Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 273 of 325
Found at i:84643313 original size:110 final size:110
Alignment explanation
Indices: 84643119--84643341 Score: 419
Period size: 110 Copynumber: 2.0 Consensus size: 110
84643109 CATTTCAAAT
*
84643119 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCTAATT
1 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
* *
84643184 TGATTTGGATCTATGCATACCATAAATCTTTTTTACCAAAACATA
66 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
84643229 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
1 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
84643294 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
84643339 AAC
1 AAC
84643342 CATTTGGCAC
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (110 bp):
AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
Found at i:84646334 original size:18 final size:18
Alignment explanation
Indices: 84646311--84646348 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
84646301 TAGGGTTCAT
*
84646311 AATGAAAAGGAAGTTGAG
1 AATGAAAAGGAAGCTGAG
*
84646329 AATGAAGAGGAAGCTGAG
1 AATGAAAAGGAAGCTGAG
84646347 AA
1 AA
84646349 CAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.34, T:0.13
Consensus pattern (18 bp):
AATGAAAAGGAAGCTGAG
Found at i:84648882 original size:12 final size:12
Alignment explanation
Indices: 84648866--84648906 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
84648856 CTATCTTCAT
84648866 CATCACCATCGC
1 CATCACCATCGC
*
84648878 TATCACCATCGC
1 CATCACCATCGC
*
84648890 CATCGCCATCGC
1 CATCACCATCGC
84648902 CATCA
1 CATCA
84648907 TTATCATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.46, G:0.10, T:0.20
Consensus pattern (12 bp):
CATCACCATCGC
Found at i:84648892 original size:6 final size:6
Alignment explanation
Indices: 84648866--84648905 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
84648856 CTATCTTCAT
* * *
84648866 CATCAC CATCGC TATCAC CATCGC CATCGC CATCGC CATC
1 CATCGC CATCGC CATCGC CATCGC CATCGC CATCGC CATC
84648906 ATTATCATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.10, T:0.20
Consensus pattern (6 bp):
CATCGC
Found at i:84648922 original size:6 final size:6
Alignment explanation
Indices: 84648913--84648985 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
84648903 ATCATTATCA
* * *
84648913 TCATCT TCATCT TCATCT ACATCT CCATCT CCAT-T TCCATCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT T-CATCT TCATCT
* * *
84648961 CCAACGT T-ATCT TCATTT TCATCT T
1 TCATC-T TCATCT TCATCT TCATCT T
84648986 GTTCTTCAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 3 0.06
6 48 0.89
7 3 0.06
ACGTcount: A:0.19, C:0.34, G:0.01, T:0.45
Consensus pattern (6 bp):
TCATCT
Found at i:84658230 original size:27 final size:28
Alignment explanation
Indices: 84658193--84658332 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
84658183 AGCATGGCTG
* *
84658193 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
84658219 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
84658247 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
84658274 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
84658301 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
84658328 CCAGA
1 CCAGA
84658333 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:84659982 original size:26 final size:26
Alignment explanation
Indices: 84659946--84660079 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
84659936 CATGAAATTC
84659946 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84659972 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
84659998 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
84660023 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84660048 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84660074 TTATCA
1 TTATCA
84660080 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
25 48 0.47
26 55 0.53
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84660026 original size:51 final size:50
Alignment explanation
Indices: 84659946--84660079 Score: 223
Period size: 51 Copynumber: 2.6 Consensus size: 50
84659936 CATGAAATTC
*
84659946 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTATTATCATGAAACATTTACCTAA-CCA
*
84659998 TTATCATGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
84660048 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCAT-GAACATTTACCTAACCTATTATCA
84660080 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.13
51 61 0.77
52 8 0.10
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (50 bp):
TTATCATGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
Found at i:84664072 original size:27 final size:27
Alignment explanation
Indices: 84664035--84664201 Score: 230
Period size: 27 Copynumber: 6.2 Consensus size: 27
84664025 AGCATGGCTG
* * *
84664035 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
84664061 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
*
84664089 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
84664116 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
84664143 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
84664170 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
84664197 CCAGA
1 CCAGA
84664202 ACGCTTCCTC
Statistics
Matches: 131, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.04
27 109 0.83
28 17 0.13
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Found at i:84664126 original size:54 final size:54
Alignment explanation
Indices: 84664035--84664203 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
84664025 AGCATGGCTG
* * * *
84664035 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
84664089 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
* * *
84664143 CCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
84664197 CCAGAAC
1 CCAGAAC
84664204 GCTTCCTCCA
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 88 0.83
55 18 0.17
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
Found at i:84665851 original size:26 final size:26
Alignment explanation
Indices: 84665815--84665950 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
84665805 CATGAAATTC
84665815 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84665841 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
84665867 TTATCATGAAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
*
84665893 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84665919 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84665945 TTATCA
1 TTATCA
84665951 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84666396 original size:26 final size:26
Alignment explanation
Indices: 84666366--84666473 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
84666356 TGATACAAAT
* *
84666366 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
84666392 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
84666418 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
84666444 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
84666470 TGAT
1 TGAT
84666474 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:84670161 original size:18 final size:18
Alignment explanation
Indices: 84670138--84670172 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
84670128 GAGTTAAACG
84670138 AATCGAGTTATCCGAGTT
1 AATCGAGTTATCCGAGTT
*
84670156 AATCGAGTTATTCGAGT
1 AATCGAGTTATCCGAGT
84670173 CAACTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (18 bp):
AATCGAGTTATCCGAGTT
Found at i:84670510 original size:30 final size:30
Alignment explanation
Indices: 84670461--84670519 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
84670451 AACTTTTTAT
*
84670461 TTTCCCCCAAAATTTTTACT-CCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
84670490 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
84670520 TTCCACCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 11 0.41
31 8 0.30
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.37
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:84671703 original size:50 final size:47
Alignment explanation
Indices: 84671608--84671707 Score: 121
Period size: 50 Copynumber: 2.1 Consensus size: 47
84671598 AATTCATTTG
* * *
84671608 ATTTCATCATTTTCATAAACATAAGTATACTTCCTTTGAAGCTTACC
1 ATTTCAACATTTTCATAAACATAAGTATACTTCATTTGAAACTTACC
*
84671655 ATTTCAACACTTTTCATAATTACATAA-TATATTTCATTTGAACACTTACC
1 ATTTCAACA-TTTTCATAA--ACATAAGTATACTTCATTTGAA-ACTTACC
84671705 ATT
1 ATT
84671708 CATTTCCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
47 8 0.18
48 9 0.20
49 13 0.29
50 15 0.33
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (47 bp):
ATTTCAACATTTTCATAAACATAAGTATACTTCATTTGAAACTTACC
Found at i:84675236 original size:23 final size:23
Alignment explanation
Indices: 84675155--84675235 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
84675145 TAACACTCTA
84675155 CAGAATGTAA-TGCACTGAAATGC
1 CAGAATG-AATTGCACTGAAATGC
* *
84675178 CAGAATGAATTGCACTGTAGTGC
1 CAGAATGAATTGCACTGAAATGC
84675201 C--AATG-ATTGCACCT-AAATGC
1 CAGAATGAATTGCA-CTGAAATGC
84675221 CAGAATGAATTGCAC
1 CAGAATGAATTGCAC
84675236 CAAAGTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
20 11 0.22
21 6 0.12
22 7 0.14
23 25 0.51
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (23 bp):
CAGAATGAATTGCACTGAAATGC
Found at i:84678162 original size:42 final size:43
Alignment explanation
Indices: 84678051--84678223 Score: 138
Period size: 44 Copynumber: 4.0 Consensus size: 43
84678041 AACATATACA
*** * * *
84678051 ATGCCAACGTCCCAGATGCGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
* * *
84678094 ATTCC-ACTGTCTCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAGATATCG
* * *
84678136 ATGCCAAGGTCCCAGACATGGTCTTACATGAAAAAT-AGAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG--AAATCAGATATCG
* * *
84678180 ATGCCAACTTCTCAGATATGGTCTTACACGCAGAA-CAGATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-A-AATCAGATATCG
84678224 GAATTCCTAT
Statistics
Matches: 102, Mismatches: 21, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
42 27 0.26
43 35 0.34
44 40 0.39
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
Found at i:84684639 original size:31 final size:31
Alignment explanation
Indices: 84684601--84684664 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
84684591 AGAGGCCATG
84684601 TTGGATAAAAAGTCGCTAATGATAGAACTAC
1 TTGGATAAAAAGTCGCTAATGATAGAACTAC
* *
84684632 TTGGATAAAATGTGGCTAATGATAGAACTAC
1 TTGGATAAAAAGTCGCTAATGATAGAACTAC
84684663 TT
1 TT
84684665 CGACAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (31 bp):
TTGGATAAAAAGTCGCTAATGATAGAACTAC
Found at i:84685342 original size:18 final size:20
Alignment explanation
Indices: 84685316--84685356 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
84685306 TTTAAATTCG
*
84685316 TTTTGATTT-TAAATT-TTA
1 TTTTCATTTGTAAATTATTA
*
84685334 TTTTCATTTGTAATTTATTA
1 TTTTCATTTGTAAATTATTA
84685354 TTT
1 TTT
84685357 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTCATTTGTAAATTATTA
Found at i:84686993 original size:21 final size:21
Alignment explanation
Indices: 84686967--84687029 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
84686957 ACATAGAAAG
84686967 CCAGTGTCGCAACACT-AGGTT
1 CCAGTGTCGCAACACTGA-GTT
*
84686988 CCAGTGTTGCAACACTGAGTT
1 CCAGTGTCGCAACACTGAGTT
* * *
84687009 CCAGTGTTGCGACACCGAGTT
1 CCAGTGTCGCAACACTGAGTT
84687030 GGTGTCGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (21 bp):
CCAGTGTCGCAACACTGAGTT
Found at i:84688339 original size:163 final size:163
Alignment explanation
Indices: 84688074--84688368 Score: 418
Period size: 163 Copynumber: 1.8 Consensus size: 163
84688064 TCTGTAAAAC
* * * *
84688074 ACCTTGGTATAAACCAGATTTTTATGAAAACTTATATAAAGAATAGGTGAATTATGACGAGATCA
1 ACCTTGGTATAAACCAGATTTTTATGAAAAATTACATAAAGAAGAGGTGAATTATGAAGAGATCA
** * *
84688139 TCAATTTTTTAACTGAAGGTTGAGGAAATTAGGTTCGAAA-AGTCATAACTGAAA-AACCAATAA
66 TCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAGA-CCACAACT-AAAGAACCAATAA
84688202 GATTCTATGATTGCGATCGAAGCCGTCCATAAGAA
129 GATTCTATGATTGCGATCGAAGCCGTCCATAAGAA
*
84688237 ACCTTGGTAT-AACCTGGATTTTTATGAAAAATTACATGAAA-AAGAGGTGAATTATGAAGAGAT
1 ACCTTGGTATAAACC-AGATTTTTATGAAAAATTACAT-AAAGAAGAGGTGAATTATGAAGAGAT
* * *
84688300 CATCAATTTTTTAACTGAGGGTCAAGGAACTTGGGTTCGAAAGACCACAACTAAAGAACCAATAA
64 CATCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAGACCACAACTAAAGAACCAATAA
84688365 GATT
129 GATT
84688369 TAAACAATCT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
162 7 0.06
163 105 0.91
164 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (163 bp):
ACCTTGGTATAAACCAGATTTTTATGAAAAATTACATAAAGAAGAGGTGAATTATGAAGAGATCA
TCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAGACCACAACTAAAGAACCAATAAGA
TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
Found at i:84689683 original size:6 final size:6
Alignment explanation
Indices: 84689664--84689726 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
84689654 TCTAAATGAA
* ** *
84689664 TTCATT TCTCATT TTCATT TTTATT TTCATT TTCGCT TTCGTT TTCATT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT
*
84689713 TACATT TTCATT TT
1 TTCATT TTCATT TT
84689727 GAGAAAACCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 42 0.88
7 6 0.12
ACGTcount: A:0.14, C:0.17, G:0.03, T:0.65
Consensus pattern (6 bp):
TTCATT
Found at i:84692188 original size:48 final size:48
Alignment explanation
Indices: 84692071--84692640 Score: 611
Period size: 48 Copynumber: 11.8 Consensus size: 48
84692061 GTAAGATGCT
* * * *
84692071 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAG--CTCACATATCGAG-GCC
* *
84692121 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * * ** * *
84692169 GATTCCATATCCCAAACATGATCTTACACAAGCTCTCCCATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
84692217 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * **
84692265 GATGCAATGTCCCAAGCATGGTCTTACACTAGCTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
84692313 GATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
** * * * * **
84692361 GATTTCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
84692409 GATGCCATGTTCTAAACATGGTCTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * *
84692457 AATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
*
84692505 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * **
84692553 GATGCCATGTTCCAGACATGGTCTTACACTAGTTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * *
84692601 GATGTCATGTTCCAAACATGATATTATACTGGCTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
84692641 ACCCTAGTAT
Statistics
Matches: 421, Mismatches: 98, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
48 391 0.93
49 1 0.00
50 29 0.07
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:84692255 original size:96 final size:96
Alignment explanation
Indices: 84692071--84692640 Score: 825
Period size: 96 Copynumber: 5.9 Consensus size: 96
84692061 GTAAGATGCT
* * ** *
84692071 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCAATACCGATGCCATGTTCCAA
* * *
84692136 ACATGGTCTTACACTAGCCCACATGTCGAGGCC
64 ACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * ** *
84692169 GATTCCATATCCCAAACATGATCTTACACAAGCTCTCCCATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
* *
84692234 ATGGTCTTATACTGGCTCACATATCGAGGCT
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* *
84692265 GATGCAATGTCCCAAGCATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
84692330 ATGGTTTTACACTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
** * *
84692361 GATTTCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCTAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
84692426 ATGGTCTTACACTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* *
84692457 AATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
84692522 ATGGTCTTACACTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
84692553 GATGCCATGTTCCAGACATGGTCTTACACTAGTTCTCATATCAATACCGATGTCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
* * *
84692618 ATGATATTATACTGGCTCACATA
66 ATGGTCTTACACTGGCTCACATA
84692641 ACCCTAGTAT
Statistics
Matches: 423, Mismatches: 49, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
96 392 0.93
98 31 0.07
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:84698609 original size:18 final size:18
Alignment explanation
Indices: 84698586--84698630 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
84698576 CTACAATTCC
*
84698586 CTCCATGGTCGTCAATAA
1 CTCCATAGTCGTCAATAA
*
84698604 CTCCATAGTTGTCAATAA
1 CTCCATAGTCGTCAATAA
84698622 CTCCATAGT
1 CTCCATAGT
84698631 AGGTTTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (18 bp):
CTCCATAGTCGTCAATAA
Found at i:84701988 original size:56 final size:56
Alignment explanation
Indices: 84701901--84702013 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
84701891 AGGGAAAAAG
84701901 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACTGGAC
1 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACTGGAC
*
84701957 AATGTAAATTTCAAATATTGTATTCATAGTTCATATGACCATATCAGAGACTGGAC
1 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACTGGAC
84702013 A
1 A
84702014 GACACAAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (56 bp):
AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACTGGAC
Found at i:84705405 original size:14 final size:15
Alignment explanation
Indices: 84705370--84705399 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84705360 AATAATTTCA
84705370 AAAAATATTTAAAAT
1 AAAAATATTTAAAAT
84705385 AAAAATATTTAAAAT
1 AAAAATATTTAAAAT
84705400 TCAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATATTTAAAAT
Found at i:84705427 original size:19 final size:19
Alignment explanation
Indices: 84705383--84705428 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
84705373 AATATTTAAA
*
84705383 ATAAAAATATTTAAAATTC
1 ATAAAAATATTAAAAATTC
84705402 A-ATAAAATA-TAAAAAGTTC
1 ATA-AAAATATTAAAAA-TTC
84705421 ATAAAAAT
1 ATAAAAAT
84705429 TCAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 6 0.26
19 16 0.70
20 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAATATTAAAAATTC
Found at i:84712671 original size:5 final size:5
Alignment explanation
Indices: 84712663--84712694 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
84712653 AACATAGTGG
84712663 TAAAA TAAAA TAAAA TAAAA TAAAA GTAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA T
84712695 CAATATGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:84715377 original size:79 final size:79
Alignment explanation
Indices: 84715278--84715433 Score: 303
Period size: 79 Copynumber: 2.0 Consensus size: 79
84715268 TAGAGTTGCT
*
84715278 TCTTCACCACAGTTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
1 TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
84715343 TCCAAAAAGGTATG
66 TCCAAAAAGGTATG
84715357 TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
1 TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
84715422 TCCAAAAAGGTA
66 TCCAAAAAGGTA
84715434 CGTCAAGGCT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (79 bp):
TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
TCCAAAAAGGTATG
Found at i:84718236 original size:39 final size:39
Alignment explanation
Indices: 84718193--84718285 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
84718183 GGTCTTTAAC
* *
84718193 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
* *
84718232 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
84718271 CCGGATATATTTCCA
1 CCGGATATATTTCCA
84718286 ATCTCATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (39 bp):
CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:84718952 original size:2 final size:2
Alignment explanation
Indices: 84718945--84718979 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
84718935 ACAATTTAAC
84718945 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84718980 ACCGAATGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:84719449 original size:2 final size:2
Alignment explanation
Indices: 84719442--84719513 Score: 83
Period size: 2 Copynumber: 36.0 Consensus size: 2
84719432 ACATGAAATC
** * *
84719442 TA TA TA TA TA TA TA TA TA TA GCC GA -A TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
84719484 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84719514 GCTCATCAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:84726147 original size:2 final size:2
Alignment explanation
Indices: 84726140--84726194 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
84726130 GTACATATTC
84726140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84726182 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
84726195 CCAATTTGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84733185 original size:2 final size:2
Alignment explanation
Indices: 84733178--84733212 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
84733168 ATAATTTGAT
84733178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84733213 TGAATATCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:84733786 original size:12 final size:12
Alignment explanation
Indices: 84733771--84733840 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
84733761 ATAAGTAATT
84733771 AATTAATATATA
1 AATTAATATATA
* *
84733783 AATTAAAAAAT-
1 AATTAATATATA
*
84733794 AA-TAAGTATTTA
1 AATTAA-TATATA
*
84733806 TTATTAATATATA
1 -AATTAATATATA
*
84733819 AATTAATATATT
1 AATTAATATATA
84733831 AATTAATATA
1 AATTAATATA
84733841 CCCAAAAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
10 3 0.07
11 4 0.09
12 29 0.64
13 6 0.13
14 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (12 bp):
AATTAATATATA
Found at i:84738081 original size:36 final size:36
Alignment explanation
Indices: 84738032--84738109 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
84738022 TAGCACCGGC
*
84738032 TGTGTTTCAGGATTCTCTTTTGTATCAGGTTTAGGT
1 TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
**
84738068 TGTGTTTTGGGATTCTCTTTTGTATCAAGTTTAGGT
1 TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
*
84738104 AGTGTT
1 TGTGTT
84738110 GATTCCAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.14, C:0.09, G:0.26, T:0.51
Consensus pattern (36 bp):
TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
Found at i:84739015 original size:17 final size:16
Alignment explanation
Indices: 84738993--84739035 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
84738983 GCTCTTTCTG
84738993 CAAGAGTACAATAATTC
1 CAAGAG-ACAATAATTC
*
84739010 CAAGAG-GAATAATTC
1 CAAGAGACAATAATTC
84739025 CAAGAGGACAA
1 CAAGA-GACAA
84739036 AGGGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.59
16 1 0.05
17 8 0.36
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
CAAGAGACAATAATTC
Found at i:84739022 original size:15 final size:15
Alignment explanation
Indices: 84739002--84739032 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
84738992 GCAAGAGTAC
84739002 AATAATTCCAAGAGG
1 AATAATTCCAAGAGG
84739017 AATAATTCCAAGAGG
1 AATAATTCCAAGAGG
84739032 A
1 A
84739033 CAAAGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
AATAATTCCAAGAGG
Found at i:84745851 original size:17 final size:17
Alignment explanation
Indices: 84745829--84745862 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
84745819 AGCCACTGGT
* *
84745829 GTTGATTTCATGTCCTG
1 GTTGATATCAGGTCCTG
84745846 GTTGATATCAGGTCCTG
1 GTTGATATCAGGTCCTG
84745863 CCCTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (17 bp):
GTTGATATCAGGTCCTG
Found at i:84752193 original size:15 final size:15
Alignment explanation
Indices: 84752154--84752193 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
84752144 AAATTCAGTT
84752154 CTTAAATTTTTAGCA
1 CTTAAATTTTTAGCA
** *
84752169 CTTATTTTTTTATCA
1 CTTAAATTTTTAGCA
84752184 CTTAAATTTT
1 CTTAAATTTT
84752194 CAGTTTATCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (15 bp):
CTTAAATTTTTAGCA
Found at i:84760769 original size:13 final size:13
Alignment explanation
Indices: 84760751--84760775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84760741 TACAAGATAA
84760751 AAAAAAAAAGAGG
1 AAAAAAAAAGAGG
84760764 AAAAAAAAAGAG
1 AAAAAAAAAGAG
84760776 AAAGGGAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAGG
Found at i:84762441 original size:40 final size:40
Alignment explanation
Indices: 84762396--84762563 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
84762386 CGGAATATAA
84762396 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
84762436 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
84762476 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84762516 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
84762556 CCGGATAT
1 CCGGATAT
84762564 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84762546 original size:80 final size:80
Alignment explanation
Indices: 84762412--84762561 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
84762402 ATAATCACGT
*
84762412 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
84762476 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
84762492 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
84762555 CCCGGAT
64 CCCGGAT
84762562 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:84770452 original size:40 final size:40
Alignment explanation
Indices: 84770407--84770574 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
84770397 CGGAATATAA
84770407 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
84770447 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
84770487 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84770527 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
84770567 CCGGATAT
1 CCGGATAT
84770575 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84770557 original size:80 final size:80
Alignment explanation
Indices: 84770423--84770572 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
84770413 ATAATCACGT
*
84770423 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
84770487 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
84770503 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
84770566 CCCGGAT
64 CCCGGAT
84770573 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:84773432 original size:24 final size:24
Alignment explanation
Indices: 84773399--84773456 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 24
84773389 TACATTTAAT
84773399 TTTAGTTTTCAGTTTTCTTTCGTTC
1 TTTA-TTTTCAGTTTTCTTTCGTTC
84773424 TTTATTTTCAGTTTTCTTTCGTTC
1 TTTATTTTCAGTTTTCTTTCGTTC
84773448 TTTCATTTT
1 TTT-ATTTT
84773457 TAATTTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.09, C:0.16, G:0.09, T:0.67
Consensus pattern (24 bp):
TTTATTTTCAGTTTTCTTTCGTTC
Found at i:84773468 original size:31 final size:31
Alignment explanation
Indices: 84773384--84773469 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 31
84773374 GTCATACATA
*
84773384 TTTCATACATTTAATTTTAGTTTTCAGTTTTC
1 TTTCATTC-TTTAATTTTAGTTTTCAGTTTTC
* *
84773416 TTTCGTTCTTT-ATTTTCAGTTTTC-TTTCGTTC
1 TTTCATTCTTTAATTTT-AGTTTTCAGTT--TTC
84773448 TTTCATT-TTTAATTTTAGTTTT
1 TTTCATTCTTTAATTTTAGTTTT
84773470 TCTTAAGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 7 0.15
31 19 0.41
32 20 0.43
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.65
Consensus pattern (31 bp):
TTTCATTCTTTAATTTTAGTTTTCAGTTTTC
Found at i:84773600 original size:13 final size:14
Alignment explanation
Indices: 84773584--84773613 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
84773574 TTTTCCTTTA
84773584 TTATTT-TATTTTG
1 TTATTTATATTTTG
84773597 TTATTTATATTTTG
1 TTATTTATATTTTG
84773611 TTA
1 TTA
84773614 ACTTGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
TTATTTATATTTTG
Found at i:84775115 original size:42 final size:42
Alignment explanation
Indices: 84775061--84775220 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
84775051 TTAGGGTTAC
*
84775061 TGAGA-TTACGTGTAAAACCATATCTGGGATATGACATCGATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGACATCGATA
*
84775103 TGAGACTTCGTGTAAGACCATATCTGGGATATGGA-ATTGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATAT-GACATCGATA
* * *
84775145 TGAGACTTTGTGTAAGACCAT-TGCTGGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATAT-CTGGGATA-TGACATCGATA
** * * * *
84775188 CAAGATTTCATGTAAGACCATATTTGAGATATG
1 TGAGACTTCGTGTAAGACCATATCTGGGATATG
84775221 GCATTGGTAC
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.65
43 32 0.33
44 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:84775210 original size:85 final size:84
Alignment explanation
Indices: 84775070--84775226 Score: 199
Period size: 85 Copynumber: 1.9 Consensus size: 84
84775060 CTGAGATTAC
** * *
84775070 GTGTAAAACCATATCTGGGATATGACATCGATATGAGACTTCGTGTAAGACCATATCTGGGATAT
1 GTGTAAAACCATATCTGGGATATGACATCGATACAAGACTTCATGTAAGACCATATCTGAGATAT
84775135 GGAATTGATATGAGACTTT
66 GGAATTGATATGAGACTTT
* * * * *
84775154 GTGTAAGACCAT-TGCTGGGCTATTGGCATCGATACAAGATTTCATGTAAGACCATATTTGAGAT
1 GTGTAAAACCATAT-CTGGGATA-TGACATCGATACAAGACTTCATGTAAGACCATATCTGAGAT
*
84775218 ATGGCATTG
64 ATGGAATTG
84775227 GTACGGTACT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 1 0.02
84 18 0.30
85 42 0.69
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (84 bp):
GTGTAAAACCATATCTGGGATATGACATCGATACAAGACTTCATGTAAGACCATATCTGAGATAT
GGAATTGATATGAGACTTT
Found at i:84781990 original size:16 final size:16
Alignment explanation
Indices: 84781969--84782002 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
84781959 TGTTAGTTGG
84781969 GATCTTAGACCTGAAA
1 GATCTTAGACCTGAAA
*
84781985 GATCTTAGAGCTGAAA
1 GATCTTAGACCTGAAA
84782001 GA
1 GA
84782003 ATTTGTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (16 bp):
GATCTTAGACCTGAAA
Found at i:84784793 original size:18 final size:18
Alignment explanation
Indices: 84784770--84784807 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
84784760 ATTTGTCAAA
84784770 AAGTAAAAGCCGAACACT
1 AAGTAAAAGCCGAACACT
84784788 AAGTAAAAGCCGAACACT
1 AAGTAAAAGCCGAACACT
84784806 AA
1 AA
84784808 ATGCCTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (18 bp):
AAGTAAAAGCCGAACACT
Found at i:84787176 original size:22 final size:21
Alignment explanation
Indices: 84787151--84787205 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
84787141 ATATAACGAG
84787151 TGTATATATCACATCATTCATT
1 TGTATATATCACATCATTCA-T
* *
84787173 TGTATACATTCATATCATTCAT
1 TGTATATA-TCACATCATTCAT
84787195 TGTTATATATC
1 TG-TATATATC
84787206 TCACTTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.47
Consensus pattern (21 bp):
TGTATATATCACATCATTCAT
Found at i:84787493 original size:63 final size:62
Alignment explanation
Indices: 84787373--84787493 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 62
84787363 AGCTCGTACA
* * *
84787373 ATGCCAACATCCCTGACATGATCTTACATGTAATCAAATATCGATGCCATTGTCCCAGTATG
1 ATGCCAACATCCCAGACATGATATTACATGTAATCAAATATCGATGCCAATGTCCCAGTATG
** *
84787435 ATGCCAATGTCCCAGACATGGTATTACATGTAAATCACAA-ATCGATGCCAATGTCCCAG
1 ATGCCAACATCCCAGACATGATATTACATGT-AATCA-AATATCGATGCCAATGTCCCAG
84787494 ACGTGGTCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 26 0.51
63 23 0.45
64 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (62 bp):
ATGCCAACATCCCAGACATGATATTACATGTAATCAAATATCGATGCCAATGTCCCAGTATG
Found at i:84794163 original size:22 final size:21
Alignment explanation
Indices: 84794138--84794191 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
84794128 TATAACGAGC
*
84794138 GTATATATCACATCATTCATTT
1 GTATATATCACATAATTCA-TT
* *
84794160 GTATAAATTCATATAATTCATT
1 GTATATA-TCACATAATTCATT
84794182 GTCATATATC
1 GT-ATATATC
84794192 TCACATATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (21 bp):
GTATATATCACATAATTCATT
Found at i:84794424 original size:43 final size:42
Alignment explanation
Indices: 84794358--84794514 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
84794348 AGCTCGTATA
* * *
84794358 ATGCCAATGTCCCAAA-TGTGGTCTTACATGTAATCAAATATAG
1 ATGCCATTGTCCCAAACAG-GGTCTTACATGAAATCAAATAT-G
* *
84794401 ATGCCACTT-TCCCAAACAGGGTCTTATATGAAATCATATATG
1 ATGCCA-TTGTCCCAAACAGGGTCTTACATGAAATCAAATATG
* *
84794443 ATGCCATTGTCCCATACATGGTCTTACACAT-AAATCACAA-ATCG
1 ATGCCATTGTCCCAAACAGGGTCTT--ACATGAAATCA-AATAT-G
* *
84794487 ATGCCAATGT-CCAAGACATGGTCTTACA
1 ATGCCATTGTCCCAA-ACAGGGTCTTACA
84794515 CGATAACACA
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 24 0.25
43 43 0.45
44 26 0.27
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATTGTCCCAAACAGGGTCTTACATGAAATCAAATATG
Found at i:84803840 original size:19 final size:21
Alignment explanation
Indices: 84803797--84803842 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
84803787 GAAGATGATA
84803797 ATTATTAATATATATTATATCT
1 ATTA-TAATATATATTATATCT
*
84803819 ATTATAATATCTATTA-AT-T
1 ATTATAATATATATTATATCT
84803838 ATTAT
1 ATTAT
84803843 CTATTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 11 0.48
22 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATAATATATATTATATCT
Found at i:84803843 original size:14 final size:12
Alignment explanation
Indices: 84803797--84803851 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
84803787 GAAGATGATA
*
84803797 ATTATTA-ATAT
1 ATTATTATATCT
84803808 A-TATTATATCT
1 ATTATTATATCT
*
84803819 ATTATAATATCT
1 ATTATTATATCT
84803831 ATTAATTATTATCT
1 ATT-ATTA-TATCT
84803845 ATT-TTAT
1 ATTATTAT
84803852 CTACAGTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 5 0.14
11 6 0.16
12 15 0.41
13 3 0.08
14 8 0.22
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATATCT
Found at i:84810473 original size:54 final size:53
Alignment explanation
Indices: 84810405--84810513 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 53
84810395 TCATTAAGAC
* *
84810405 CCTCGATTTGTGAAATTACCGAAATAACCCC-GGGTTGTAAACTTACCGAAATA
1 CCTCGATTTGTGAAATTACCGAAAT-ACCCCTGAGTTGTAAAATTACCGAAATA
* * *
84810458 CCTCTGATTTGTGAAATTATCGAAATACCCCTGATTTGTAAAATTATCGAAATA
1 CCTC-GATTTGTGAAATTACCGAAATACCCCTGAGTTGTAAAATTACCGAAATA
84810512 CC
1 CC
84810514 CCTGTAAGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 9 0.18
54 40 0.82
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (53 bp):
CCTCGATTTGTGAAATTACCGAAATACCCCTGAGTTGTAAAATTACCGAAATA
Found at i:84810516 original size:27 final size:27
Alignment explanation
Indices: 84810404--84810517 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
84810394 GTCATTAAGA
*
84810404 CCCTCGATTTGTGAAATTACCGAAATAAC
1 CCCT-GATTTGTAAAATTACCGAAAT-AC
** *
84810433 CCC-GGGTTGTAAACTTACCGAAATAC
1 CCCTGATTTGTAAAATTACCGAAATAC
* * *
84810459 CTCTGATTTGTGAAATTATCGAAATAC
1 CCCTGATTTGTAAAATTACCGAAATAC
*
84810486 CCCTGATTTGTAAAATTATCGAAATAC
1 CCCTGATTTGTAAAATTACCGAAATAC
84810513 CCCTG
1 CCCTG
84810518 TAAGGTAGGA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
26 4 0.06
27 65 0.90
29 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (27 bp):
CCCTGATTTGTAAAATTACCGAAATAC
Found at i:84810530 original size:27 final size:27
Alignment explanation
Indices: 84810473--84810553 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
84810463 GATTTGTGAA
** **
84810473 ATTATCGAAATACCCCTG-ATTTGTAAA
1 ATTATCGAAATACCCCTGTA-AGGTAGG
84810500 ATTATCGAAATACCCCTGTAAGGTAGG
1 ATTATCGAAATACCCCTGTAAGGTAGG
* *
84810527 ATTA-C---CTACCCCTGTAGGGTAGG
1 ATTATCGAAATACCCCTGTAAGGTAGG
84810550 ATTA
1 ATTA
84810554 CTGTAATCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
23 20 0.43
26 1 0.02
27 25 0.53
28 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (27 bp):
ATTATCGAAATACCCCTGTAAGGTAGG
Found at i:84810537 original size:23 final size:23
Alignment explanation
Indices: 84810510--84810554 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
84810500 ATTATCGAAA
84810510 TACCCCTGTAAGGTAGGATTACC
1 TACCCCTGTAAGGTAGGATTACC
*
84810533 TACCCCTGTAGGGTAGGATTAC
1 TACCCCTGTAAGGTAGGATTAC
84810555 TGTAATCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
TACCCCTGTAAGGTAGGATTACC
Found at i:84814295 original size:42 final size:42
Alignment explanation
Indices: 84814232--84814382 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
84814222 CTGATATTAC
*
84814232 GTGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* * * *
84814274 GTGTAAAACCATATCTGGGATATGCCATCGATATGAGACCTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* * * *
84814316 GTATAAGACCATAGT-TGGGCTATCGGCATTGATACGAGA-TTT
1 GTGTAAGACCATA-TCTGGGATAT-GGCATCGATATGAGACTTT
* *
84814358 CATGTAAGACCATATTTGGGATATG
1 -GTGTAAGACCATATCTGGGATATG
84814383 ACATTAGTAC
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 58 0.65
43 31 0.35
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
Found at i:84816240 original size:17 final size:17
Alignment explanation
Indices: 84816220--84816253 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
84816210 AAATTTTATT
84816220 TATTTTGTGATTTTGTG
1 TATTTTGTGATTTTGTG
84816237 TATTTTGTGATTTTGTG
1 TATTTTGTGATTTTGTG
84816254 AAGGACTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.65
Consensus pattern (17 bp):
TATTTTGTGATTTTGTG
Found at i:84816241 original size:9 final size:8
Alignment explanation
Indices: 84816221--84816254 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
84816211 AATTTTATTT
84816221 ATTTTGTG
1 ATTTTGTG
84816229 ATTTTGTG
1 ATTTTGTG
84816237 TATTTTGTG
1 -ATTTTGTG
84816246 ATTTTGTG
1 ATTTTGTG
84816254 A
1 A
84816255 AGGACTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:84816755 original size:42 final size:43
Alignment explanation
Indices: 84816636--84816807 Score: 113
Period size: 43 Copynumber: 4.0 Consensus size: 43
84816626 ACATAGGATC
* * * *
84816636 CGATATGTGTTTTTGTGTAAGACC-TCATCTGGGAC-GTTGACAT
1 CGATATTTGATTTTGTGTAAGACCAT-GTCTGGGACAG-TGGCAT
* * * *
84816679 CGACT-TATGATTTACGTGTAATACCATGTCTGGGACA-TCGGTAT
1 CGA-TATTTGATTT-TGTGTAAGACCATGTCTGGGACAGT-GGCAT
* *
84816723 CG-TATTTGATTTTGTGTAAGACCTTGTTTGGGACAGTGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGGCAT
*** * *
84816765 CGATATTTGATTACATGTAAGACTACGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTGGGACAG-TGGCAT
84816808 TGTATGAGCT
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 27 0.27
43 49 0.49
44 23 0.23
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (43 bp):
CGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:84828973 original size:13 final size:13
Alignment explanation
Indices: 84828965--84828989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84828955 TGAAATTAAT
84828965 AATAAAAATAAAA
1 AATAAAAATAAAA
84828978 AATAAAAATAAA
1 AATAAAAATAAA
84828990 CTTTCTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:84838060 original size:63 final size:65
Alignment explanation
Indices: 84837939--84838072 Score: 184
Period size: 64 Copynumber: 2.1 Consensus size: 65
84837929 ATAAAAATGG
* * * *
84837939 TGAAAATGGATAAATGAGAAATCATTTGAAAATTATTTTGGTTTCTCCAAAATGAAAAT-GAAAA
1 TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGGTTTCTCCAAAATAAAAATGGAAAA
* *
84838003 TGAAAATGGATAAAT-AG-AATTATTTGGAAATGAATGTGGTTTTCTCCAAAATAAAAATGGAAA
1 TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGG-TTTCTCCAAAATAAAAATGGAAA
84838066 A
65 A
84838067 TGAAAA
1 TGAAAA
84838073 ATGAAAATGA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 17 0.27
63 19 0.31
64 26 0.42
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (65 bp):
TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGGTTTCTCCAAAATAAAAATGGAAAA
Found at i:84839040 original size:134 final size:134
Alignment explanation
Indices: 84838800--84839069 Score: 513
Period size: 134 Copynumber: 2.0 Consensus size: 134
84838790 GACACAGTTA
84838800 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
1 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
* * *
84838865 TAAGACTAGAATTCAATTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66 TAAGACGAGAATCCAATTGCTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
84838930 GGTC
131 GGTC
84838934 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
1 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
84838999 TAAGACGAGAATCCAATTGCTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66 TAAGACGAGAATCCAATTGCTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
84839064 GGTC
131 GGTC
84839068 TA
1 TA
84839070 TTATAATTAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (134 bp):
TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
TAAGACGAGAATCCAATTGCTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
GGTC
Found at i:84841204 original size:48 final size:48
Alignment explanation
Indices: 84840955--84841222 Score: 315
Period size: 48 Copynumber: 5.6 Consensus size: 48
84840945 TAAAGTACCA
* * ** *
84840955 ATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCCCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACCG
* *
84841003 ATGCCATGTCCCAGACATGGTCTTACATAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* *
84841051 ATACCATGTCCCAGACATGGTTTTACACAGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * *
84841099 ACGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * * * **
84841147 ATGCTATGTCCCAGACATGGTCTTACATAGGCACACGTCTAGAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATAT-CATCACCG
* *
84841195 ATGCCATGTCCTAGACATGGACTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
84841223 GGGATCTCAT
Statistics
Matches: 190, Mismatches: 28, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
47 2 0.01
48 186 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
Found at i:84841221 original size:144 final size:144
Alignment explanation
Indices: 84840957--84841222 Score: 356
Period size: 144 Copynumber: 1.8 Consensus size: 144
84840947 AAGTACCAAT
* * * * *
84840957 GCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCCCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCACCAATGCCATGTCCCAGACATG
**
84841022 GTCTTACATAGGCACACATATCATCGCCGATACCATGTCCCAGACATGGTTTTACACAGGCACAC
66 GTCTTACATAGGCACACATATCATCGCCGATACCATGTCCCAGACATGGACTTACACAGGCACAC
84841087 ATATCATCACCGAC
131 ATATCATCACCGAC
* * *
84841101 GCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCACCAATGCTATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACATCAAGC-CACATATCATCACCAATGCCATGTCCCAGACAT
* * * * * *
84841165 GGTCTTACATAGGCACACGTCTAGAT-GTCGATGCCATGTCCTAGACATGGACTTACAC
65 GGTCTTACATAGGCACACATAT-CATCGCCGATACCATGTCCCAGACATGGACTTACAC
84841223 GGGATCTCAT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 2 0.02
144 100 0.96
145 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (144 bp):
GCCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCACCAATGCCATGTCCCAGACATG
GTCTTACATAGGCACACATATCATCGCCGATACCATGTCCCAGACATGGACTTACACAGGCACAC
ATATCATCACCGAC
Found at i:84843215 original size:27 final size:27
Alignment explanation
Indices: 84843185--84843274 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
84843175 TTCAAAGAAT
*
84843185 GCCACAAAGGCTTCCTTATCATAGATC
1 GCCACAAAGGCTTCCTTTTCATAGATC
*
84843212 GCCACAAAGGCTTCCTTTTCATAGCTC
1 GCCACAAAGGCTTCCTTTTCATAGATC
* * *
84843239 GCCAGAAAGGATTCATTTTCATAGATC
1 GCCACAAAGGCTTCCTTTTCATAGATC
**
84843266 AACACAAAG
1 GCCACAAAG
84843275 ATCACCACAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTCATAGATC
Found at i:84843314 original size:66 final size:67
Alignment explanation
Indices: 84843207--84843341 Score: 166
Period size: 66 Copynumber: 2.0 Consensus size: 67
84843197 TCCTTATCAT
* * *
84843207 AGATCGCCACAAAGGCTTCCTTTTCATAGCTCGCCAGAAAGG-ATTCATTTTCATAGATCAACAC
1 AGATCACCACAAAAGCTTCCTTTTCATAGATCGCCAGAAAGGCATTCATTTTCATAGATCAACAC
84843271 AA
66 AA
* * * * **
84843273 AGATCACCACAAAAGC-TCTCTTTTCATAGATTGCCATAAAGGCTTTTATTTTCATAGATCGTCA
1 AGATCACCACAAAAGCTTC-CTTTTCATAGATCGCCAGAAAGGCATTCATTTTCATAGATCAACA
84843337 CAA
65 CAA
84843340 AG
1 AG
84843342 GCTTTCTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
65 2 0.03
66 34 0.59
67 22 0.38
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (67 bp):
AGATCACCACAAAAGCTTCCTTTTCATAGATCGCCAGAAAGGCATTCATTTTCATAGATCAACAC
AA
Found at i:84843363 original size:27 final size:27
Alignment explanation
Indices: 84843270--84843360 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
84843260 TAGATCAACA
* * *
84843270 CAAAGATCACCACAAAAGCTCTCTTTT
1 CAAAGATCGCCACAAAGGCTTTCTTTT
* * * *
84843297 CATAGATTGCCATAAAGGCTTTTATTTT
1 CAAAGATCGCCACAAAGGC-TTTCTTTT
* *
84843325 CATAGATCGTCACAAAGGCTTTCTTTT
1 CAAAGATCGCCACAAAGGCTTTCTTTT
84843352 CAAAGATCG
1 CAAAGATCG
84843361 TCATAAAGAC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
27 29 0.57
28 22 0.43
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (27 bp):
CAAAGATCGCCACAAAGGCTTTCTTTT
Found at i:84843368 original size:27 final size:28
Alignment explanation
Indices: 84843291--84843368 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
84843281 ACAAAAGCTC
* *
84843291 TCTTTTCATAGATTGCCATAAAGGCTTT
1 TCTTTTCATAGATCGTCATAAAGGCTTT
* *
84843319 TATTTTCATAGATCGTCACAAAGGC-TT
1 TCTTTTCATAGATCGTCATAAAGGCTTT
*
84843346 TCTTTTCAAAGATCGTCATAAAG
1 TCTTTTCATAGATCGTCATAAAG
84843369 ACTTCCATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.51
28 21 0.49
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (28 bp):
TCTTTTCATAGATCGTCATAAAGGCTTT
Found at i:84843369 original size:94 final size:93
Alignment explanation
Indices: 84843186--84843359 Score: 208
Period size: 94 Copynumber: 1.9 Consensus size: 93
84843176 TCAAAGAATG
* * * *
84843186 CCACAAAGGCTTCCTTATCATAGATCGCCACAAAGGCTTCCTTTTCATAGCTCGCCAGAAAGGAT
1 CCACAAAAGCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGAT
*
84843251 TCATTTTCATAGATCAACACAAAGATCA
66 TCATTTTCAAAGATCAACACAAAGATCA
* * * * *
84843279 CCACAAAAGC-TCTCTTTTCATAGATTGCCATAAAGGCTTTTATTTTCATAGATCGTCACAAAGG
1 CCACAAAAGCTTC-CTTATCATAGATCGCCACAAAGGC-TTCATTTTCATAGATCGCCACAAAGG
*
84843343 CTTTC-TTTTCAAAGATC
64 -ATTCATTTTCAAAGATC
84843360 GTCATAAAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
92 2 0.03
93 30 0.45
94 32 0.48
95 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (93 bp):
CCACAAAAGCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGAT
TCATTTTCAAAGATCAACACAAAGATCA
Found at i:84849488 original size:23 final size:25
Alignment explanation
Indices: 84849462--84849508 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
84849452 TATCATTCAT
*
84849462 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
84849485 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
84849509 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:84849782 original size:45 final size:45
Alignment explanation
Indices: 84849733--84849921 Score: 114
Period size: 46 Copynumber: 4.2 Consensus size: 45
84849723 TCCCATCCAC
* * * *
84849733 GGTCTTATTTATCTTTGACGTGATGCCATAGCGTCTTTCAACTAT
1 GGTCTTATTCATCTTTGACATGATGCCATAGCATCTTTCAACCAT
* * * * * *
84849778 GGTCTTACTCATTTTTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATCTTTGACATGATGCCATAGCATCTTTCAACCAT
* * * * *
84849823 GGTCTTATTC-TTTTCATGTCACT-TTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATCTT--TGACA-TGATGCCATAGCATCTTTCAACCAT
** * * * * *
84849869 GGTCTTACACATCTCAT-ATCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATCT-TTGA-CATGATGCCATAGCATCTTTCAACCAT
84849915 GGTCTTA
1 GGTCTTA
84849922 CACATTTCAT
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
44 4 0.03
45 44 0.37
46 69 0.57
47 3 0.03
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (45 bp):
GGTCTTATTCATCTTTGACATGATGCCATAGCATCTTTCAACCAT
Found at i:84849858 original size:46 final size:46
Alignment explanation
Indices: 84849766--84850020 Score: 339
Period size: 46 Copynumber: 5.7 Consensus size: 46
84849756 TGCCATAGCG
* * * * *
84849766 TCTTTCAACTATGGTCTTACTCATTT-TTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
** * * **
84849811 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACTTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
84849857 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
84849903 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
84849949 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
84849987 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
84850021 AGAGCACACT
Statistics
Matches: 187, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.18
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 24 0.13
46 121 0.65
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:84849985 original size:38 final size:38
Alignment explanation
Indices: 84849934--84850009 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
84849924 CATTTCATAT
84849934 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
84849972 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
84850010 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:84861805 original size:6 final size:6
Alignment explanation
Indices: 84861796--84861830 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
84861786 TTTTAGAATT
* *
84861796 AGATTC AGATTT AGATTC AGATTC AGATTT AGATT
1 AGATTC AGATTC AGATTC AGATTC AGATTC AGATT
84861831 AAAATAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (6 bp):
AGATTC
Found at i:84861829 original size:18 final size:18
Alignment explanation
Indices: 84861776--84861830 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
84861766 ATATACACAA
* *
84861776 TCAGATACAGTTTTAGAAT
1 TCAGATTCAGATTTAG-AT
84861795 T-AGATTCAGATTTAGAT
1 TCAGATTCAGATTTAGAT
84861812 TCAGATTCAGATTTAGAT
1 TCAGATTCAGATTTAGAT
84861830 T
1 T
84861831 AAAATAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 3 0.09
18 29 0.88
19 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (18 bp):
TCAGATTCAGATTTAGAT
Found at i:84876732 original size:2 final size:2
Alignment explanation
Indices: 84876725--84876749 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84876715 TTGATTTGTA
84876725 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
84876750 ATGCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84883182 original size:19 final size:19
Alignment explanation
Indices: 84883158--84883194 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84883148 CACATGGTGT
*
84883158 GTGCCCCGACTGTGTGGAA
1 GTGCCCAGACTGTGTGGAA
*
84883177 GTGCCCAGGCTGTGTGGA
1 GTGCCCAGACTGTGTGGA
84883195 GGCCTACACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.41, T:0.22
Consensus pattern (19 bp):
GTGCCCAGACTGTGTGGAA
Found at i:84886858 original size:27 final size:27
Alignment explanation
Indices: 84886828--84886888 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
84886818 GAAAAAAGTC
84886828 CAAGTGACTTGATTCATCAGCATATGA
1 CAAGTGACTTGATTCATCAGCATATGA
84886855 CAAGTGACTTGATTCATCAGCATATGA
1 CAAGTGACTTGATTCATCAGCATATGA
*
84886882 CATGTGA
1 CAAGTGA
84886889 TAGTTAGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (27 bp):
CAAGTGACTTGATTCATCAGCATATGA
Found at i:84891089 original size:12 final size:12
Alignment explanation
Indices: 84891072--84891097 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84891062 CACCGTAGAC
84891072 GGCACAAATAGG
1 GGCACAAATAGG
84891084 GGCACAAATAGG
1 GGCACAAATAGG
84891096 GG
1 GG
84891098 TGGCATAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.08
Consensus pattern (12 bp):
GGCACAAATAGG
Found at i:84891137 original size:22 final size:21
Alignment explanation
Indices: 84891103--84891145 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
84891093 AGGGGTGGCA
*
84891103 TAAGGAAGGATTTAAGGGCTTT
1 TAAGGAACGATTTAA-GGCTTT
* *
84891125 TAAGGAACTATTTTAGGCTTT
1 TAAGGAACGATTTAAGGCTTT
84891146 AAAAAAAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (21 bp):
TAAGGAACGATTTAAGGCTTT
Found at i:84896227 original size:25 final size:26
Alignment explanation
Indices: 84896185--84896247 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
84896175 GGAAGAAATG
**
84896185 AAAC-AAAA-AAAAAATCTAATTTAA
1 AAACAAAAAGAAAAAATCTAACCTAA
* *
84896209 AAA-GAAAAGAAAATATCTAACCTAA
1 AAACAAAAAGAAAAAATCTAACCTAA
84896234 AAACAAAAAGAAAA
1 AAACAAAAAGAAAA
84896248 CAAACCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.22
25 16 0.50
26 9 0.28
ACGTcount: A:0.71, C:0.10, G:0.05, T:0.14
Consensus pattern (26 bp):
AAACAAAAAGAAAAAATCTAACCTAA
Found at i:84900576 original size:29 final size:29
Alignment explanation
Indices: 84900543--84900616 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
84900533 GTGACGAGAT
84900543 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
84900572 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
84900601 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84900617 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:84900632 original size:29 final size:29
Alignment explanation
Indices: 84900600--84900675 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
84900590 CTGGAAATAT
* *
84900600 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
84900629 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
84900658 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
84900676 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:84900643 original size:58 final size:58
Alignment explanation
Indices: 84900543--84900675 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
84900533 GTGACGAGAT
* * * * * *
84900543 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
84900601 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
84900659 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
84900676 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:84908448 original size:29 final size:29
Alignment explanation
Indices: 84908415--84908488 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
84908405 GTGACGAGAT
84908415 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
84908444 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
84908473 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84908489 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:84908504 original size:29 final size:29
Alignment explanation
Indices: 84908472--84908547 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
84908462 CTGGAAATAT
* *
84908472 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
84908501 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
84908530 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
84908548 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:84912493 original size:25 final size:25
Alignment explanation
Indices: 84912460--84912517 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
84912450 GTATCATTAA
* *
84912460 ATATAATTAAAATTAAATTTATTA-TT
1 ATAT-ATTAAAAATAAA-ATATTATTT
84912486 ATATATTAAAAATAAAATATTATTT
1 ATATATTAAAAATAAAATATTATTT
84912511 ATATATT
1 ATATATT
84912518 TTTTGAGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATATTAAAAATAAAATATTATTT
Found at i:84912850 original size:23 final size:25
Alignment explanation
Indices: 84912824--84912883 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
84912814 TATATTATAT
84912824 GAATTTTATATATA-AAGAAAA-TG
1 GAATTTTATATATATAAGAAAACTG
* *
84912847 GAATATTATAAATATAAGAAAACTG
1 GAATTTTATATATATAAGAAAACTG
*
84912872 AAATATTTATAT
1 GAAT-TTTATAT
84912884 TTTGATTGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 12 0.41
24 7 0.24
25 5 0.17
26 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (25 bp):
GAATTTTATATATATAAGAAAACTG
Found at i:84917768 original size:68 final size:66
Alignment explanation
Indices: 84917656--84917920 Score: 228
Period size: 68 Copynumber: 3.9 Consensus size: 66
84917646 TACATATCGG
* **
84917656 CTATGTCAACAAATAGAGTCCACTAGGACAATAAACATGAGGTTATATTGTGTAAGATTATAGCA
1 CTATGTCAACAAATA-AGTCCACTAGGACGATAAACATG-GGTTATATTGTGTAAGACCATAGCA
* *
84917721 TGC
64 CGA
* *
84917724 CTATGTCAACAAATATAGTCCACCAGGACGATAAACATAGGGTTATATTATGTAAGACCATAGCA
1 CTATGTCAACAAATA-AGTCCACTAGGACGATAAACAT-GGGTTATATTGTGTAAGACCATAGCA
84917789 CGA
64 CGA
** * ** ** *
84917792 CTATGGAAACAAATGAAGTTCGTTATAACGATAAACATGGGTTATATTGTGTAAGACCATAGCTC
1 CTATGTCAACAAAT-AAGTCCACTAGGACGATAAACATGGGTTATATTGTGTAAGACCATAGCAC
84917857 -A
65 GA
* * * * * * * * *
84917858 GCTATGACAACATATGGAGTTCACCAGAAC-ATTAAACATGGGGTATGTTGTGTAAGACAATAG
1 -CTATGTCAACAAAT-AAGTCCACTAGGACGA-TAAACATGGGTTATATTGTGTAAGACCATAG
84917921 TTAGGTTAAG
Statistics
Matches: 164, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
66 2 0.01
67 74 0.45
68 86 0.52
69 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (66 bp):
CTATGTCAACAAATAAGTCCACTAGGACGATAAACATGGGTTATATTGTGTAAGACCATAGCACG
A
Found at i:84917863 original size:67 final size:67
Alignment explanation
Indices: 84917686--84917920 Score: 226
Period size: 67 Copynumber: 3.5 Consensus size: 67
84917676 CACTAGGACA
** * * * *
84917686 ATAAACATGAGGTTATATTGTGTAAGATTATAGCATGCCTATGTCAACAAAT-ATAGTCCACCAG
1 ATAAACATG-GGTTATATTGTGTAAGACCATAGCACGACTATGACAACAAATGA-AGTTCACCAG
*
84917750 GACG
64 AACG
* *** *
84917754 ATAAACATAGGGTTATATTATGTAAGACCATAGCACGACTATGGA-AACAAATGAAGTTCGTTAT
1 ATAAACAT-GGGTTATATTGTGTAAGACCATAGCACGACTAT-GACAACAAATGAAGTTCACCAG
84917818 AACG
64 AACG
* * *
84917822 ATAAACATGGGTTATATTGTGTAAGACCATAGCTC-AGCTATGACAACATATGGAGTTCACCAGA
1 ATAAACATGGGTTATATTGTGTAAGACCATAGCACGA-CTATGACAACAAATGAAGTTCACCAGA
84917886 AC-
65 ACG
* * *
84917888 ATTAAACATGGGGTATGTTGTGTAAGACAATAG
1 A-TAAACATGGGTTATATTGTGTAAGACCATAG
84917921 TTAGGTTAAG
Statistics
Matches: 138, Mismatches: 23, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
66 4 0.03
67 73 0.53
68 58 0.42
69 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (67 bp):
ATAAACATGGGTTATATTGTGTAAGACCATAGCACGACTATGACAACAAATGAAGTTCACCAGAA
CG
Found at i:84918988 original size:41 final size:41
Alignment explanation
Indices: 84918908--84918998 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
84918898 AGTTAACTCG
* **
84918908 TATGAGTTTTAGTTTAACCTATTGGGTTTCTGTTCAGCT-C
1 TATGAGCTTTAGTTTAACCTATTGGGTTTCCATTCAGCTCC
* * * *
84918948 TCTGAGCTTTATTTTAATCCTTTTGGGTTTCCATTTAGCTCC
1 TATGAGCTTTAGTTTAA-CCTATTGGGTTTCCATTCAGCTCC
84918990 TATGAGCTT
1 TATGAGCTT
84918999 CTGTTCAACC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 14 0.34
41 18 0.44
42 9 0.22
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (41 bp):
TATGAGCTTTAGTTTAACCTATTGGGTTTCCATTCAGCTCC
Found at i:84931004 original size:5 final size:5
Alignment explanation
Indices: 84930989--84931018 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
84930979 ATGTGTGTTT
84930989 TTTTAA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
84931019 TCACAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:84931682 original size:16 final size:15
Alignment explanation
Indices: 84931661--84931690 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
84931651 TTAAGAATTT
84931661 AAATAAAATAATTTTA
1 AAAT-AAATAATTTTA
84931677 AAATAAATAATTTT
1 AAATAAATAATTTT
84931691 GACACTCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATAAATAATTTTA
Found at i:84934345 original size:29 final size:28
Alignment explanation
Indices: 84934311--84934413 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
84934301 TACTCAATCA
*
84934311 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
84934340 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
84934369 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
84934398 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
84934414 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:84936873 original size:46 final size:46
Alignment explanation
Indices: 84936781--84936993 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 46
84936771 GTGCCAATGC
**
84936781 CATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTATGTCTCG-AGGCCGATG
*
84936826 CATGTCTCAGACATGTCTTACACTAGCTTATGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAGGCCGATG
* * ** *
84936872 CATGTCCCAAACATGTCTTACACTAGC--ACTCGTCTCAATACTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTA-T-GTCTCGAGGCCGATG
* * ** *
84936918 CCATGTCCCAGACATGGTCTTACATTGGCTCTCAT-AAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCT-T-ATGTCTCGAGGCCGATG
*
84936966 CATGTCCTAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
84936994 CACACGAGTG
Statistics
Matches: 134, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.09
45 16 0.12
46 61 0.46
47 26 0.19
48 16 0.12
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAGGCCGATG
Found at i:84944458 original size:46 final size:44
Alignment explanation
Indices: 84944363--84944582 Score: 174
Period size: 46 Copynumber: 4.8 Consensus size: 44
84944353 ATATCTGTGC
* * * *
84944363 CGATGCCATGTCCCAGACATGGTCTTACACT-GACACATGTCGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCGTCTCGAGGT
84944409 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-T-CGTCTCGAGGT
* * * ***
84944455 CGATGCATGTACCAAACATGTCTTACACTAGCACTCGTCTCAATAC
1 CGATGCATGTCCCAGACATGTCTTACACTAG--CTCGTCTCGAGGT
* * * **
84944501 CGATGCCATGTCCCAAACATGGTTTTACACTGGCTC-TCATAATATGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGTC-T-CGA-GGT
*
84944549 CGATGCATGTCCTAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
84944583 ACACGAGTGA
Statistics
Matches: 142, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 71 0.50
47 27 0.19
48 16 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCGTCTCGAGGT
Found at i:84946336 original size:22 final size:22
Alignment explanation
Indices: 84946297--84946338 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
84946287 ATAACATAGA
**
84946297 TTTAATAAATGCTGAAAAATAT
1 TTTAATAAATGCAAAAAAATAT
84946319 TTTAATAAATGCAAAAAAAT
1 TTTAATAAATGCAAAAAAAT
84946339 TAAACTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (22 bp):
TTTAATAAATGCAAAAAAATAT
Found at i:84949858 original size:64 final size:64
Alignment explanation
Indices: 84949785--84949995 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
84949775 CTGGGCCAGA
*
84949785 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
84949849 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
84949911 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
84949922 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGTTAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
84949986 GCCCATTTCA
1 GCCCATTTCA
84949996 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:84949997 original size:137 final size:137
Alignment explanation
Indices: 84949751--84950037 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
84949741 TATTGGGCCT
** *
84949751 AAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
84949816 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
84949881 CATATGC
131 CACATGC
84949888 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
84949953 AGCCCCTTATTCAGTTAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
84950018 CACATGC
131 CACATGC
84950025 AAGCCCATTTGGG
1 AAGCCCATTTGGG
84950038 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CACATGC
Found at i:84951913 original size:25 final size:26
Alignment explanation
Indices: 84951819--84951927 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
84951809 CATGAAATTC
84951819 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84951845 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84951871 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
84951897 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84951922 TTATCA
1 TTATCA
84951928 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84955795 original size:64 final size:64
Alignment explanation
Indices: 84955722--84955932 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
84955712 CTGGGCCAGA
*
84955722 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
84955786 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
84955848 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
84955859 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
84955923 GCCCATTTCA
1 GCCCATTTCA
84955933 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:84955934 original size:137 final size:137
Alignment explanation
Indices: 84955688--84955974 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
84955678 TATTGGGCCT
**
84955688 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
84955753 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
84955818 CATATGC
131 CATATGC
84955825 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
84955890 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
84955955 CATATGC
131 CATATGC
84955962 AAGCCCATTTGGG
1 AAGCCCATTTGGG
84955975 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:84957845 original size:25 final size:26
Alignment explanation
Indices: 84957751--84957859 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
84957741 CATGAAATTC
84957751 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84957777 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84957803 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
84957829 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84957854 TTATCA
1 TTATCA
84957860 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84986401 original size:26 final size:25
Alignment explanation
Indices: 84986365--84986500 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 25
84986355 TGATACAAAT
*
84986365 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTC-A
*
84986391 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
84986417 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
84986443 TGATAATGGGTTAGGTAAATGTGTCA
1 TGATAATGGGTTAGGTAAATGT-TCA
84986469 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
84986495 TGATAA
1 TGATAA
84986501 GAATATCATG
Statistics
Matches: 105, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
25 1 0.01
26 100 0.95
27 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:84989899 original size:2 final size:2
Alignment explanation
Indices: 84989888--84989919 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
84989878 ATTAAATAAA
84989888 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84989920 AGTTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84990420 original size:20 final size:20
Alignment explanation
Indices: 84990397--84990485 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
84990387 AAATCTAAAT
*
84990397 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
84990417 TAAAAT-C--AAATCCA-AA
1 TAAAATACTGAAATTCAGGA
*
84990433 TTAAAATACTGAAATTTAGGA
1 -TAAAATACTGAAATTCAGGA
* *
84990454 TAAAATCCTGAAATTTAGGA
1 TAAAATACTGAAATTCAGGA
84990474 TAAGAATACTGA
1 TAA-AATACTGA
84990486 TGTGGAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.21
18 1 0.02
19 1 0.02
20 33 0.59
21 8 0.14
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:84990434 original size:37 final size:37
Alignment explanation
Indices: 84990381--84990460 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
84990371 TTATCCTAAA
*
84990381 AAAATCAAATCTAAATTAAAATACTAAAATTCAGGAT
1 AAAATCAAATCCAAATTAAAATACTAAAATTCAGGAT
* *
84990418 AAAATCAAATCCAAATTAAAATACTGAAATTTAGGAT
1 AAAATCAAATCCAAATTAAAATACTAAAATTCAGGAT
84990455 AAAATC
1 AAAATC
84990461 CTGAAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.26
Consensus pattern (37 bp):
AAAATCAAATCCAAATTAAAATACTAAAATTCAGGAT
Found at i:84991644 original size:11 final size:10
Alignment explanation
Indices: 84991626--84991681 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
84991616 TTGTTGTTTG
84991626 ATTTTAATTT
1 ATTTTAATTT
84991636 ATCTTTAATTTT
1 AT-TTTAA-TTT
*
84991648 ATGTTAATTT
1 ATTTTAATTT
*
84991658 AATTTAATTT
1 ATTTTAATTT
84991668 AATTCTTAATTT
1 -ATT-TTAATTT
84991680 AT
1 AT
84991682 GTTCTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 13 0.34
11 13 0.34
12 12 0.32
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
ATTTTAATTT
Found at i:84991656 original size:22 final size:23
Alignment explanation
Indices: 84991629--84991681 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
84991619 TTGTTTGATT
* * *
84991629 TTAATTTATCTTTAATTTTA-TG
1 TTAATTTATATTTAATTTAATTC
84991651 TTAATTTA-ATTTAATTTAATTC
1 TTAATTTATATTTAATTTAATTC
84991673 TTAATTTAT
1 TTAATTTAT
84991682 GTTCTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTAATTTATATTTAATTTAATTC
Found at i:84991661 original size:5 final size:5
Alignment explanation
Indices: 84991628--84991671 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
84991618 GTTGTTTGAT
* *
84991628 TTTAA TTTATC TTTAA TTTTA TGTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTA-A TTTAA TTTAA T-TTAA TTTAA TTTAA TTTAA TT
84991672 CTTAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 25 0.76
6 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:84991664 original size:10 final size:10
Alignment explanation
Indices: 84991628--84991671 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
84991618 GTTGTTTGAT
*
84991628 TTTAATTTATC
1 TTTAATTTA-A
*
84991639 TTTAATTTTA
1 TTTAATTTAA
84991649 TGTTAATTTAA
1 T-TTAATTTAA
84991660 TTTAATTTAA
1 TTTAATTTAA
84991670 TT
1 TT
84991672 CTTAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 12 0.41
11 17 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTAATTTAA
Found at i:84996607 original size:39 final size:39
Alignment explanation
Indices: 84996540--84996839 Score: 478
Period size: 39 Copynumber: 7.7 Consensus size: 39
84996530 ACAAAGCATG
* * *
84996540 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
84996580 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
84996620 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
84996659 CGGG-CTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
84996697 CGGGACTTAGCCCGGATATAACACGAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
84996736 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
84996775 CAGGATTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
84996814 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
84996840 TTATAAAGTC
Statistics
Matches: 245, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
38 38 0.16
39 187 0.76
40 20 0.08
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Done.