACTGGTTCTCATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CCCATATAA
* **
136145862 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-C-CATATAA
*
136145910 AGGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
136145947 GTTTCATAAC
Statistics
Matches: 231, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
43 30 0.13
44 1 0.00
45 1 0.00
46 3 0.01
48 189 0.82
49 3 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCATATAA
Found at i:136145954 original size:96 final size:95
Alignment explanation
Indices: 136145629--136145954 Score: 381
Period size: 96 Copynumber: 3.4 Consensus size: 95
136145619 AGGGTAAGAT
* ** *
136145629 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG---C-TATAGGTGCCGATGCCATGTTACAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTTCATATAAATGCCGATGCCATGTTCCAA
* * * *
136145690 ACATGGCCTTACACTAGCCCATATGTCGAG
66 ACATGGTCTTACACTAGCTCACATATCGAG
* * * * * * *
136145720 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCCAATATAAATGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTTC-ATATAAATGCCGATGCCATGTTCCA
* * * ** *
136145785 GACATGGTCTTACACTGGCTCTCATATAAAT
65 AACATGGTCTTACACTAGCTCACATATCGAG
***
136145816 GCCGATGCCATGTTTTAAACATGGTCTTACACTGGTTCTCATATAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGTT-TCATATAAATGCCGATGCCATGTTCCA
136145881 AACATGGTCTTACACTAGCTCACATATCGAG
65 AACATGGTCTTACACTAGCTCACATATCGAG
136145912 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGGTTTCATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GGTTTCATA
136145955 ACCCTAATAT
Statistics
Matches: 192, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
91 33 0.17
94 1 0.01
96 153 0.80
97 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTTCATATAAATGCCGATGCCATGTTCCAA
ACATGGTCTTACACTAGCTCACATATCGAG
Found at i:136145954 original size:144 final size:141
Alignment explanation
Indices: 136145629--136145954 Score: 383
Period size: 144 Copynumber: 2.3 Consensus size: 141
136145619 AGGGTAAGAT
**
136145629 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG--C-TATAGGTGCCGATGCCATGTTACAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATAAATGCCGATGCCATGTTACAAA
** * *
136145691 CATGGCCTTACACTAGCCCATATGTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACATTAGC
66 CATGGCCTTACACTAGCCCATA-GTAAAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
*
136145756 TCCAATATAAAT
130 TCCAATATAAAG
* **
136145768 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG-T-TCATATAAATGCCGATGCCATGTTACA
* * * * *
136145833 AACATGGTCTTACACTGGTTCTCATA-TAAATGCCGATGCCATGTTCCAAACATGGTCTTACACT
64 AACATGGCCTTACACTAG--CCCATAGTAAAGGCCGATGCCATGTCCCAAACATGGTCTTACACT
**
136145897 AGCT-CACATATCGAG
127 AGCTCCA-ATATAAAG
*
136145912 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGGTTTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GG-TTCATA
136145955 ACCCTAATAT
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
139 34 0.22
143 3 0.02
144 113 0.72
145 3 0.02
146 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATAAATGCCGATGCCATGTTACAAA
CATGGCCTTACACTAGCCCATAGTAAAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT
CCAATATAAAG
Found at i:136148038 original size:27 final size:28
Alignment explanation
Indices: 136147978--136148047 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
136147968 AAATTTGTAC
136147978 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
136148006 ATCACTAAATGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
136148033 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
136148048 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:136148279 original size:20 final size:20
Alignment explanation
Indices: 136148254--136148291 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
136148244 GTTTATTCGC
*
136148254 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
136148274 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
136148292 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:136149941 original size:28 final size:28
Alignment explanation
Indices: 136149909--136149977 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
136149899 GCGTAGATCA
136149909 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
136149937 CGAAATTACCCCTAAAGAGCAAAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
136149965 CGATA-TACCCCTA
1 CGAAATTACCCCTA
136149978 GGGTTTTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:136151527 original size:46 final size:46
Alignment explanation
Indices: 136151469--136151649 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
136151459 TAGGATGGTT
*
136151469 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
136151515 GAGCGTCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
136151561 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
136151608 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
136151650 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 70 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:136151630 original size:93 final size:93
Alignment explanation
Indices: 136151471--136151641 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
136151461 GGATGGTTGA
* * *
136151471 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
136151536 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
136151564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
136151629 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
136151642 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:136159028 original size:20 final size:20
Alignment explanation
Indices: 136159003--136159040 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
136158993 GTTTATTCGC
*
136159003 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
136159023 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
136159041 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:136161928 original size:46 final size:46
Alignment explanation
Indices: 136161878--136162053 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
136161868 TGGTTGAGCA
136161878 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
136161924 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
136161969 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
136162017 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
136162054 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:136162034 original size:93 final size:93
Alignment explanation
Indices: 136161875--136162046 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
136161865 GGATGGTTGA
* *
136161875 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
136161940 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
136161968 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
136162033 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
136162047 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:136169392 original size:46 final size:46
Alignment explanation
Indices: 136169342--136169517 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
136169332 TGGTTGAGCA
136169342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
136169388 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
136169433 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
136169481 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
136169518 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:136169498 original size:93 final size:93
Alignment explanation
Indices: 136169339--136169510 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
136169329 GGATGGTTGA
* *
136169339 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
136169404 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
136169432 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
136169497 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
136169511 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:136172230 original size:45 final size:41
Alignment explanation
Indices: 136172155--136172277 Score: 113
Period size: 41 Copynumber: 2.9 Consensus size: 41
136172145 ATATGTGTTC
** * **
136172155 TCGTGTAAGACCACATCTGGGACGTTGGCATCTATATATGTGGT
1 TCGTGTAAGACCATGTCTGGGAC-ATGGCATCTATAT-T-TCAT
*
136172199 TACGTGTAAGACCATGTCTGGGACATCGGCAT-TGTATTTCAT
1 T-CGTGTAAGACCATGTCTGGGACAT-GGCATCTATATTTCAT
* *
136172241 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TCGTGTAAGACCATGTCTGGGACA-TGGCATCTATAT
136172278 GAGATAGCAT
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
41 27 0.41
42 7 0.11
43 1 0.02
44 6 0.09
45 25 0.38
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATGGCATCTATATTTCAT
Found at i:136172571 original size:41 final size:43
Alignment explanation
Indices: 136172445--136172577 Score: 121
Period size: 45 Copynumber: 3.0 Consensus size: 43
136172435 AAGATTTCTG
* *
136172445 ATATGTGTTCTCGTGTAAGA-CCTCATCTGGGACATTGGCATCGAT
1 ATATGTGAT-TCGTGTAAGACCCT-GTCTGGGACA-TGGCATCGAT
* * ** *
136172490 ATATGTGGTTATGTGTAAGACTATGTCTGGGGCATCGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCCTGTCTGGGACAT-GGCATCGAT
136172534 AT-T-TGATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATATGTGATTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGAT
136172576 AT
1 AT
136172578 GAGATAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
41 26 0.36
42 8 0.11
43 1 0.01
44 5 0.07
45 31 0.43
46 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
ATATGTGATTCGTGTAAGACCCTGTCTGGGACATGGCATCGAT
Found at i:136172614 original size:300 final size:299
Alignment explanation
Indices: 136172084--136172667 Score: 943
Period size: 300 Copynumber: 1.9 Consensus size: 299
136172074 TACGACATCT
* *
136172084 GAAAGACCCGTACGAACCTTACGAATAGCTAGGATACATATGTCATGACATAGGATTTCTGATAT
1 GAAAGACCCGTACGAACCTTACGAATAGCTAGGATACATAAGTCATGACATAAGATTTCTGATAT
* *
136172149 GTGTTCTCGTGTAAGACCACATCTGGGACGTTGGCATCTATATATGTGGTTACGTGTAAGACCAT
66 GTGTTCTCGTGTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTACGTGTAAGACCAT
*
136172214 GTCTGGGACATCGGCATTGTATTTCATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
131 GTCTGGGACATCGGCATCGTATTTCATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
*
136172279 AGATAGCATGTAAGAACACATCTAGGATATTGGCATTGTACAATATATGTGATTAACCGAGTATC
196 AGATAGCATGTAAGAACACATCTAGGACATTGGCATTGTACAATATATGTGATTAACCGAGTATC
*
136172344 CTATTCAATTCCGAATCGTTTCAACTAAGTTATGACGTCC
261 CTATTCAATTCCGAAT-GGTTCAACTAAGTTATGACGTCC
* * * *
136172384 GAAAGCCCCGTACGAACCTTAGGAATAGCTTGGATACGTAAGTCATGACATAAGATTTCTGATAT
1 GAAAGACCCGTACGAACCTTACGAATAGCTAGGATACATAAGTCATGACATAAGATTTCTGATAT
* * *
136172449 GTGTTCTCGTGTAAGACCTCATCTGGGACATTGGCATCGATATATGTGGTTATGTGTAAGACTAT
66 GTGTTCTCGTGTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTACGTGTAAGACCAT
* *
136172514 GTCTGGGGCATCGGCATCGTATTTGATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
131 GTCTGGGACATCGGCATCGTATTTCATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
* * * * * * *
136172579 AGATAGCATGTAAGACCACGTCTGGGACGTTGGCATTGTACGATATATGTGATTATCCGAGTGTC
196 AGATAGCATGTAAGAACACATCTAGGACATTGGCATTGTACAATATATGTGATTAACCGAGTATC
*
136172644 CTATTCAATTCTGAATGGTTCAAC
261 CTATTCAATTCCGAATGGTTCAAC
136172668 GGGCAATGAT
Statistics
Matches: 260, Mismatches: 24, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
299 7 0.03
300 253 0.97
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (299 bp):
GAAAGACCCGTACGAACCTTACGAATAGCTAGGATACATAAGTCATGACATAAGATTTCTGATAT
GTGTTCTCGTGTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTACGTGTAAGACCAT
GTCTGGGACATCGGCATCGTATTTCATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
AGATAGCATGTAAGAACACATCTAGGACATTGGCATTGTACAATATATGTGATTAACCGAGTATC
CTATTCAATTCCGAATGGTTCAACTAAGTTATGACGTCC
Found at i:136177417 original size:45 final size:44
Alignment explanation
Indices: 136177368--136177500 Score: 116
Period size: 45 Copynumber: 3.0 Consensus size: 44
136177358 AAGATTTCTG
136177368 ATATGTGTTCTCGTGTAAGACCTCATCTGGGACATTGGCATCGAT
1 ATATGTGTT-TCGTGTAAGACCTCATCTGGGACATTGGCATCGAT
* * * *
136177413 ATATGTGGTTACATGTAAGA-CT-ATGTCTAGGACATCGGCATCG-T
1 ATATGT-GTTTCGTGTAAGACCTCA--TCTGGGACATTGGCATCGAT
* * *
136177457 AT-T-TGATTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGAT
1 ATATGTGTTTCGTGTAAGACCTC-ATCTGGGACATTGGCATCGAT
136177499 AT
1 AT
136177501 GAGATAGCAT
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
41 25 0.36
42 5 0.07
43 2 0.03
44 5 0.07
45 30 0.43
46 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
ATATGTGTTTCGTGTAAGACCTCATCTGGGACATTGGCATCGAT
Found at i:136188344 original size:42 final size:42
Alignment explanation
Indices: 136188232--136188345 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
136188222 TACTCCATCA
* **** *
136188232 ATGCCATATCCCATATATGGTCTTACATGGTATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * * *
136188274 ATGCCAATAGCCTAGCTATGGTCTTACACAAAATTTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATCG
136188317 ATGCCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
136188346 TAGCGTCGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:136194970 original size:47 final size:49
Alignment explanation
Indices: 136194916--136195071 Score: 131
Period size: 49 Copynumber: 3.2 Consensus size: 49
136194906 TCTCAAACAT
* *
136194916 GGTCTTACACTGGCTAGGATAT-T-AAAG-TCGATGCCCTGTCCCAAATA
1 GGTCTTACACTGGCTAGCATATATCAAAGCT-GATGCCATGTCCCAAATA
* ** * *
136194963 GGTCTTACACTGACTTTCATATATCGAAGCTGATGCTATGTCCCAAATA
1 GGTCTTACACTGGCTAGCATATATCAAAGCTGATGCCATGTCCCAAATA
** * * * * *
136195012 GGTCTTACACTGGCTCTCATCTATCAATG-TCGATACCATATCCCAGATA
1 GGTCTTACACTGGCTAGCATATATCAAAGCT-GATGCCATGTCCCAAATA
*
136195061 GGTTTTACACT
1 GGTCTTACACT
136195072 AGCTTGTATA
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
47 18 0.20
48 2 0.02
49 67 0.76
50 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (49 bp):
GGTCTTACACTGGCTAGCATATATCAAAGCTGATGCCATGTCCCAAATA
Found at i:136195056 original size:49 final size:49
Alignment explanation
Indices: 136194954--136195071 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
136194944 CGATGCCCTG
* * * *
136194954 TCCCAAATAGGTCTTACACTGACTTTCATATATCGAAGCTGATGCTATG
1 TCCCAAATAGGTCTTACACTGACTCTCATATATCGAAGCTGATACCATA
* *
136195003 TCCCAAATAGGTCTTACACTGGCTCTCATCTATC-AATG-TCGATACCATA
1 TCCCAAATAGGTCTTACACTGACTCTCATATATCGAA-GCT-GATACCATA
* *
136195052 TCCCAGATAGGTTTTACACT
1 TCCCAAATAGGTCTTACACT
136195072 AGCTTGTATA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 3 0.05
49 56 0.95
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (49 bp):
TCCCAAATAGGTCTTACACTGACTCTCATATATCGAAGCTGATACCATA
Found at i:136201284 original size:25 final size:25
Alignment explanation
Indices: 136201250--136201310 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
136201240 AATCAAAATG
* * *
136201250 AGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
136201275 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
136201300 AGAATCAGAAT
1 AGAATCAGAAT
136201311 GTGAATGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:136201470 original size:27 final size:26
Alignment explanation
Indices: 136201433--136201502 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 26
136201423 AGCATGGCTG
*
136201433 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
136201459 CCAGATACAGATATTATGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
136201486 CCATAACAGATAATGTG
1 CCAGAACAGATATTGTG
136201503 GTAAAGCCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:136201699 original size:22 final size:23
Alignment explanation
Indices: 136201671--136201732 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
136201661 GCAAATACGT
*
136201671 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAGCCATAATATAGG
*
136201693 TTGGCACAGAGCCAT-ATATAGG
1 TTGGCACAAAGCCATAATATAGG
*
136201715 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
136201733 CAGAAGGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATATAGG
Found at i:136203660 original size:28 final size:28
Alignment explanation
Indices: 136203628--136203726 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
136203618 GCAATAAGCC
*
136203628 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
136203656 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
136203684 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
136203713 CGCACACTTAGTGC
1 CGCACACTTAGTGC
136203727 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:136210897 original size:32 final size:34
Alignment explanation
Indices: 136210853--136210916 Score: 114
Period size: 32 Copynumber: 1.9 Consensus size: 34
136210843 AAAAAGGACG
136210853 AGTCCGAGAAACCTAAAATGGC-GACAAGCAAAC
1 AGTCCGAGAAACCTAAAATGGCAGACAAGCAAAC
136210886 AGTCCG-GAAACCTAAAATGGCAGACAAGCAA
1 AGTCCGAGAAACCTAAAATGGCAGACAAGCAA
136210917 TACCGTTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.09
Consensus pattern (34 bp):
AGTCCGAGAAACCTAAAATGGCAGACAAGCAAAC
Found at i:136211284 original size:28 final size:28
Alignment explanation
Indices: 136211252--136211350 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
136211242 GCAATAAGCC
*
136211252 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
136211280 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
136211308 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
136211337 CGCACACTTAGTGC
1 CGCACACTTAGTGC
136211351 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:136213401 original size:27 final size:27
Alignment explanation
Indices: 136212667--136213393 Score: 950
Period size: 27 Copynumber: 26.9 Consensus size: 27
136212657 GGCTGTCACA
* * * *
136212667 GTAATTTTACCCCATAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* ** * *
136212694 GTAATTCTATCCTGTAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136212721 ATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * **
136212748 GTAATTCTATCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136212775 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136212802 ATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* **
136212829 GTAATTCTACCCTACAGGGGTATTTAA
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136212856 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136212883 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136212910 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136212937 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136212964 ATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* **
136212991 GTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213018 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213045 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213072 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
136213099 GTAATTCTACCCTATAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213126 GTATTTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136213153 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136213180 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136213207 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136213234 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213261 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
*
136213288 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213315 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
136213342 GTATTTCTATCCTACAAGGGTGTTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
136213369 GTAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
136213394 TAATAATTTT
Statistics
Matches: 620, Mismatches: 80, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 620 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:136213416 original size:27 final size:27
Alignment explanation
Indices: 136213386--136213555 Score: 108
Period size: 27 Copynumber: 6.3 Consensus size: 27
136213376 TACCCTATAG
* *
136213386 GGGTATTTTAATAATTTTGTAAATCAA
1 GGGTATTTTAATAATTTTGCAAATCGA
***** * * *
136213413 GGGTAAAACGATAATTCTGTAAATCGG
1 GGGTATTTTAATAATTTTGCAAATCGA
* * * *
136213440 GGGTACTTTGATAATTTTACAAGTCGA
1 GGGTATTTTAATAATTTTGCAAATCGA
* * * *
136213467 GAGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTAATAATTTTGCAAATCGA
*
136213494 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTTAATAATTTTGCAAATC-GA
*** *
136213521 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTAATAATTTTGCAAATCGA
*
136213548 GGATATTT
1 GGGTATTT
136213556 GGGTAATTTT
Statistics
Matches: 111, Mismatches: 30, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
26 1 0.01
27 109 0.98
28 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTAATAATTTTGCAAATCGA
Found at i:136213491 original size:54 final size:54
Alignment explanation
Indices: 136213433--136213571 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
136213423 ATAATTCTGT
* *
136213433 AAATCGGGGGTACTTTGA-TAATTTTAC-AAGTCGAGAGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTGAGTAATTTTACAAACT-GAGAGTATTTCAGTAATTTTAC
* * * *
136213487 AAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTTAC
1 AAATCGAGGGTATTTGAGTAATTTTACAAACTGAGAGTATTTCAGTAATTTTAC
* * *
136213541 AAATCGAGGATATTTGGGTAATTTTATAAAC
1 AAATCGAGGGTATTTGAGTAATTTTACAAAC
136213572 CGGGGGAACT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
53 4 0.06
54 65 0.90
55 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTGAGTAATTTTACAAACTGAGAGTATTTCAGTAATTTTAC
Found at i:136213560 original size:27 final size:27
Alignment explanation
Indices: 136213451--136213596 Score: 129
Period size: 27 Copynumber: 5.4 Consensus size: 27
136213441 GGTACTTTGA
* *
136213451 TAATTTTACAAGTCGA-GAGTATTTCAG
1 TAATTTTACAAATCGAGGA-TATTTCGG
* **
136213478 TAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGATATTTCGG
* *
136213505 TAATTTTGCAAA-CTGAGGGTATTTCGG
1 TAATTTTACAAATC-GAGGATATTTCGG
*
136213532 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGATATTTCGG
* * *
136213559 TAATTTTATAAACCGGGGGA-ACTTT-GG
1 TAATTTTACAAATC-GAGGATA-TTTCGG
136213586 TAATTTTACAA
1 TAATTTTACAA
136213597 CTGGGGGTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 91 0.90
28 9 0.09
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGATATTTCGG
Found at i:136213588 original size:54 final size:54
Alignment explanation
Indices: 136213446--136213596 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
136213436 TCGGGGGTAC
** * * * *
136213446 TTTGA-TAATTTTACAAGTCGAGAGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TTTGAGTAATTTTACAAACCGAGGGAATTTCGGTAATTTTACAAATCGAGGATA
* * * *
136213499 TTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGATA
1 TTTGAGTAATTTTACAAACCGAGGGAATTTCGGTAATTTTACAAATCGAGGATA
* * *
136213553 TTTGGGTAATTTTATAAACCGGGGGAACTTT-GGTAATTTTACAA
1 TTTGAGTAATTTTACAAACCGAGGGAA-TTTCGGTAATTTTACAA
136213597 CTGGGGGTAT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.05
54 74 0.91
55 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
TTTGAGTAATTTTACAAACCGAGGGAATTTCGGTAATTTTACAAATCGAGGATA
Found at i:136213589 original size:81 final size:80
Alignment explanation
Indices: 136213451--136213614 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 80
136213441 GGTACTTTGA
* * * * *
136213451 TAATTTTACAAGTCGAGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAA
1 TAATTTTACAAATCGAGAGTATTTCAGTAATTTTACAAACCGAGGGAACTTTAGTAATTTTAC-A
*
136213516 ACTGAGGGTATTTCGG
65 ACTGAGGGTATTTCAG
** * * *
136213532 TAATTTTACAAATCGAG-GATATTTGGGTAATTTTATAAACCGGGGGAACTTTGGTAATTTTACA
1 TAATTTTACAAATCGAGAG-TATTTCAGTAATTTTACAAACCGAGGGAACTTTAGTAATTTTACA
*
136213596 ACTGGGGGTATTTCAG
65 ACTGAGGGTATTTCAG
136213612 TAA
1 TAA
136213615 ATTGGTAAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 19 0.27
81 51 0.73
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (80 bp):
TAATTTTACAAATCGAGAGTATTTCAGTAATTTTACAAACCGAGGGAACTTTAGTAATTTTACAA
CTGAGGGTATTTCAG
Found at i:136213617 original size:27 final size:26
Alignment explanation
Indices: 136213451--136213614 Score: 123
Period size: 27 Copynumber: 6.1 Consensus size: 26
136213441 GGTACTTTGA
* *
136213451 TAATTTTACAAGTCGAGAGTATTTCAG
1 TAATTTTACAACT-GAGGGTATTTCAG
* *
136213478 TAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTTACAACT-GAGGGTATTTCAG
* *
136213505 TAATTTTGCAAACTGAGGGTATTTCGG
1 TAATTTTAC-AACTGAGGGTATTTCAG
* * **
136213532 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAACT-GAGGGTATTTCAG
* * * * *
136213559 TAATTTTATAAACCGGGGGAACTTT-GG
1 TAATTTTA-CAACTGAGGGTA-TTTCAG
*
136213586 TAATTTTACAACTGGGGGTATTTCAG
1 TAATTTTACAACTGAGGGTATTTCAG
136213612 TAA
1 TAA
136213615 ATTGGTAAAC
Statistics
Matches: 111, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
25 3 0.03
26 16 0.14
27 84 0.76
28 8 0.07
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (26 bp):
TAATTTTACAACTGAGGGTATTTCAG
Found at i:136215781 original size:27 final size:27
Alignment explanation
Indices: 136215762--136215925 Score: 233
Period size: 27 Copynumber: 6.1 Consensus size: 27
136215752 AAATGATTCT
136215762 TTTTGCCC-TATGTGGTAAAATGACTG
1 TTTTGCCCTTATGTGGTAAAATGACTG
* *
136215788 GTTTGCCCTTACGTGGTAAAATGACTG
1 TTTTGCCCTTATGTGGTAAAATGACTG
*
136215815 TTTTGCCCTTATATGGTAAAATGACTG
1 TTTTGCCCTTATGTGGTAAAATGACTG
* *
136215842 ATTTACCCTTATGTGGTAAAATGACTG
1 TTTTGCCCTTATGTGGTAAAATGACTG
* * *
136215869 TTTTTCCCTTGTGTGGTAAAATGACTA
1 TTTTGCCCTTATGTGGTAAAATGACTG
*
136215896 TTTTG-CCTTATGTGGTAAGATGACTG
1 TTTTGCCCTTATGTGGTAAAATGACTG
136215922 TTTT
1 TTTT
136215926 TCCCAATGTG
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 29 0.24
27 92 0.76
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTGCCCTTATGTGGTAAAATGACTG
Found at i:136216267 original size:18 final size:18
Alignment explanation
Indices: 136216241--136216324 Score: 109
Period size: 18 Copynumber: 4.7 Consensus size: 18
136216231 AGGACTTGTA
*
136216241 TACTATTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
136216259 TACTGTTACTACACTGA-
1 TACTGTTACTGCACTGAT
136216276 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
136216294 TACTATTACTGCACTG-T
1 TACTGTTACTGCACTGAT
*
136216311 CTATTGTTACTGCA
1 -TACTGTTACTGCA
136216325 ATGGACCAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
17 17 0.29
18 41 0.71
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:136216286 original size:35 final size:36
Alignment explanation
Indices: 136216237--136216324 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 36
136216227 GGGTAGGACT
* *
136216237 TGTATACTATTACTGCACTGATTACTGTTACTACAC
1 TGTATACTGTTACTGCACTGATTACTATTACTACAC
*
136216273 TG-ATACTGTTACTGCACTGATTACTATTACTGCAC
1 TGTATACTGTTACTGCACTGATTACTATTACTACAC
* *
136216308 TGTCTATTGTTACTGCA
1 TGTATACTGTTACTGCA
136216325 ATGGACCAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 32 0.70
36 14 0.30
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (36 bp):
TGTATACTGTTACTGCACTGATTACTATTACTACAC
Found at i:136224581 original size:40 final size:40
Alignment explanation
Indices: 136224485--136224703 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 40
136224475 CGAATGATGT
* * * *
136224485 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
136224526 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
136224566 CCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
136224606 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
136224646 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
136224686 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
136224704 ACAATCGAGC
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 132 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:136224699 original size:120 final size:121
Alignment explanation
Indices: 136224485--136224703 Score: 325
Period size: 120 Copynumber: 1.8 Consensus size: 121
136224475 CGAATGATGT
* *
136224485 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
136224550 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
66 GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
* * *
136224606 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
136224669 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
136224704 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 1 0.01
120 60 0.69
121 26 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
Found at i:136224728 original size:80 final size:80
Alignment explanation
Indices: 136224484--136224729 Score: 179
Period size: 80 Copynumber: 3.1 Consensus size: 80
136224474 TCGAATGATG
** * * * * * * * *
136224484 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGG-TCAATTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTACGAA-TTACCAAAACCGGGCT-AAGTCCCGAAGACAA
* * * *
136224548 TTGTGCGAGTTACCAAA
64 TCGAGCGAGTCACTAAA
* * * * * * * *
136224565 ACCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTACGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATC
* *
136224630 GTGCGAGTTACTAAA
66 GAGCGAGTCACTAAA
* * * * *
136224645 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATC
1 TCCGGGCTAAGTCCCGAAGGCAATTGTACGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATC
* * *
136224710 GAGCTAGTCGCTACA
66 GAGCGAGTCACTAAA
136224725 TCCGG
1 TCCGG
136224730 TTAAATTTCG
Statistics
Matches: 135, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 108 0.80
81 27 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTACGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATC
GAGCGAGTCACTAAA
Found at i:136233790 original size:43 final size:44
Alignment explanation
Indices: 136233662--136233791 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 44
136233652 AGGATTTTCG
*
136233662 ATATGTG-TTCTCATGTAAGACCATGTCTGGGAC-GTTGGCATC-A
1 ATATGTGATT-TCGTGTAAGACCATGTCTGGGACAG-TGGCATCGA
*
136233705 ATATGTGATTTCGAGTAAGACCATGTCTGGGACA-TCGGCATCGTA
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACAGT-GGCATCG-A
*
136233750 AT-TGTGATTT-GTGTAAGATCC-TGTCTAGGACAGTGGCATCGA
1 ATATGTGATTTCGTGTAAGA-CCATGTCTGGGACAGTGGCATCGA
136233792 CATGTGGTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
42 2 0.03
43 58 0.76
44 13 0.17
45 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
ATATGTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGA
Found at i:136237665 original size:42 final size:41
Alignment explanation
Indices: 136237568--136237808 Score: 166
Period size: 43 Copynumber: 5.7 Consensus size: 41
136237558 AAGTACAATA
* * * * * *
136237568 CCGACGTCCCAGACGTGGTCTTGCATGTAATTCAATATCGATG
1 CCGATGTCCCAGACATGGTCTTACACGAAACTC-A-ATCGATG
** *
136237611 CCTCTGTCCCAGACAGGGTCTTACACGAAA-TCAGATACGATG
1 CCGATGTCCCAGACATGGTCTTACACGAAACTCA-AT-CGATG
* * *
136237653 TCGATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGACG
1 CCGATGTCCCAGACATGGTCTTACACG-AAA-CTCAATCGATG
* *
136237696 CCTG-TGTCCTAGAC-TCGGTCTTACACGAAA-TCAGATACGATT
1 CC-GATGTCCCAGACAT-GGTCTTACACGAAACTCA-AT-CGATG
** * * *
136237738 TTGATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGG
1 CCGATGTCCCAGACATGGTCTTACACG-AAA-CTCAATCGATG
*
136237781 CCTATGTCCCAGACATGGTCTTACACGA
1 CCGATGTCCCAGACATGGTCTTACACGA
136237809 TGACTCAGAC
Statistics
Matches: 153, Mismatches: 32, Indels: 27
0.72 0.15 0.13
Matches are distributed among these distances:
40 3 0.02
41 6 0.04
42 55 0.36
43 78 0.51
44 5 0.03
45 6 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
CCGATGTCCCAGACATGGTCTTACACGAAACTCAATCGATG
Found at i:136237716 original size:85 final size:84
Alignment explanation
Indices: 136237604--136237808 Score: 302
Period size: 85 Copynumber: 2.4 Consensus size: 84
136237594 GTAATTCAAT
* * *
136237604 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
1 ATCGACGCCTATGTCCCAGAC-TGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
136237669 GGTCTTATACGTAAATCTCA
65 GGTCTTATACGTAAATCTCA
* * * *
136237689 ATCGACGCCTGTGTCCTAGACTCGGTCTTACACGAAATCAGATACGATTTTGATGTCCCAGACAT
1 ATCGACGCCTATGTCCCAGACT-GGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
*
136237754 GGTCTTATATGTAAATCTCA
65 GGTCTTATACGTAAATCTCA
*
136237774 ATCGAGGCCTATGTCCCAGACATGGTCTTACACGA
1 ATCGACGCCTATGTCCCAGAC-TGGTCTTACACGA
136237809 TGACTCAGAC
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
85 107 0.99
86 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (84 bp):
ATCGACGCCTATGTCCCAGACTGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACATG
GTCTTATACGTAAATCTCA
Found at i:136240591 original size:43 final size:43
Alignment explanation
Indices: 136240466--136240628 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
136240456 TAGAAATCTC
* * *
136240466 ATACAATGCCAACATCCCAGACTTGGTCTTAC-C-TGTAATCAA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACACAT-AAATCAA
* * *
136240508 ATATCGATGCC-ACTGTCCCA-AAGAAGGTCTTACACA-AAATCAA
1 ATA-CGATGCCAAC-ATCCCAGACG-TGGTCTTACACATAAATCAA
*
136240551 ATACGATGCCAACATCCCAGACGTGATCTTACACATAAATCATA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACACATAAATCA-A
** *
136240595 AGT-CGATGCCAATGTCCCAAACGTGGTCTTACAC
1 A-TACGATGCCAACATCCCAGACGTGGTCTTACAC
136240629 GAAAACACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 28 0.29
43 38 0.39
44 30 0.31
45 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (43 bp):
ATACGATGCCAACATCCCAGACGTGGTCTTACACATAAATCAA
Found at i:136240623 original size:86 final size:86
Alignment explanation
Indices: 136240466--136240633 Score: 209
Period size: 86 Copynumber: 2.0 Consensus size: 86
136240456 TAGAAATCTC
* * * *
136240466 ATACAATGCCAACATCCCAGACTTGGTCTTACCTGTAATCAAATATCGATGCCACTGTCCCAAAG
1 ATACAATGCCAACATCCCAGACGTGATCTTACCTGAAATCAAATATCGATGCCAATGTCCCAAAG
136240531 AAGGTCTTACAC-AAAATCAA
66 AAGGTCTTACACGAAAATCAA
* *
136240551 ATACGATGCCAACATCCCAGACGTGATCTTACACAT-AAATCATAA-GTCGATGCCAATGTCCCA
1 ATACAATGCCAACATCCCAGACGTGATCTTAC-C-TGAAATCA-AATATCGATGCCAATGTCCCA
*
136240614 AACG-TGGTCTTACACGAAAA
63 AA-GAAGGTCTTACACGAAAA
136240634 CACATATCGG
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
85 29 0.41
86 34 0.48
87 8 0.11
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (86 bp):
ATACAATGCCAACATCCCAGACGTGATCTTACCTGAAATCAAATATCGATGCCAATGTCCCAAAG
AAGGTCTTACACGAAAATCAA
Found at i:136243750 original size:40 final size:40
Alignment explanation
Indices: 136243706--136243793 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
136243696 TCGCTCGAAA
* * *
136243706 GCCTTCGGGACATAGCCC-GATTATAATAGCTCGCACAAAT
1 GCCTTCGGGACATAACCCGGATT-TAAGAACTCGCACAAAT
* *
136243746 GCCTTCGGGACTTAACCCGGATTTAGGAACTCGCACAAAT
1 GCCTTCGGGACATAACCCGGATTTAAGAACTCGCACAAAT
136243786 GCCTTCGG
1 GCCTTCGG
136243794 ATCTTAGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACATAACCCGGATTTAAGAACTCGCACAAAT
Found at i:136248853 original size:34 final size:34
Alignment explanation
Indices: 136248815--136248909 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
136248805 TCTAATACTA
*
136248815 TACTGAAATGGGCTAAGGCCCACATTGATACTGT
1 TACTGAAATGGGCTAAGGCCCACACTGATACTGT
* * * *
136248849 TACTGTATTGGGCTAAGGCCCGCACTGATATTGT
1 TACTGAAATGGGCTAAGGCCCACACTGATACTGT
* * * *
136248883 GACTGATATGGGCTTAGGCCCAGACTG
1 TACTGAAATGGGCTAAGGCCCACACTG
136248910 TTCAACACTG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCACACTGATACTGT
Found at i:136253838 original size:48 final size:48
Alignment explanation
Indices: 136253767--136254071 Score: 520
Period size: 48 Copynumber: 6.4 Consensus size: 48
136253757 TATATAAGAG
136253767 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
136253815 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
136253863 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
136253911 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
136253959 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* ** *
136254007 ATATGAATGAGATATGTATATGTGGTAAAGTAGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
136254055 ATATGAATGAGATATGT
1 ATATGTATGAGATATGT
136254072 CGAATGGCTA
Statistics
Matches: 248, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 248 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:136253931 original size:96 final size:96
Alignment explanation
Indices: 136253767--136254149 Score: 569
Period size: 96 Copynumber: 4.1 Consensus size: 96
136253757 TATATAAGAG
136253767 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
*
136253832 ATATGTGGTAAAGCCGAATGGCTAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
136253863 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
*
136253928 ATATGTGGTAAAGTCGAATGGCTAGTGTGAA
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
* * * *
136253959 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGAATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
**
136254024 ATATGTGGTAAAGTAGAATGGCTAGTGTGAA
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
* *
136254055 ATATGAAT--G--A-G-ATA--T-GT-----CGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
136254106 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
*
136254137 ATATGTAGGAGAT
1 ATATGTATGAGAT
136254150 GTGTGTATAT
Statistics
Matches: 268, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
82 67 0.25
84 1 0.00
87 2 0.01
88 1 0.00
90 3 0.01
91 1 0.00
92 1 0.00
94 1 0.00
96 191 0.71
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (96 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
Found at i:136254027 original size:144 final size:144
Alignment explanation
Indices: 136253767--136254141 Score: 562
Period size: 144 Copynumber: 2.7 Consensus size: 144
136253757 TATATAAGAG
* *
136253767 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
* * *
136253832 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCAGA
136253897 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
*
136253911 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATATATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
* *
136253976 ATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGTAGA
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCAGA
*
136254041 ATGGCTAGTGTGAA
131 ATGGCTAATGTGAA
*
136254055 ATATGAAT--G--A-G-ATA-----T---GTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
136254106 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
66 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
136254142 TAGGAGATGT
Statistics
Matches: 219, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
130 70 0.32
133 1 0.00
138 3 0.01
139 1 0.00
140 1 0.00
142 1 0.00
144 142 0.65
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (144 bp):
ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCAGA
ATGGCTAATGTGAA
Found at i:136254077 original size:34 final size:34
Alignment explanation
Indices: 136254039--136254105 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
136254029 TGGTAAAGTA
136254039 GAATGGCTAGTGTGAAATATGAATGAGATATGTC
1 GAATGGCTAGTGTGAAATATGAATGAGATATGTC
*
136254073 GAATGGCTAGTGTGAAATATGTATGAGATATGT
1 GAATGGCTAGTGTGAAATATGAATGAGATATGT
136254106 ATATGTGGTA
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:0.34, C:0.04, G:0.30, T:0.31
Consensus pattern (34 bp):
GAATGGCTAGTGTGAAATATGAATGAGATATGTC
Found at i:136254082 original size:82 final size:82
Alignment explanation
Indices: 136253991--136254141 Score: 275
Period size: 82 Copynumber: 1.8 Consensus size: 82
136253981 TGGTAAAGCT
*
136253991 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGTAGAATGGCTAGTGTGAAA
1 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCAGAATGGCTAGTGTGAAA
136254056 TATGAATGAGATATGTC
66 TATGAATGAGATATGTC
* *
136254073 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA
1 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCAGAATGGCTAGTGTGAAA
136254138 TATG
66 TATG
136254142 TAGGAGATGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (82 bp):
GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCAGAATGGCTAGTGTGAAA
TATGAATGAGATATGTC
Found at i:136254345 original size:37 final size:37
Alignment explanation
Indices: 136254293--136254429 Score: 188
Period size: 37 Copynumber: 3.7 Consensus size: 37
136254283 AATATATTCC
* *
136254293 GGGTAAGACCTGATGACTATGTGTGGAGTTTATGT-T
1 GGGTAAGACCCGATGACTACGTGTGGAGTTTATGTCT
* * *
136254329 CAGGTAAGACTCGATGACTACGTGTGGAGATTATGTCT
1 -GGGTAAGACCCGATGACTACGTGTGGAGTTTATGTCT
136254367 GGGTAAGACCCGATGACTACGTGTGGAGATTT-TGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAG-TTTATGTCT
*
136254404 GGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
136254430 GGACTATTCG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 86 0.97
38 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGTTTATGTCT
Found at i:136257434 original size:43 final size:43
Alignment explanation
Indices: 136257368--136257524 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
136257358 ATCTCGTACA
* *
136257368 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* ***
136257411 ATGCCATTGTCCCAGACAG-GGTCTTACAAAAAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* *
136257453 ATGTCAATGTCCCAGACGTGGTCTTAC-TCGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACAT-GT-AATCA-AATATCG
*
136257497 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
136257525 CAAAAAAATA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 37 0.40
44 30 0.32
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:136266910 original size:40 final size:40
Alignment explanation
Indices: 136266837--136267013 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
136266827 CGATCACGTA
* ** *
136266837 CCTTCGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* * *
136266875 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
136266915 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
136266955 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
136266995 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
136267014 TATCATTCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
38 8 0.07
39 6 0.05
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:136274864 original size:39 final size:39
Alignment explanation
Indices: 136274798--136274960 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 39
136274788 TCGGATTTAA
* ** *
136274798 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGC
* *** *
136274838 CCGGATTTGGTAACTTGCACAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
136274877 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
* * *
136274917 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
136274957 CCGG
1 CCGG
136274961 TATCATTCAA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 31 0.30
40 72 0.69
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
Found at i:136274886 original size:79 final size:80
Alignment explanation
Indices: 136274798--136274960 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 80
136274788 TCGGATTTAA
* * ** * *
136274798 CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCA-CAAT
1 CCGGATATAACAACAAGCACGAA-TGCCTTCGGGTCTTAACCCGGATATAATAACTAGCATAAAT
*
136274861 GCCTTCGGGTCTTAGC
65 GCCTTCGGGACTTAGC
** * *
136274877 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCGGATATAACAACAAGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCATAAATG
136274942 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
136274957 CCGG
1 CCGG
136274961 TATCATTCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
79 47 0.66
80 24 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCATAAATG
CCTTCGGGACTTAGC
Found at i:136278456 original size:30 final size:30
Alignment explanation
Indices: 136278422--136278517 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
136278412 TAAACTAAAA
136278422 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
136278452 TGAGCTAAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCTAA-GCTTTAGCTCGTGAGCTAAAGT
* *
136278482 TGAGCTAAGGTTTAGC-CGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
136278511 TGAGCTA
1 TGAGCTA
136278518 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
29 13 0.25
30 36 0.71
31 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:136278858 original size:14 final size:14
Alignment explanation
Indices: 136278811--136278858 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
136278801 GTACGAATGG
*
136278811 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
136278825 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
136278839 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
136278853 ATTGGT
1 AATGGT
136278859 CAGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:136281350 original size:10 final size:10
Alignment explanation
Indices: 136281335--136281361 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
136281325 TACTCCTTCA
136281335 AGCTCAAATC
1 AGCTCAAATC
136281345 AGCTCAAATC
1 AGCTCAAATC
136281355 AGCTCAA
1 AGCTCAA
136281362 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:136288144 original size:10 final size:10
Alignment explanation
Indices: 136288129--136288155 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
136288119 TACTCCTTCA
136288129 AGCTCAAATC
1 AGCTCAAATC
136288139 AGCTCAAATC
1 AGCTCAAATC
136288149 AGCTCAA
1 AGCTCAA
136288156 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:136290907 original size:29 final size:30
Alignment explanation
Indices: 136290827--136290907 Score: 105
Period size: 29 Copynumber: 2.7 Consensus size: 30
136290817 CTTTTGTTTC
*
136290827 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCAT-TTCTTTTTCAATCTCA
136290858 AATTTC-TTTTCA-TTCTCTTTTCAATCTC-
1 AATTTCTTTTTCATTTCT-TTTTCAATCTCA
*
136290886 ATTTTCTTTTTCATTTCTTTTT
1 AATTTCTTTTTCATTTCTTTTT
136290908 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 9 0.20
29 20 0.44
30 10 0.22
31 6 0.13
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (30 bp):
AATTTCTTTTTCATTTCTTTTTCAATCTCA
Found at i:136290936 original size:11 final size:12
Alignment explanation
Indices: 136290910--136290939 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
136290900 TTCTTTTTGC
136290910 TTTTCAAAGGCT
1 TTTTCAAAGGCT
136290922 TTTTCAAA-GCT
1 TTTTCAAAGGCT
136290933 TTTTCAA
1 TTTTCAA
136290940 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:136290997 original size:5 final size:5
Alignment explanation
Indices: 136290987--136291043 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
136290977 CTCTTGCCTC
*
136290987 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
136291034 TCTTT TCTTT
1 TCTTT TCTTT
136291044 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:136291007 original size:15 final size:14
Alignment explanation
Indices: 136290987--136291050 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
136290977 CTCTTGCCTC
136290987 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
136291002 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
136291017 TCTTTTGCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
*
136291034 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
136291048 TCT
1 TCT
136291051 CTTTACAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.24
15 9 0.21
16 15 0.36
17 8 0.19
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:136291019 original size:25 final size:25
Alignment explanation
Indices: 136290991--136291039 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
136290981 TGCCTCTCTT
136290991 TTCTTTT-TATTTCTTTTTCTTTTTC
1 TTCTTTTCTATTTC-TTTTCTTTTTC
*
136291016 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTATTTCTTTTCTTTT
136291040 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTATTTCTTTTCTTTTTC
Found at i:136291044 original size:21 final size:21
Alignment explanation
Indices: 136290987--136291054 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
136290977 CTCTTGCCTC
*
136290987 TCTTTTCTTTT-TATTTCTTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
136291008 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
136291029 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
136291049 CTCTTT
1 -TCTTT
136291055 ACAAGAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.17
21 28 0.70
22 5 0.12
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:136291956 original size:13 final size:12
Alignment explanation
Indices: 136291938--136291981 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
136291928 ATAAAACACC
136291938 TTTTTTTCAGATT
1 TTTTTTTC-GATT
*
136291951 TTTTTTTCGA-A
1 TTTTTTTCGATT
136291962 TTTTTTTCGAATT
1 TTTTTTTCG-ATT
136291975 TTTTTTT
1 TTTTTTT
136291982 AACTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.33
12 3 0.11
13 15 0.56
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTTCGATT
Found at i:136291965 original size:11 final size:11
Alignment explanation
Indices: 136291951--136291979 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
136291941 TTTTCAGATT
136291951 TTTTTTTCGAA
1 TTTTTTTCGAA
136291962 TTTTTTTCGAA
1 TTTTTTTCGAA
136291973 TTTTTTT
1 TTTTTTT
136291980 TTAACTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:136293673 original size:30 final size:30
Alignment explanation
Indices: 136293639--136293734 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
136293629 TAAACTAAAA
136293639 TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
* * * * * * * *
136293669 TGAGCTGAGGC-TAAACTCCTAAGCTGAATT
1 TGAGCT-AAGCTTTAGCTCGTGAGTTAAAGT
*
136293699 TGAGCTAAGGTTTAGC-CGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGTT-AAAGT
136293728 TGAGCTA
1 TGAGCTA
136293735 GGAGTGAGCT
Statistics
Matches: 46, Mismatches: 17, Indels: 7
0.66 0.24 0.10
Matches are distributed among these distances:
29 14 0.30
30 29 0.63
31 3 0.07
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
Found at i:136301228 original size:9 final size:9
Alignment explanation
Indices: 136301214--136301267 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
136301204 AATCACTTCT
136301214 TTTTTTTTA
1 TTTTTTTTA
136301223 TTTTTTTTA
1 TTTTTTTTA
*
136301232 TTTTTTTGAA
1 TTTTTTT-TA
136301242 TTTTTTTTGA
1 TTTTTTTT-A
*
136301252 TTTTTTTAA
1 TTTTTTTTA
136301261 TTTTTTT
1 TTTTTTT
136301268 AACTTGTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
9 24 0.60
10 16 0.40
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:136301228 original size:10 final size:10
Alignment explanation
Indices: 136301213--136301267 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
136301203 AAATCACTTC
*
136301213 TTTTTTTTTA
1 TTTTTTTTAA
136301223 TTTTTTTT-A
1 TTTTTTTTAA
*
136301232 TTTTTTTGAA
1 TTTTTTTTAA
*
136301242 TTTTTTTTGA
1 TTTTTTTTAA
136301252 -TTTTTTTAA
1 TTTTTTTTAA
136301261 TTTTTTT
1 TTTTTTT
136301268 AACTTGTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.41
10 23 0.59
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.84
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:136301237 original size:19 final size:20
Alignment explanation
Indices: 136301213--136301267 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
136301203 AAATCACTTC
*
136301213 TTTTTTTTTATTTTTTTT-A
1 TTTTTTTTAATTTTTTTTGA
*
136301232 TTTTTTTGAATTTTTTTTGA
1 TTTTTTTTAATTTTTTTTGA
136301252 -TTTTTTTAATTTTTTT
1 TTTTTTTTAATTTTTTT
136301268 AACTTGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTTTTTAATTTTTTTTGA
Found at i:136307954 original size:9 final size:9
Alignment explanation
Indices: 136307932--136307985 Score: 67
Period size: 9 Copynumber: 6.0 Consensus size: 9
136307922 AAATCACTTC
136307932 TTTTTTTTCGA
1 TTTTTTTT--A
136307943 TTTTTTTTA
1 TTTTTTTTA
136307952 -TTTTTTTA
1 TTTTTTTTA
136307960 TTTTTTTTA
1 TTTTTTTTA
*
136307969 -TTTTTTAA
1 TTTTTTTTA
136307977 TTTTTTTTA
1 TTTTTTTTA
136307986 ACTTGTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 15 0.38
9 16 0.41
11 8 0.21
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:136307955 original size:8 final size:8
Alignment explanation
Indices: 136307944--136307983 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
136307934 TTTTTTCGAT
136307944 TTTTTTTA
1 TTTTTTTA
136307952 TTTTTTTA
1 TTTTTTTA
136307960 TTTTTTTTA
1 -TTTTTTTA
*
136307969 TTTTTTAA
1 TTTTTTTA
136307977 TTTTTTT
1 TTTTTTT
136307984 TAACTTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:136307962 original size:17 final size:17
Alignment explanation
Indices: 136307942--136307985 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
136307932 TTTTTTTTCG
*
136307942 ATTTTTTTTATTTTTTT
1 ATTTTTTTTATTTTTTA
136307959 ATTTTTTTTATTTTTTA
1 ATTTTTTTTATTTTTTA
136307976 ATTTTTTTTA
1 ATTTTTTTTA
136307986 ACTTGTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
ATTTTTTTTATTTTTTA
Found at i:136311139 original size:30 final size:29
Alignment explanation
Indices: 136311094--136311178 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 29
136311084 TTCTTTTGTT
*
136311094 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCAT-TTCTTTTTCAATC
136311124 TCAAATTTC-TTTTCATTCTCTTTTTCAATC
1 TC-AATTTCTTTTTCATT-TCTTTTTCAATC
*
136311154 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCA-TTTCTTTTT
136311179 GCTTTTCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.12
30 35 0.71
31 8 0.16
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTTCATTTCTTTTTCAATC
Found at i:136311178 original size:18 final size:18
Alignment explanation
Indices: 136311129--136311184 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
136311119 CACTCTCAAA
*
136311129 TTTC-TTTTCATTCTCTT
1 TTTCATTTTCATTTTCTT
* *
136311146 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
136311164 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
136311183 TT
1 TT
136311185 CAAAGGCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:136311185 original size:12 final size:12
Alignment explanation
Indices: 136311154--136311178 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136311144 TTTTTCAATC
136311154 TCATTTTCTTTT
1 TCATTTTCTTTT
136311166 TCATTTTCTTTT
1 TCATTTTCTTTT
136311178 T
1 T
136311179 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:136311257 original size:5 final size:5
Alignment explanation
Indices: 136311247--136311303 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
136311237 CTCTTGCCTC
*
136311247 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
136311294 TCTTT TCTTT
1 TCTTT TCTTT
136311304 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:136311287 original size:15 final size:14
Alignment explanation
Indices: 136311247--136311303 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
136311237 CTCTTGCCTC
*
136311247 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
136311262 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
136311277 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
136311294 TCTTTTCTTT
1 TCTTTTCTTT
136311304 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:136311304 original size:21 final size:21
Alignment explanation
Indices: 136311247--136311314 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
136311237 CTCTTGCCTC
* *
136311247 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
136311268 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
136311289 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
136311309 CTCTTT
1 -TCTTT
136311315 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:136312232 original size:13 final size:13
Alignment explanation
Indices: 136312214--136312256 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
136312204 TAAAACACCC
*
136312214 TTTTTTCAGATTT
1 TTTTTTCAAATTT
136312227 TTTTTTCAAA--T
1 TTTTTTCAAATTT
*
136312238 TTTTTTCGAATTT
1 TTTTTTCAAATTT
136312251 TTTTTT
1 TTTTTT
136312257 AACTTGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTTCAAATTT
Found at i:136313962 original size:30 final size:30
Alignment explanation
Indices: 136313928--136314024 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
136313918 TAAACTAAAA
*
136313928 TGAGCTAAGCTTTAGCTCGTATGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
* * * * *
136313958 TGAGCTAAGGC-TAAACTCCTAAGCTGAATT
1 TGAGCTAA-GCTTTAGCTCGTAAGCTAAAGT
* * *
136313988 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTAAGCT-AAAGT
136314018 TGAGCTA
1 TGAGCTA
136314025 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 1 0.02
30 45 0.90
31 4 0.08
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
Found at i:136316359 original size:29 final size:29
Alignment explanation
Indices: 136316326--136316385 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
136316316 AAGGATTCAA
* *
136316326 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGAATATAAAGTTTATGT
* *
136316355 AGATGGGTTTATGAATTTAAAGTTTTTGT
1 AGATGGGTTTATGAATATAAAGTTTATGT
136316384 AG
1 AG
136316386 GTTTGGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
AGATGGGTTTATGAATATAAAGTTTATGT
Found at i:136322195 original size:30 final size:30
Alignment explanation
Indices: 136322161--136322244 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
136322151 TAAACTAAAA
* *
136322161 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
136322191 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
136322221 TGAGC-AAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGATTTAGCTCGTGAGCT
136322245 GAATATGAGC
Statistics
Matches: 40, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
29 13 0.32
30 27 0.68
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:136324538 original size:30 final size:30
Alignment explanation
Indices: 136324467--136324549 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
136324457 CTTTTGTTTC
* *
136324467 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
136324498 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
136324527 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
136324550 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Done.