Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 218 of 310
Found at i:71524159 original size:22 final size:23
Alignment explanation
Indices: 71524129--71524175 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
71524119 AAGTGGGTTA
71524129 TTTACATGTTTAGGG-CTTAGGG
1 TTTACATGTTTAGGGTCTTAGGG
* *
71524151 TTTAGATGTTTAGGGTTTTAGGG
1 TTTACATGTTTAGGGTCTTAGGG
71524174 TT
1 TT
71524176 AGGATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (23 bp):
TTTACATGTTTAGGGTCTTAGGG
Found at i:71524286 original size:28 final size:28
Alignment explanation
Indices: 71524233--71524334 Score: 89
Period size: 28 Copynumber: 3.4 Consensus size: 28
71524223 GATTTTGGAG
* * *
71524233 AAAATAAATTGGGTTTTAGGAATTTTAA
1 AAAATAAATTAGGTTTTATGATTTTTAA
71524261 AAAATAAATTAGGTTTTATGATTTTTTTTAAA
1 AAAATAAATTAGGTTTTATGA---TTTTT-AA
* *
71524293 ATAAATTAAATTAGGATTTATTG-TTTATAA
1 A-AAA-TAAATTAGGTTTTA-TGATTTTTAA
71524323 AAAATAAATTAG
1 AAAATAAATTAG
71524335 AGCCTAGGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
28 27 0.44
29 3 0.05
30 3 0.05
31 8 0.13
32 3 0.05
33 3 0.05
34 13 0.21
35 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (28 bp):
AAAATAAATTAGGTTTTATGATTTTTAA
Found at i:71524611 original size:125 final size:127
Alignment explanation
Indices: 71524447--71524716 Score: 372
Period size: 125 Copynumber: 2.2 Consensus size: 127
71524437 TTTTGTTCAG
** *
71524447 TCAGCAAAAGTACT-AAAAAAGCTCCCAGCTGGATGCTATTTTTCTAAAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTATTTTTCTAAAGTAGTTTCTAAAAAAA
* * *
71524511 TAATTTTGAGAAGATGATTCTGAAAAA-TAGGGTCAAAAA-TGCTTTAAGCATGATGCACT-T
66 TAATTTTGAGAAGATGATTCTAAAAAATTAGGGT-AAAAAGTGCTTCAAGCAGGATGCACTGT
* * *
71524571 TCAGCAAAAATATTGAAAAAAGCTCCCA-CATGGACACTATTTTTCTATAGTAGTTTCTAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCAGC-TGGACACTATTTTTCTAAAGTAGTTTCTAAAAAA
* * *
71524635 ATAATTTTGAGAAGATGGTTCTAAAAAATTAGTGTAAAAAGTGCTTCAAGCAGGATGTACTGT
65 ATAATTTTGAGAAGATGATTCTAAAAAATTAGGGTAAAAAGTGCTTCAAGCAGGATGCACTGT
71524698 T-AGCAAAAGTACTGAAAAA
1 TCAGCAAAAGTACTGAAAAA
71524717 TGGAAGAGTG
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
124 13 0.10
125 74 0.58
126 38 0.30
127 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (127 bp):
TCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTATTTTTCTAAAGTAGTTTCTAAAAAAA
TAATTTTGAGAAGATGATTCTAAAAAATTAGGGTAAAAAGTGCTTCAAGCAGGATGCACTGT
Found at i:71525739 original size:58 final size:59
Alignment explanation
Indices: 71525628--71525756 Score: 158
Period size: 58 Copynumber: 2.2 Consensus size: 59
71525618 TCTATTACCT
* * *
71525628 TATTTAAAACAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTATAAATA
1 TATTTAAAA-AAATTCTATTTTATTAAATA-GACAAAATATAAAAACAATTTGTACAAATA
*
71525689 TATTTAAAAAAATT-TGATTTTATTAAAT-GA-AATAATATAAAAACAGTTTGTACAAATA
1 TATTTAAAAAAATTCT-ATTTTATTAAATAGACAA-AATATAAAAACAATTTGTACAAATA
71525747 TA-TTAAAAAA
1 TATTTAAAAAA
71525757 TCAATACATG
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
57 10 0.16
58 26 0.42
59 1 0.02
60 16 0.26
61 9 0.15
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (59 bp):
TATTTAAAAAAATTCTATTTTATTAAATAGACAAAATATAAAAACAATTTGTACAAATA
Found at i:71528241 original size:29 final size:30
Alignment explanation
Indices: 71528183--71528243 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
71528173 TTTTGGCCCA
** *
71528183 TTCCGATAAATAAAGTTTAAAGTGGCCCAT
1 TTCCGATAAATAAAGTGGAAAGTGGACCAT
71528213 TTCCG-TAAATAAAGTAGGAAA-TGGACCAT
1 TTCCGATAAATAAAGT-GGAAAGTGGACCAT
71528242 TT
1 TT
71528244 TTAGTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (30 bp):
TTCCGATAAATAAAGTGGAAAGTGGACCAT
Found at i:71530077 original size:16 final size:16
Alignment explanation
Indices: 71530056--71530102 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
71530046 TTTAACTGCC
71530056 AAATTAAATTAATTCA
1 AAATTAAATTAATTCA
71530072 AAATTAAATTAATTCA
1 AAATTAAATTAATTCA
*
71530088 AAATTAATTTAATTC
1 AAATTAAATTAATTC
71530103 TTGTGACAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAATTCA
Found at i:71540780 original size:19 final size:19
Alignment explanation
Indices: 71540747--71540838 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
71540737 AATCATATAT
*
71540747 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
71540766 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
71540785 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
71540804 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
71540823 TCTAAGATTGAATATC
1 TCTAAGATTGCATATC
71540839 CTCAAAAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:71540797 original size:38 final size:38
Alignment explanation
Indices: 71540724--71540838 Score: 140
Period size: 38 Copynumber: 2.9 Consensus size: 38
71540714 AAATTAAATC
* *
71540724 TCTAAGATTATAAAATCATATATTCTAATATTGCATATCATA
1 TCTAAGATTAT-ATATC--ATA-TCTAAGATTGCATATCATA
71540766 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
* ** *
71540804 TCTAGGATTGCATATCATATCTAAGATTGAATATC
1 TCTAAGATTATATATCATATCTAAGATTGCATATC
71540839 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 49 0.73
39 3 0.04
41 4 0.06
42 11 0.16
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTATATATCATATCTAAGATTGCATATCATA
Found at i:71546055 original size:53 final size:53
Alignment explanation
Indices: 71545975--71546083 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
71545965 TTAATCCCGA
*
71545975 AAATAATCCTATTAACTTTGCCATTCCTGACTTTGATGAAGTGGTTGAGAAGG
1 AAATAATCCTATTAACTTTGCCATTCCTGACTTTGATGAAGTGGTTGAGAAAG
71546028 AAATAATCCTATTAACTTTGCCATTCCTGACTTTGATGAAGTGGTTGAGAAAG
1 AAATAATCCTATTAACTTTGCCATTCCTGACTTTGATGAAGTGGTTGAGAAAG
71546081 AAA
1 AAA
71546084 GAGTGAATGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (53 bp):
AAATAATCCTATTAACTTTGCCATTCCTGACTTTGATGAAGTGGTTGAGAAAG
Found at i:71552478 original size:57 final size:57
Alignment explanation
Indices: 71552390--71552504 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
71552380 CTGAGCTACA
* *
71552390 ATTGGATGAAGCGGAATGGGTTCAATCTCGATACGATTAGTTGAATTTGATAGAGGG
1 ATTGGATGAAGCGGAATGGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGG
71552447 ATTGGATGAAGCGGAATGGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGG
1 ATTGGATGAAGCGGAATGGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGG
71552504 A
1 A
71552505 AAGAGGCTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (57 bp):
ATTGGATGAAGCGGAATGGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGG
Found at i:71553882 original size:44 final size:44
Alignment explanation
Indices: 71553685--71553882 Score: 168
Period size: 45 Copynumber: 4.5 Consensus size: 44
71553675 GCAGGTTGAA
*
71553685 AGATAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
* * ** *
71553729 AGATACCAGATCTTGTCTCCCTGTACAGGCGGTGGAGTAGATC-G
1 AGATACCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAG
* * * * * * *
71553773 AAGAAAGCAGATCTTGCCTTCCCATACTAGTGGCG-G-AGCAGATCAA
1 -AGATACCAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATCAG
* * *
71553819 AGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
* *
71553863 AGATACCAGATTTTATCTTC
1 AGATACCAGATCTTGTCTTC
71553883 CCATATTGGT
Statistics
Matches: 119, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
42 7 0.06
43 4 0.03
44 49 0.41
45 50 0.42
46 1 0.01
47 3 0.03
48 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
Found at i:71554096 original size:44 final size:45
Alignment explanation
Indices: 71554033--71554130 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
71554023 CAGTAGAATC
* *
71554033 GATCGAAGAAAGCAGATCTTGTCTTCAT-GTATTGG-CGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTC-TCATACTGGTCGTGAAGTA
*
71554077 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
71554122 GATCGAAGA
1 GATCGAAGA
71554131 TACAAGTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 31 0.63
45 17 0.35
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
Found at i:71554207 original size:44 final size:43
Alignment explanation
Indices: 71554151--71554295 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 43
71554141 ATCTCCCTGA
*
71554151 AGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAAG
1 AGTTGCAATGGAGCAGACA-AAATAATCGGTCCTATCTCCCAAG
* ** * * *
71554195 AGTTGCAATGGAGTAGACTAAAACCA-CAGAT-CTCATCTCTC-TG
1 AGTTGCAATGGAGCAGAC-AAAATAATC-GGTCCT-ATCTCCCAAG
** *
71554238 AAGTTGCAGCGGAGCAGACAAAAATAATCGGTCCTATCTCCCAGG
1 -AGTTGCAATGGAGCAGAC-AAAATAATCGGTCCTATCTCCCAAG
71554283 AGTTGCAATGGAG
1 AGTTGCAATGGAG
71554296 TGGACTAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.05
44 67 0.88
45 5 0.07
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
AGTTGCAATGGAGCAGACAAAATAATCGGTCCTATCTCCCAAG
Found at i:71554267 original size:88 final size:88
Alignment explanation
Indices: 71554141--71554343 Score: 352
Period size: 88 Copynumber: 2.3 Consensus size: 88
71554131 TACAAGTCTT
* *
71554141 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
71554206 AGTAGACTAAAACCACAGATCTC
66 AGTAGACTAAAACCACAGATCTC
* *
71554229 ATCTCTCTGAAGTTGCAGCGGAGCAGACAAAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
*
71554294 AGTGGACTAAAACCACAGATCTC
66 AGTAGACTAAAACCACAGATCTC
*
71554317 ATCTCTCTGAAGTTGCAGTAGAGCAGA
1 ATCTCTCTGAAGTTGCAGTGGAGCAGA
71554344 TCACATTAGA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
AGTAGACTAAAACCACAGATCTC
Found at i:71554331 original size:44 final size:44
Alignment explanation
Indices: 71554195--71554333 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 44
71554185 ATCTCCCAAG
71554195 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
** * * ** * * * *
71554239 AGTTGCAGCGGAGCAGACAAAAATAATC-GGTC-CTATCTCCCAGG
1 AGTTGCAATGGAGTAGACTAAAACCA-CAGATCTC-ATCTCTCTGA
*
71554283 AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
71554327 AGTTGCA
1 AGTTGCA
71554334 GTAGAGCAGA
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 2 0.03
44 66 0.94
45 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (44 bp):
AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
Found at i:71554748 original size:44 final size:44
Alignment explanation
Indices: 71554681--71554766 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
71554671 GGCCCAATCG
* * *
71554681 GCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGACA
1 GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGACA
* * *
71554725 GCCCAAAACGGTCCCTAGCCCAACACTACAAAGTTAAGCAGA
1 GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
71554767 AAAACCCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (44 bp):
GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGACA
Found at i:71555670 original size:50 final size:50
Alignment explanation
Indices: 71555595--71555693 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
71555585 TGCTGCGCCG
71555595 CGTTCTGAGAGAATGGGTTAATTTCAATCTAGGTCCTCCTCTTGTTGCGA
1 CGTTCTGAGAGAATGGGTTAATTTCAATCTAGGTCCTCCTCTTGTTGCGA
* *
71555645 CGTTCTGAGAGAATGGGTTAATTTCAATCTGGGTCCTCTTCTTGTTGCG
1 CGTTCTGAGAGAATGGGTTAATTTCAATCTAGGTCCTCCTCTTGTTGCG
71555694 CGCTTTTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (50 bp):
CGTTCTGAGAGAATGGGTTAATTTCAATCTAGGTCCTCCTCTTGTTGCGA
Found at i:71555994 original size:22 final size:22
Alignment explanation
Indices: 71555968--71556009 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
71555958 TTTATTTTCA
71555968 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
71555990 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
71556010 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:71566703 original size:45 final size:45
Alignment explanation
Indices: 71566639--71566730 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
71566629 GAAGCGGAAT
* *
71566639 GGGTTCAATCTCGATACGATTAGTTGAATTTGATAGAGGGAAAGA
1 GGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGGAAAGA
71566684 GGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGGAAAGA
1 GGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGGAAAGA
71566729 GG
1 GG
71566731 CTAAAGGCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.27
Consensus pattern (45 bp):
GGGTTCAATCTCGATACGATTAATTGAATATGATAGAGGGAAAGA
Found at i:71568102 original size:44 final size:44
Alignment explanation
Indices: 71567905--71568102 Score: 168
Period size: 45 Copynumber: 4.5 Consensus size: 44
71567895 GCAGGTTGAA
*
71567905 AGATAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
* * ** *
71567949 AGATACCAGATCTTGTCTCCCTGTACAGGCGGTGGAGTAGATC-G
1 AGATACCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAG
* * * * * * *
71567993 AAGAAAGCAGATCTTGCCTTCCCATACTAGTGGCG-G-AGCAGATCAA
1 -AGATACCAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATCAG
* * *
71568039 AGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
* *
71568083 AGATACCAGATTTTATCTTC
1 AGATACCAGATCTTGTCTTC
71568103 CCATATTGGT
Statistics
Matches: 119, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
42 7 0.06
43 4 0.03
44 49 0.41
45 50 0.42
46 1 0.01
47 3 0.03
48 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
Found at i:71568316 original size:44 final size:45
Alignment explanation
Indices: 71568253--71568350 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
71568243 CAGTAGAATC
* *
71568253 GATCGAAGAAAGCAGATCTTGTCTTCAT-GTATTGG-CGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTC-TCATACTGGTCGTGAAGTA
*
71568297 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
71568342 GATCGAAGA
1 GATCGAAGA
71568351 TACAAGTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 31 0.63
45 17 0.35
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
Found at i:71568427 original size:44 final size:43
Alignment explanation
Indices: 71568371--71568515 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 43
71568361 ATCTCCCTGA
*
71568371 AGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAAG
1 AGTTGCAATGGAGCAGACA-AAATAATCGGTCCTATCTCCCAAG
* ** * * *
71568415 AGTTGCAATGGAGTAGACTAAAACCA-CAGAT-CTCATCTCTC-TG
1 AGTTGCAATGGAGCAGAC-AAAATAATC-GGTCCT-ATCTCCCAAG
** *
71568458 AAGTTGCAGCGGAGCAGACAAAAATAATCGGTCCTATCTCCCAGG
1 -AGTTGCAATGGAGCAGAC-AAAATAATCGGTCCTATCTCCCAAG
71568503 AGTTGCAATGGAG
1 AGTTGCAATGGAG
71568516 TGGACTAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.05
44 67 0.88
45 5 0.07
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
AGTTGCAATGGAGCAGACAAAATAATCGGTCCTATCTCCCAAG
Found at i:71568487 original size:88 final size:88
Alignment explanation
Indices: 71568361--71568563 Score: 352
Period size: 88 Copynumber: 2.3 Consensus size: 88
71568351 TACAAGTCTT
* *
71568361 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
71568426 AGTAGACTAAAACCACAGATCTC
66 AGTAGACTAAAACCACAGATCTC
* *
71568449 ATCTCTCTGAAGTTGCAGCGGAGCAGACAAAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
*
71568514 AGTGGACTAAAACCACAGATCTC
66 AGTAGACTAAAACCACAGATCTC
*
71568537 ATCTCTCTGAAGTTGCAGTAGAGCAGA
1 ATCTCTCTGAAGTTGCAGTGGAGCAGA
71568564 TCACATTAGA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
AGTAGACTAAAACCACAGATCTC
Found at i:71568551 original size:44 final size:44
Alignment explanation
Indices: 71568415--71568553 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 44
71568405 ATCTCCCAAG
71568415 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
** * * ** * * * *
71568459 AGTTGCAGCGGAGCAGACAAAAATAATC-GGTC-CTATCTCCCAGG
1 AGTTGCAATGGAGTAGACTAAAACCA-CAGATCTC-ATCTCTCTGA
*
71568503 AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
71568547 AGTTGCA
1 AGTTGCA
71568554 GTAGAGCAGA
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 2 0.03
44 66 0.94
45 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (44 bp):
AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
Found at i:71568968 original size:44 final size:44
Alignment explanation
Indices: 71568901--71568986 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
71568891 GGCCCAATCG
* * *
71568901 GCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGACA
1 GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGACA
* * *
71568945 GCCCAAAACGGTCCCTAGCCCAACACTACAAAGTTAAGCAGA
1 GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
71568987 AAAACCCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (44 bp):
GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGACA
Found at i:71570157 original size:18 final size:19
Alignment explanation
Indices: 71570121--71570159 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71570111 TTTATTTTCA
* *
71570121 TATTTTTTTAATTCATTGT
1 TATTTTTTAAAATCATTGT
71570140 TATTTTTTAAAATC-TTGT
1 TATTTTTTAAAATCATTGT
71570158 TA
1 TA
71570160 ATATTATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTTAAAATCATTGT
Found at i:71570252 original size:199 final size:199
Alignment explanation
Indices: 71569935--71570331 Score: 740
Period size: 199 Copynumber: 2.0 Consensus size: 199
71569925 CTTCATTTGC
*
71569935 CATTGTTATTTTTTAAAATCTTGTTAATATTATCATTGCATCCTCGTTATTATATTATGCATTAT
1 CATTGTTATTTTTTAAAATCTTGTTAATATTATCATTGCATCCTCATTATTATATTATGCATTAT
*
71570000 TTTTATTATCCTTATTATTTTCATGCACCTGCACGCATTTTTTATATATAATATATATACATACA
66 TTTTATTATCCTTATTATTTTCATGCACCTGCACGCATTTTTTATATATAATATATACACATACA
*
71570065 CTTTCTATAAATACATGTGCATTTTACATATATATATACATTATTATTTATTTTCATATTTTTTT
131 CTTTCTATAAATACATGCGCATTTTACATATATATATACATTATTATTTATTTTCATATTTTTTT
71570130 AATT
196 AATT
71570134 CATTGTTATTTTTTAAAATCTTGTTAATATTATCATTGCATCCTCATTATTATATTATGCATTAT
1 CATTGTTATTTTTTAAAATCTTGTTAATATTATCATTGCATCCTCATTATTATATTATGCATTAT
* *
71570199 TTTTATTATCCTTATTGTTTTCATGCATCTGCACGCATTTTTTATATATAATATATACACATACA
66 TTTTATTATCCTTATTATTTTCATGCACCTGCACGCATTTTTTATATATAATATATACACATACA
*
71570264 GTTTCTATAAATACATGCGCATTTTACATATATATATACATTATTATTTATTTTCATATTTTTTT
131 CTTTCTATAAATACATGCGCATTTTACATATATATATACATTATTATTTATTTTCATATTTTTTT
71570329 AAT
196 AAT
71570332 ATATTATACT
Statistics
Matches: 192, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 192 1.00
ACGTcount: A:0.30, C:0.13, G:0.05, T:0.51
Consensus pattern (199 bp):
CATTGTTATTTTTTAAAATCTTGTTAATATTATCATTGCATCCTCATTATTATATTATGCATTAT
TTTTATTATCCTTATTATTTTCATGCACCTGCACGCATTTTTTATATATAATATATACACATACA
CTTTCTATAAATACATGCGCATTTTACATATATATATACATTATTATTTATTTTCATATTTTTTT
AATT
Found at i:71570346 original size:22 final size:22
Alignment explanation
Indices: 71570320--71570361 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
71570310 TTTATTTTCA
71570320 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
71570342 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
71570362 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:71580999 original size:15 final size:15
Alignment explanation
Indices: 71580979--71581008 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71580969 TAGTTGAATT
71580979 TGATAGAGGGAAAGA
1 TGATAGAGGGAAAGA
71580994 TGATAGAGGGAAAGA
1 TGATAGAGGGAAAGA
71581009 GGCTAAAGGC
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:0.47, C:0.00, G:0.40, T:0.13
Consensus pattern (15 bp):
TGATAGAGGGAAAGA
Found at i:71582382 original size:44 final size:44
Alignment explanation
Indices: 71582185--71582382 Score: 168
Period size: 45 Copynumber: 4.5 Consensus size: 44
71582175 GCAGGTTGAA
*
71582185 AGATAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
* * ** *
71582229 AGATACCAGATCTTGTCTCCCTGTACAGGCGGTGGAGTAGATC-G
1 AGATACCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAG
* * * * * * *
71582273 AAGAAAGCAGATCTTGCCTTCCCATACTAGTGGCG-G-AGCAGATCAA
1 -AGATACCAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATCAG
* * *
71582319 AGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
* *
71582363 AGATACCAGATTTTATCTTC
1 AGATACCAGATCTTGTCTTC
71582383 CCATATTGGT
Statistics
Matches: 119, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
42 7 0.06
43 4 0.03
44 49 0.41
45 50 0.42
46 1 0.01
47 3 0.03
48 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
Found at i:71582596 original size:44 final size:45
Alignment explanation
Indices: 71582533--71582630 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
71582523 CAGTAGAATC
* *
71582533 GATCGAAGAAAGCAGATCTTGTCTTCAT-GTATTGG-CGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTC-TCATACTGGTCGTGAAGTA
*
71582577 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
71582622 GATCGAAGA
1 GATCGAAGA
71582631 TACAAGTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 31 0.63
45 17 0.35
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
Found at i:71582707 original size:44 final size:43
Alignment explanation
Indices: 71582651--71582795 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 43
71582641 ATCTCCCTGA
*
71582651 AGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAAG
1 AGTTGCAATGGAGCAGACA-AAATAATCGGTCCTATCTCCCAAG
* ** * * *
71582695 AGTTGCAATGGAGTAGACTAAAACCA-CAGAT-CTCATCTCTC-TG
1 AGTTGCAATGGAGCAGAC-AAAATAATC-GGTCCT-ATCTCCCAAG
** *
71582738 AAGTTGCAGCGGAGCAGACAAAAATAATCGGTCCTATCTCCCAGG
1 -AGTTGCAATGGAGCAGAC-AAAATAATCGGTCCTATCTCCCAAG
71582783 AGTTGCAATGGAG
1 AGTTGCAATGGAG
71582796 TGGACTAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.05
44 67 0.88
45 5 0.07
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
AGTTGCAATGGAGCAGACAAAATAATCGGTCCTATCTCCCAAG
Found at i:71582767 original size:88 final size:88
Alignment explanation
Indices: 71582641--71582843 Score: 352
Period size: 88 Copynumber: 2.3 Consensus size: 88
71582631 TACAAGTCTT
* *
71582641 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
71582706 AGTAGACTAAAACCACAGATCTC
66 AGTAGACTAAAACCACAGATCTC
* *
71582729 ATCTCTCTGAAGTTGCAGCGGAGCAGACAAAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
*
71582794 AGTGGACTAAAACCACAGATCTC
66 AGTAGACTAAAACCACAGATCTC
*
71582817 ATCTCTCTGAAGTTGCAGTAGAGCAGA
1 ATCTCTCTGAAGTTGCAGTGGAGCAGA
71582844 TCACATTAGA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAGACAAAAATAATCGGTCCTATCTCCCAAGAGTTGCAATGG
AGTAGACTAAAACCACAGATCTC
Found at i:71582831 original size:44 final size:44
Alignment explanation
Indices: 71582695--71582833 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 44
71582685 ATCTCCCAAG
71582695 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
** * * ** * * * *
71582739 AGTTGCAGCGGAGCAGACAAAAATAATC-GGTC-CTATCTCCCAGG
1 AGTTGCAATGGAGTAGACTAAAACCA-CAGATCTC-ATCTCTCTGA
*
71582783 AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
71582827 AGTTGCA
1 AGTTGCA
71582834 GTAGAGCAGA
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 2 0.03
44 66 0.94
45 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (44 bp):
AGTTGCAATGGAGTAGACTAAAACCACAGATCTCATCTCTCTGA
Found at i:71583248 original size:44 final size:44
Alignment explanation
Indices: 71583181--71583266 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
71583171 GGCCCAATCG
* * *
71583181 GCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGACA
1 GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGACA
* * *
71583225 GCCCAAAACGGTCCCTAGCCCAACACTACAAAGTTAAGCAGA
1 GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
71583267 AAAACCCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (44 bp):
GCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGACA
Found at i:71584427 original size:22 final size:22
Alignment explanation
Indices: 71584401--71584442 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
71584391 TTTATTTTCA
71584401 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
71584423 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
71584443 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:71587286 original size:98 final size:98
Alignment explanation
Indices: 71587112--71587308 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
71587102 GTACAATAAA
* *
71587112 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
71587177 CCTCTAGAATCCCAAATTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
71587210 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
71587275 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
71587308 A
1 A
71587309 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:71588005 original size:24 final size:26
Alignment explanation
Indices: 71587976--71588024 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
71587966 ATATAAATAT
71587976 GAAAATATTC-ATT-AAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
*
71588000 GAAAATATTCGTTTAAAAAAATATA
1 GAAAATATTCGATTAAAAAAATATA
71588025 TACATGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:71588693 original size:57 final size:57
Alignment explanation
Indices: 71588611--71588721 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
71588601 AGCCACCTTT
* * *
71588611 AAAAAACTGCCAATCGTTCTTTTTTTTATTCCTCCCTTTTCTTCCTTTTTTTTTAAA
1 AAAAAACTACCAATCGTTCTCTTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTTAAA
71588668 AAAAAACTACCAATCGTTCTCTTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTT
1 AAAAAACTACCAATCGTTCTCTTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTT
71588722 CCTTTTACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.20, C:0.25, G:0.03, T:0.52
Consensus pattern (57 bp):
AAAAAACTACCAATCGTTCTCTTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTTAAA
Found at i:71588889 original size:19 final size:19
Alignment explanation
Indices: 71588858--71588928 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
71588848 TCATATATTT
*
71588858 TAAGATTGCATATCATATC
1 TAAGATTACATATCATATC
* * *
71588877 TAAGTTTATATATAATATC
1 TAAGATTACATATCATATC
*
71588896 TAAGATTGCATATCATATC
1 TAAGATTACATATCATATC
*
71588915 TAAGATTGCATATC
1 TAAGATTACATATC
71588929 CTCAAAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (19 bp):
TAAGATTACATATCATATC
Found at i:71590452 original size:13 final size:13
Alignment explanation
Indices: 71590423--71590456 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
71590413 TAAACTCGTT
*
71590423 AGAAAAAGAAAAG
1 AGAAAAAAAAAAG
71590436 -GAAAAAAAAAAG
1 AGAAAAAAAAAAG
71590448 AGAAAAAAA
1 AGAAAAAAA
71590457 GAAGGTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:71592295 original size:21 final size:21
Alignment explanation
Indices: 71592239--71592319 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
71592229 TGATCAGTAT
*
71592239 ACGACACAT-AAGTGCCTGTA
1 ACGACACATAAAGTGCCTGAA
* ** *
71592259 ATGACACACGAGGTGCCTGAA
1 ACGACACATAAAGTGCCTGAA
71592280 ACGACACATAAAGTGCCTGAGA
1 ACGACACATAAAGTGCCTGA-A
* *
71592302 TACAAGACATAAAGTGCC
1 -ACGACACATAAAGTGCC
71592320 GGATCGGCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 7 0.15
21 25 0.52
22 1 0.02
23 15 0.31
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTGAA
Found at i:71593529 original size:15 final size:16
Alignment explanation
Indices: 71593511--71593542 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
71593501 TTAATTAATA
71593511 TAATTTA-TAATATTT
1 TAATTTAGTAATATTT
71593526 TAATTTAGTAATATTT
1 TAATTTAGTAATATTT
71593542 T
1 T
71593543 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTAGTAATATTT
Found at i:71594166 original size:18 final size:19
Alignment explanation
Indices: 71594136--71594177 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
71594126 TATTCCACTA
*
71594136 AAGTT-GTTAATTATATTT
1 AAGTTAGTTAATTATAGTT
71594154 AAGTTAGTT-ATTATAGTT
1 AAGTTAGTTAATTATAGTT
71594172 AA-TTAG
1 AAGTTAG
71594178 ACCAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (19 bp):
AAGTTAGTTAATTATAGTT
Found at i:71602067 original size:54 final size:54
Alignment explanation
Indices: 71602009--71602129 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
71601999 CATGTAACAA
*
71602009 ACTGTG-TCTGTGTAACTCAAAGTCACACGACCGCGTCGCCAGGCCATGTACCTC
1 ACTGTGATC-GTGTAACTCAAAGTCACACGACCGCGTCACCAGGCCATGTACCTC
* ** * * *
71602063 ACTGTGATCGTGTAATTCAGGGTCACACGACCGTGTCACCAGGTCATGTAACTC
1 ACTGTGATCGTGTAACTCAAAGTCACACGACCGCGTCACCAGGCCATGTACCTC
**
71602117 TTTGTGATCGTGT
1 ACTGTGATCGTGT
71602130 GGACTACCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (54 bp):
ACTGTGATCGTGTAACTCAAAGTCACACGACCGCGTCACCAGGCCATGTACCTC
Found at i:71609093 original size:27 final size:27
Alignment explanation
Indices: 71609032--71609316 Score: 196
Period size: 27 Copynumber: 10.6 Consensus size: 27
71609022 ATTTTGTTAG
** *
71609032 CCTCTGTGGCAAACTCTGAAAGAATAG
1 CCTCTGTGGTGAACTCTGAAAGAATAT
* * * * * *
71609059 ACTTTATGGTAAACTTTGAAATAATAT
1 CCTCTGTGGTGAACTCTGAAAGAATAT
* * *
71609086 CCTCTATGGCGAACTCTGAAAGAATAG
1 CCTCTGTGGTGAACTCTGAAAGAATAT
* * * * *
71609113 CCGCTGTAGCT-AACTTTGAAATAATAG
1 CCTCTGT-GGTGAACTCTGAAAGAATAT
** * *
71609140 GATTTGTGGCT-AACTCTGAAAGAATAG
1 CCTCTGTGG-TGAACTCTGAAAGAATAT
** * ** *
71609167 GATTTGTGGCAAACTTTGAAAGAATAT
1 CCTCTGTGGTGAACTCTGAAAGAATAT
* * * *
71609194 CCTTTGTGGCGAACTTTGAAAGAATAA
1 CCTCTGTGGTGAACTCTGAAAGAATAT
71609221 CCTCTGTGGTGAACTCTGAAAGAATAT
1 CCTCTGTGGTGAACTCTGAAAGAATAT
* *
71609248 CCTCTATGATGAACTCTGAAAGAATAT
1 CCTCTGTGGTGAACTCTGAAAGAATAT
* * * *
71609275 CCTCTATTGTGAACTCTAAAAGAATAG
1 CCTCTGTGGTGAACTCTGAAAGAATAT
*
71609302 CCTTTGTGGTGAACT
1 CCTCTGTGGTGAACT
71609317 ATAACATACC
Statistics
Matches: 208, Mismatches: 47, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 1 0.00
27 206 0.99
28 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
CCTCTGTGGTGAACTCTGAAAGAATAT
Found at i:71609268 original size:81 final size:81
Alignment explanation
Indices: 71609032--71609316 Score: 259
Period size: 81 Copynumber: 3.5 Consensus size: 81
71609022 ATTTTGTTAG
* * * * *
71609032 CCTCTGTGGCAAACTCTGAAAGAATAGA-CTTTATGGTAAACTTTGAAATAATATCCTCTATGGC
1 CCTCTGTGGCGAACTCTGAAAGAATA-ACCTTTGTGGTGAACTCTGAAAGAATATCCTCTATGGC
*
71609096 GAACTCTGAAAGAATAG
65 GAACTCTGAAAGAATAT
* * * * * *** *** * *
71609113 CCGCTGTAGCTAACTTTGAAATAATAGGATTTGTGGCT-AACTCTGAAAGAATAGGATTTGTGGC
1 CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGG-TGAACTCTGAAAGAATATCCTCTATGGC
* *
71609177 AAACTTTGAAAGAATAT
65 GAACTCTGAAAGAATAT
* * * **
71609194 CCTTTGTGGCGAACTTTGAAAGAATAACCTCTGTGGTGAACTCTGAAAGAATATCCTCTATGATG
1 CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATATCCTCTATGGCG
71609259 AACTCTGAAAGAATAT
66 AACTCTGAAAGAATAT
* * * * *
71609275 CCTCTATTGTGAACTCTAAAAGAATAGCCTTTGTGGTGAACT
1 CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGGTGAACT
71609317 ATAACATACC
Statistics
Matches: 157, Mismatches: 44, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
80 1 0.01
81 155 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (81 bp):
CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATATCCTCTATGGCG
AACTCTGAAAGAATAT
Found at i:71612023 original size:31 final size:32
Alignment explanation
Indices: 71611970--71612034 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
71611960 ATAAGTATTA
*
71611970 TTAAGTATTTATTGGTTTTGGCTT-GTAATTT
1 TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
*
71612001 TTAATTATTT-TTGGTTTGTGGCTTGGTAACTT
1 TTAAGTATTTATTGGTTT-TGGCTTGGTAACTT
71612033 TT
1 TT
71612035 CTTTTGGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 15 0.50
32 8 0.27
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.58
Consensus pattern (32 bp):
TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
Found at i:71612686 original size:81 final size:81
Alignment explanation
Indices: 71612546--71612872 Score: 361
Period size: 81 Copynumber: 4.0 Consensus size: 81
71612536 CAAAGCCCTT
* * * * * * *
71612546 AACTTTGAAAGACTAACCTTTGTGGTGAACTTTGAAAGAATAACCTCTATGGTGAACTCTAAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCTATGGCGAACTCTGAAAG
*
71612611 AATAACCTCTATGGTG
66 AATAACCTCTATGGCG
* **
71612627 AACTCTGAAAGAATAACCTCTATGGTGAACTATGAAAGAATATCCTCTATGATGAACTCTGAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCTATGGCGAACTCTGAAAG
* * *
71612692 AATATCCTCTATAGCA
66 AATAACCTCTATGGCG
* * * * * *
71612708 AACTCTGAAAGAATAACCTTTGTGGCGAACTATGAAAGAATAGCCT-TCGTGGCGAATTCTTAAA
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCT-ATGGCGAACTCTGAAA
* * *
71612772 GAATAGCCTTTGTGGCG
65 GAATAACCTCTATGGCG
* * * *
71612789 AATTCTGAAAGAATAACCTCTGTGGTGAACTCTAAAAGAATAGT-CTTTATGGCGAACTCTGAAA
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATA-TCCTCTATGGCGAACTCTGAAA
* *
71612853 GAATAACCTTTGTGGCG
65 GAATAACCTCTATGGCG
71612870 AAC
1 AAC
71612873 CTTGAATGGA
Statistics
Matches: 206, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.00
81 204 0.99
82 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (81 bp):
AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCTATGGCGAACTCTGAAAG
AATAACCTCTATGGCG
Found at i:71612878 original size:27 final size:27
Alignment explanation
Indices: 71612546--71612872 Score: 314
Period size: 27 Copynumber: 12.1 Consensus size: 27
71612536 CAAAGCCCTT
* * * * *
71612546 AACTTTGAAAGACTAACCTTTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
71612573 AACTTTGAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
71612600 AACTCTAAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
*
71612627 AACTCTGAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * **
71612654 AACTATGAAAGAATATCCTCTATGATG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * *
71612681 AACTCTGAAAGAATATCCTCTATAGCA
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
71612708 AACTCTGAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * *
71612735 AACTATGAAAGAATAGCCT-TCGTGGCG
1 AACTCTGAAAGAATAACCTCT-ATGGCG
* * * * *
71612762 AATTCTTAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * *
71612789 AATTCTGAAAGAATAACCTCTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* ** *
71612816 AACTCTAAAAGAATAGTCTTTATGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
71612843 AACTCTGAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
71612870 AAC
1 AAC
71612873 CTTGAATGGA
Statistics
Matches: 259, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 257 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AACTCTGAAAGAATAACCTCTATGGCG
Found at i:71615342 original size:124 final size:124
Alignment explanation
Indices: 71615176--71615403 Score: 357
Period size: 124 Copynumber: 1.8 Consensus size: 124
71615166 TTACAATTTG
* *
71615176 ATTACCAACTGTCATCTAAGTAAAGCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTGTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTGTT
* * *
71615241 TTTTTAAAGCAATGAACACTCATCTGACTTTGCAACGTGCTGGGAAATGTTACGATCTA
66 TTTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGCTGGGAAATGTTACGATCTA
** * *
71615300 ATTACCAACTATCATCTGGGTAAACCTAACATGGTAGCTAATGCATTAAGCCATAAATCTTTTTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTGTT
* *
71615365 TTTTTGAAGCAATGAACACTTATCTAAATTTGAAACGTG
66 TTTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTG
71615404 ATGATTCTAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 93 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (124 bp):
ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTGTT
TTTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGCTGGGAAATGTTACGATCTA
Found at i:71618902 original size:18 final size:19
Alignment explanation
Indices: 71618875--71618917 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
71618865 GTACTCTTGA
* *
71618875 ATAAACAATCAATT-TCAG
1 ATAAATAATCAATTAACAG
*
71618893 ATAAATAATCACTTAACAG
1 ATAAATAATCAATTAACAG
71618912 ATAAAT
1 ATAAAT
71618918 TGATTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAATAATCAATTAACAG
Found at i:71622835 original size:25 final size:25
Alignment explanation
Indices: 71622775--71622824 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
71622765 TTGGGAGTCA
* *
71622775 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTCCAATGCCCAAGACAAAGC
71622800 TCCACTCCAATGCCCAAGACAAAGC
1 TCCACTCCAATGCCCAAGACAAAGC
71622825 ATTTCCCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.38, G:0.14, T:0.14
Consensus pattern (25 bp):
TCCACTCCAATGCCCAAGACAAAGC
Found at i:71626465 original size:20 final size:19
Alignment explanation
Indices: 71626442--71626494 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
71626432 ATTTTGTACT
71626442 TTTTAAAATAAATTTAATAA
1 TTTTAAAATAAATTTAA-AA
* *
71626462 TTTTAAATTTAAATTTTAAA
1 TTTTAAA-ATAAATTTAAAA
*
71626482 TTTTTAAA-AAATT
1 TTTTAAAATAAATT
71626495 AATTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.18
20 15 0.54
21 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAATAAATTTAAAA
Found at i:71626465 original size:21 final size:20
Alignment explanation
Indices: 71626441--71626490 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
71626431 AATTTTGTAC
71626441 TTTTTAAAATAAATTTAATAA
1 TTTTTAAAATAAATTTAA-AA
* *
71626462 -TTTTAAATTTAAATTTTAAA
1 TTTTTAAA-ATAAATTTAAAA
71626482 TTTTTAAAA
1 TTTTTAAAA
71626491 AATTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTTAAAATAAATTTAAAA
Found at i:71626478 original size:13 final size:15
Alignment explanation
Indices: 71626450--71626484 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
71626440 CTTTTTAAAA
71626450 TAAATTTAATAATTT
1 TAAATTTAATAATTT
71626465 TAAATTT-A-AATTT
1 TAAATTTAATAATTT
71626478 TAAATTT
1 TAAATTT
71626485 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATTTAATAATTT
Found at i:71630372 original size:44 final size:46
Alignment explanation
Indices: 71630309--71630403 Score: 142
Period size: 44 Copynumber: 2.1 Consensus size: 46
71630299 TATTACAACA
*
71630309 CCATTCCATTCAACCAAACACA-AGAA-TA-TTATTACAGTTCTATT
1 CCATTCCATTCAACCAAACA-ATAGAATTACTTATTACAGCTCTATT
*
71630353 CCATTCCATTCAACCAAACAATTGAATTACTTATTACAGCTCTATT
1 CCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
71630399 CCATT
1 CCATT
71630404 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 2 0.04
46 20 0.43
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (46 bp):
CCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
Found at i:71630406 original size:16 final size:16
Alignment explanation
Indices: 71630385--71630456 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
71630375 TGAATTACTT
71630385 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
71630401 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
* *
71630417 ATTACAGCTTTATTCA
1 ATTACAGCTCTATTCC
*
71630433 ATTACATCTCTATTCC
1 ATTACAGCTCTATTCC
71630449 ATTACAGC
1 ATTACAGC
71630457 GAACCAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:71639945 original size:35 final size:35
Alignment explanation
Indices: 71639887--71639981 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
71639877 ATAAATTTAG
* **
71639887 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
71639923 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
71639958 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
71639982 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:71641578 original size:6 final size:6
Alignment explanation
Indices: 71641539--71641569 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
71641529 TATAAAGGAA
*
71641539 AGAAAG AAAAAG AGAAAG AGAAAG AGAAAG A
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG A
71641570 AAGATAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:71641732 original size:5 final size:5
Alignment explanation
Indices: 71641704--71641745 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
71641694 CACTTTGATT
* *
71641704 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA AT
71641746 ATATGTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 3 0.10
5 26 0.84
6 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (5 bp):
ATTGA
Found at i:71646013 original size:43 final size:43
Alignment explanation
Indices: 71645951--71646033 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
71645941 GTACAGGTTA
*
71645951 TGCTTCAGTTTATTAGATGATGCACTATGTATGCCAGTATAGT
1 TGCTTCAGTATATTAGATGATGCACTATGTATGCCAGTATAGT
* * *
71645994 TGCTTCAGTATATTTGATGATGCACTGTGTGTGCCAGTAT
1 TGCTTCAGTATATTAGATGATGCACTATGTATGCCAGTAT
71646034 GCACTATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (43 bp):
TGCTTCAGTATATTAGATGATGCACTATGTATGCCAGTATAGT
Found at i:71646948 original size:9 final size:9
Alignment explanation
Indices: 71646919--71646955 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
71646909 TGAGTTTTCG
71646919 AATTCGAAT
1 AATTCGAAT
*
71646928 AACTCGAAT
1 AATTCGAAT
71646937 AATTCGAAT
1 AATTCGAAT
*
71646946 AATTTGAAT
1 AATTCGAAT
71646955 A
1 A
71646956 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:71649487 original size:24 final size:24
Alignment explanation
Indices: 71649448--71649498 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
71649438 TCAAAGTAAG
** *
71649448 TTTTAAATGTTGTCCAAAATATGT
1 TTTTAAATGTCATCCAAAACATGT
*
71649472 TTTTAAATGTCATCCAAAGCATGT
1 TTTTAAATGTCATCCAAAACATGT
71649496 TTT
1 TTT
71649499 AAGAATTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (24 bp):
TTTTAAATGTCATCCAAAACATGT
Found at i:71650286 original size:35 final size:34
Alignment explanation
Indices: 71650170--71650306 Score: 130
Period size: 35 Copynumber: 3.9 Consensus size: 34
71650160 CATTTGTCTA
* * *
71650170 TTATACCAACCAGTGTTGGGCACATCTATTGTCGG
1 TTATACCGACCAGTGCT-GGCACATCTATTGTTGG
* *
71650205 TTATACCGACCAGTGCTTGGTACATCTATTATTGG
1 TTATACCGACCAGTGC-TGGCACATCTATTGTTGG
* *
71650240 TTTTACCGACCAGTGCTGGACACATCTATTGTTGA
1 TTATACCGACCAGTGCTGG-CACATCTATTGTTGG
** * * *
71650275 TTATATTGACCAATGCTACGCATATCTATTGT
1 TTATACCGACCAGTGCT-GGCACATCTATTGT
71650307 CAATTTTACC
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
34 3 0.04
35 79 0.94
36 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (34 bp):
TTATACCGACCAGTGCTGGCACATCTATTGTTGG
Found at i:71650302 original size:70 final size:70
Alignment explanation
Indices: 71650173--71650304 Score: 156
Period size: 70 Copynumber: 1.9 Consensus size: 70
71650163 TTGTCTATTA
* * * * ** *
71650173 TACCAACCAGTGTTGGGCACATCTATTGTCGGTTATACCGACCAGTGCTTGGTACATCTATTATT
1 TACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCACATCTATTATT
71650238 GGTTT
66 GGTTT
* * ** *
71650243 TACCGACCAGTGCTGGACACATCTATTGTTGATTATATTGACCAATGCTACGCATATCTATT
1 TACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCACATCTATT
71650305 GTCAATTTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
70 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (70 bp):
TACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCACATCTATTATT
GGTTT
Found at i:71657706 original size:17 final size:15
Alignment explanation
Indices: 71657656--71657710 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
71657646 AGTACCATTG
*
71657656 AATAAATAATCAATTT
1 AATAAATAAT-TATTT
71657672 CAGATAAATAATTATTT
1 -A-ATAAATAATTATTT
71657689 AATAAATAAATTAGTTT
1 AATAAAT-AATTA-TTT
71657706 AATAA
1 AATAA
71657711 TCGAAGCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 13 0.38
18 9 0.26
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (15 bp):
AATAAATAATTATTT
Found at i:71660029 original size:24 final size:23
Alignment explanation
Indices: 71660002--71660061 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
71659992 TTATTAACAT
71660002 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* ***
71660026 TGTTCATGAACATGTTTGTTTAA
1 TGTTCGTGAACATGTTCAATTAA
71660049 TGTTCGTGAACAT
1 TGTTCGTGAACAT
71660062 TAAACAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:71666664 original size:8 final size:8
Alignment explanation
Indices: 71666597--71666666 Score: 63
Period size: 8 Copynumber: 8.4 Consensus size: 8
71666587 ATTACTATGA
71666597 AAATATAT
1 AAATATAT
71666605 AAA-ATAT
1 AAATATAT
71666612 AAA-ATAT
1 AAATATAT
71666619 AAATATAT
1 AAATATAT
*
71666627 AGAATCCTAT
1 A-AAT-ATAT
*
71666637 AACATATGT
1 AA-ATATAT
71666646 AAAACTATAT
1 -AAA-TATAT
71666656 AAATATAT
1 AAATATAT
71666664 AAA
1 AAA
71666667 AGCGTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
7 14 0.27
8 16 0.31
9 10 0.19
10 12 0.23
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (8 bp):
AAATATAT
Found at i:71666675 original size:18 final size:17
Alignment explanation
Indices: 71666596--71666667 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
71666586 TATTACTATG
*
71666596 AAAATATATAAA-ATAT
1 AAAACATATAAATATAT
71666612 -AAA-ATATAAATATAT
1 AAAACATATAAATATAT
* * *
71666627 AGAATCCTATAACATATGT
1 A-AAACATATAA-ATATAT
71666646 AAAACTATATAAATATAT
1 AAAAC-ATATAAATATAT
71666664 AAAA
1 AAAA
71666668 GCGTATAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 7 0.16
15 7 0.16
17 2 0.05
18 17 0.39
19 11 0.25
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAACATATAAATATAT
Found at i:71671212 original size:29 final size:30
Alignment explanation
Indices: 71671152--71671214 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
71671142 TTTTTTCATG
* * *
71671152 TTCTTTGAACTTTCTTTTTTTTCTTTTATC
1 TTCTTTAAACTTTCTCTTTTTTCTATTATC
*
71671182 TTCTTTAAACTTTCTCTTTTTT-TATTCTC
1 TTCTTTAAACTTTCTCTTTTTTCTATTATC
71671211 TTCT
1 TTCT
71671215 CCTTCTCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (30 bp):
TTCTTTAAACTTTCTCTTTTTTCTATTATC
Found at i:71673668 original size:33 final size:33
Alignment explanation
Indices: 71673631--71673693 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
71673621 TATACACTCA
71673631 GGATTAGAGGCGTATTGGATTAGAGGTGTATTG
1 GGATTAGAGGCGTATTGGATTAGAGGTGTATTG
* *
71673664 GGATTAGATGTGTATTGGATTAGAGGTGTA
1 GGATTAGAGGCGTATTGGATTAGAGGTGTA
71673694 ATAGCTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.35
Consensus pattern (33 bp):
GGATTAGAGGCGTATTGGATTAGAGGTGTATTG
Found at i:71673669 original size:17 final size:16
Alignment explanation
Indices: 71673631--71673693 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
71673621 TATACACTCA
*
71673631 GGATTAGAGGCGTATT
1 GGATTAGAGGTGTATT
71673647 GGATTAGAGGTGTATT
1 GGATTAGAGGTGTATT
*
71673663 GGGATTAGATGTGTATT
1 -GGATTAGAGGTGTATT
71673680 GGATTAGAGGTGTA
1 GGATTAGAGGTGTA
71673694 ATAGCTAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
16 28 0.65
17 15 0.35
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.35
Consensus pattern (16 bp):
GGATTAGAGGTGTATT
Found at i:71673758 original size:44 final size:45
Alignment explanation
Indices: 71673674--71673764 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
71673664 GGATTAGATG
* * *
71673674 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
71673719 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
71673763 TG
1 TG
71673765 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:71673950 original size:18 final size:17
Alignment explanation
Indices: 71673929--71673963 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71673919 TTATTATTGA
*
71673929 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
71673947 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
71673964 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:71674070 original size:18 final size:17
Alignment explanation
Indices: 71674049--71674083 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71674039 TTATTATTAA
*
71674049 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
71674067 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
71674084 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:71674125 original size:120 final size:120
Alignment explanation
Indices: 71673912--71674294 Score: 757
Period size: 120 Copynumber: 3.2 Consensus size: 120
71673902 ATCATATTTA
*
71673912 AACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
71673977 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71674032 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
71674097 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71674152 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
71674217 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71674272 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
71674295 AACTTGAAAA
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 262 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:71674190 original size:18 final size:17
Alignment explanation
Indices: 71674169--71674203 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71674159 TTATTATTAA
*
71674169 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
71674187 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
71674204 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:71677357 original size:33 final size:33
Alignment explanation
Indices: 71677318--71677427 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
71677308 ATTATAAAGC
71677318 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
71677351 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
71677384 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
*
71677417 ACGTATAATTG
1 ATGTATAATTG
71677428 TTGGTTTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 8 0.12
33 49 0.75
34 8 0.12
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:71677434 original size:51 final size:51
Alignment explanation
Indices: 71677374--71677488 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
71677364 CTAAAATTAC
71677374 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTACGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTACGTATAA
*
71677425 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTACGTATAA
71677476 TTGTTGGTTTAAT
1 TTGTTGGTTTAAT
71677489 TGTTGGTTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTACGTATAA
Found at i:71677490 original size:12 final size:12
Alignment explanation
Indices: 71677473--71677500 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
71677463 GGTGTATGTA
71677473 TAATTGTTGGTT
1 TAATTGTTGGTT
71677485 TAATTGTTGGTT
1 TAATTGTTGGTT
71677497 TAAT
1 TAAT
71677501 GTTATTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (12 bp):
TAATTGTTGGTT
Found at i:71682380 original size:16 final size:16
Alignment explanation
Indices: 71682359--71682394 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
71682349 TAAATAATTT
*
71682359 TTATATTTAAAAAAAC
1 TTATATTTAAAAAAAA
71682375 TTATATTTAAAAAAAA
1 TTATATTTAAAAAAAA
71682391 TTAT
1 TTAT
71682395 GCACTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATATTTAAAAAAAA
Found at i:71682424 original size:16 final size:16
Alignment explanation
Indices: 71682403--71682442 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
71682393 ATGCACTTTT
71682403 ATTTTAAATATATATA
1 ATTTTAAATATATATA
* *
71682419 ATTTTAAATTTTTATA
1 ATTTTAAATATATATA
*
71682435 TTTTTAAA
1 ATTTTAAA
71682443 ATTGACAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATATATATA
Found at i:71682583 original size:9 final size:9
Alignment explanation
Indices: 71682571--71682622 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 9
71682561 GTTGAACCAG
71682571 TTTTTATAA
1 TTTTTATAA
71682580 TTTTTATAA
1 TTTTTATAA
71682589 TTTATTGACTTAA
1 TTT-TT-A--TAA
71682602 -TTTTATAA
1 TTTTTATAA
71682610 TTTTATATAA
1 TTTT-TATAA
71682620 TTT
1 TTT
71682623 ATTTTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 15 0.41
10 11 0.30
11 3 0.08
12 2 0.05
13 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:71682622 original size:31 final size:31
Alignment explanation
Indices: 71682572--71682646 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 31
71682562 TTGAACCAGT
71682572 TTTTATAATTTTTATAATTTATTGAC-TTAA
1 TTTTATAATTTTTATAATTTATTGACTTTAA
** *
71682602 TTTTATAATTTTATATAATTTATTTTCTTTTA
1 TTTTATAATTTT-TATAATTTATTGACTTTAA
71682634 TTTTATAATTTTT
1 TTTTATAATTTTT
71682647 GTATATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.30
31 13 0.32
32 15 0.38
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (31 bp):
TTTTATAATTTTTATAATTTATTGACTTTAA
Found at i:71683400 original size:103 final size:103
Alignment explanation
Indices: 71682968--71683380 Score: 799
Period size: 103 Copynumber: 4.0 Consensus size: 103
71682958 AAGGAGACCT
71682968 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
71683033 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
66 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
71683071 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
71683136 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
66 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
71683174 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
71683239 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
66 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
*
71683277 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
* *
71683342 TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
66 TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
71683380 A
1 A
71683381 GGATGAGTAA
Statistics
Matches: 307, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 307 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (103 bp):
AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAATGGTGAATCTTAGTTTTCAAGGCGAGT
TAAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
Found at i:71685314 original size:37 final size:38
Alignment explanation
Indices: 71685265--71685337 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
71685255 TCCTTTTTTG
71685265 TTTCCCTTTTTCC-CTTTCTTTCCC-TTGTTTTTTCAT
1 TTTCCCTTTTTCCTCTTTCTTTCCCATTGTTTTTTCAT
* *
71685301 TTTCCCGTTTTTCCTTTTTCTTTCCCATTTTTTTTTC
1 TTTCCC-TTTTTCCTCTTTCTTTCCCATTGTTTTTTC
71685338 TTCTCAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 6 0.19
37 7 0.22
38 10 0.31
39 9 0.28
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.66
Consensus pattern (38 bp):
TTTCCCTTTTTCCTCTTTCTTTCCCATTGTTTTTTCAT
Found at i:71685341 original size:20 final size:19
Alignment explanation
Indices: 71685280--71685341 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
71685270 CTTTTTCCCT
*
71685280 TTCTTTCCCTTGTTTTTTC
1 TTCTTTCCCTTTTTTTTTC
* *
71685299 AT-TTTCCCGTTTTTCCTTT-
1 TTCTTTCCC-TTTTT-TTTTC
71685318 TTCTTTCCCATTTTTTTTTC
1 TTCTTTCCC-TTTTTTTTTC
71685338 TTCT
1 TTCT
71685342 CAACCAAGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 9 0.27
20 18 0.55
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.68
Consensus pattern (19 bp):
TTCTTTCCCTTTTTTTTTC
Found at i:71687548 original size:23 final size:23
Alignment explanation
Indices: 71687500--71687548 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
71687490 GTTATTGATC
* *
71687500 GTGGTAGCTTCGGCTACATTTTA
1 GTGGTAGCTTCGGCTACATATCA
71687523 GTGGTAGCTTCGGCTACATATCA
1 GTGGTAGCTTCGGCTACATATCA
71687546 GTG
1 GTG
71687549 TGGCACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (23 bp):
GTGGTAGCTTCGGCTACATATCA
Found at i:71693474 original size:21 final size:21
Alignment explanation
Indices: 71693448--71693525 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
71693438 AAAAAAGAAA
*
71693448 AAAAGAAAAAAAATAAAATGGG
1 AAAAGAAAAAAAA-AAAAGGGG
* *
71693470 -AAAGAGAAAGAAAAAAGGGG
1 AAAAGAAAAAAAAAAAAGGGG
*
71693490 AAAAGGAAAAAAAAAGAAAGGGA
1 AAAA-GAAAAAAAAA-AAAGGGG
* *
71693513 AAAATAGAAAAAA
1 AAAAGAAAAAAAA
71693526 TATTAATTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 7 0.16
21 13 0.29
22 15 0.33
23 10 0.22
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAAAGGGG
Found at i:71693502 original size:19 final size:19
Alignment explanation
Indices: 71693456--71693505 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
71693446 AAAAAAGAAA
*
71693456 AAAAATAAAATGGGAAAGAG
1 AAAAA-AAAAGGGGAAAGAG
71693476 AAAGAAAAAAGGGGAAA-AGG
1 AAA-AAAAAAGGGGAAAGA-G
71693496 AAAAAAAAAG
1 AAAAAAAAAG
71693506 AAAGGGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 17 0.63
21 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAGGGGAAAGAG
Found at i:71706068 original size:22 final size:24
Alignment explanation
Indices: 71706032--71706075 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
71706022 TGTTATAGGA
71706032 AGGGCACGACGGTGGAG-GGTGTT
1 AGGGCACGACGGTGGAGAGGTGTT
*
71706055 AGGGC-CGATGGTGGAGAGGTG
1 AGGGCACGACGGTGGAGAGGTG
71706076 ATGGTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.18, C:0.11, G:0.55, T:0.16
Consensus pattern (24 bp):
AGGGCACGACGGTGGAGAGGTGTT
Found at i:71712964 original size:51 final size:51
Alignment explanation
Indices: 71712887--71712983 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
71712877 TCTTGTAGAT
* * * * * *
71712887 ATGCGTTGCATTCTTTCGTCAAAGCTATCGTATTAAATTCTTCAAGCCGGA
1 ATGCGTTGCACTCCTTCGTCAAAGCTACCATATCAAATTCTCCAAGCCGGA
*
71712938 ATGCGTTGCACTCCTTCGTCAGAGCTACCATATCAAATTCTCCAAG
1 ATGCGTTGCACTCCTTCGTCAAAGCTACCATATCAAATTCTCCAAG
71712984 TATCCTCTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (51 bp):
ATGCGTTGCACTCCTTCGTCAAAGCTACCATATCAAATTCTCCAAGCCGGA
Found at i:71717346 original size:152 final size:152
Alignment explanation
Indices: 71717009--71717346 Score: 350
Period size: 147 Copynumber: 2.2 Consensus size: 152
71716999 GTTTTAGGAG
* *
71717009 AAAAAAATTGTTTGTGTTGGAGTTTTAAGG-GAGATATTGTGATAGTTTTAAGGTAGATTTTTAT
1 AAAAAAATTGTTTGTGTTGGAGTTTT--GGAGAGATATTATGATAATTTTAAGGTA-ATTTTTAT
* * * * * *
71717073 TGTTTGTAATAATAATTTGTATGTTGTATGTTTATATTTTAATTTATTATTAATCTTTAGATTTA
63 TGTTTATAATAATAATATGTATATTATATGTTTATATTTTAA-TTATTATTAATATTTAGAATTA
*
71717138 ATATTTAAGATTATATTTTTGTTTGT
127 ATATTTAAGAATATATTTTTGTTTGT
** * * * *
71717164 AAAAAAATTGTTTGAATTCGAGTTTTAGAGATAGATTATGATAATTTTAAGGT-ATTTTTAGTT-
1 AAAAAAATTGTTTGTGTTGGAGTTTTGGAGAGATATTATGATAATTTTAAGGTAATTTTTA-TTG
71717227 TTTATAATAATAATAAT-TATATTATATGTTTATATTTT-A-T-TT-TTAATATTTAGAATTAAT
65 TTTATAATAATAAT-ATGTATATTATATGTTTATATTTTAATTATTATTAATATTTAGAATTAAT
* *
71717287 GTTTTAGAATATATTTTTGTTTGT
129 ATTTAAGAATATATTTTTGTTTGT
****
71717311 AAATTTTTTTTTGTTTGTGTTGGAGTTTTGGAGAGA
1 AAA---AAAATTGTTTGTGTTGGAGTTTTGGAGAGA
71717347 AAAAAGGTTG
Statistics
Matches: 151, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
147 40 0.26
148 2 0.01
149 1 0.01
150 21 0.14
151 1 0.01
152 39 0.26
153 4 0.03
154 20 0.13
155 23 0.15
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.53
Consensus pattern (152 bp):
AAAAAAATTGTTTGTGTTGGAGTTTTGGAGAGATATTATGATAATTTTAAGGTAATTTTTATTGT
TTATAATAATAATATGTATATTATATGTTTATATTTTAATTATTATTAATATTTAGAATTAATAT
TTAAGAATATATTTTTGTTTGT
Found at i:71720929 original size:14 final size:15
Alignment explanation
Indices: 71720896--71720929 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71720886 ATTTTCTGTT
71720896 ATTTAATTTAGTGAA
1 ATTTAATTTAGTGAA
71720911 ATTTAATTTA-TGAA
1 ATTTAATTTAGTGAA
*
71720925 TTTTA
1 ATTTA
71720930 TCTCTCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
ATTTAATTTAGTGAA
Found at i:71727943 original size:15 final size:16
Alignment explanation
Indices: 71727917--71727947 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
71727907 ATAAGTGAGA
71727917 GATGATGGGATGATTG
1 GATGATGGGATGATTG
71727933 GATGA-GGGATGATTG
1 GATGATGGGATGATTG
71727948 AAAAAGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.26, C:0.00, G:0.45, T:0.29
Consensus pattern (16 bp):
GATGATGGGATGATTG
Found at i:71737222 original size:34 final size:34
Alignment explanation
Indices: 71737184--71737262 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
71737174 TGATGAATGG
71737184 GTGAGAGATGATGAGATGAGGGATGATTGAAAAA
1 GTGAGAGATGATGAGATGAGGGATGATTGAAAAA
*
71737218 GTGAGAGATGATGGGATGAGGGATGATTGAAAAA
1 GTGAGAGATGATGAGATGAGGGATGATTGAAAAA
*
71737252 GTGAGAAATGA
1 GTGAGAGATGA
71737263 GCTTTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (34 bp):
GTGAGAGATGATGAGATGAGGGATGATTGAAAAA
Found at i:71737227 original size:19 final size:19
Alignment explanation
Indices: 71737200--71737262 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
71737190 GATGATGAGA
*
71737200 TGAGGGATGATTGAAAAAG
1 TGAGAGATGATTGAAAAAG
**
71737219 TGAGAGATGA-TG--GGA-
1 TGAGAGATGATTGAAAAAG
*
71737234 TGAGGGATGATTGAAAAAG
1 TGAGAGATGATTGAAAAAG
*
71737253 TGAGAAATGA
1 TGAGAGATGA
71737263 GCTTTTATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
15 9 0.28
16 3 0.09
18 3 0.09
19 17 0.53
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATTGAAAAAG
Found at i:71745784 original size:17 final size:17
Alignment explanation
Indices: 71745752--71745783 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
71745742 TTTTCCTCTT
71745752 TTTCTTCGATTTTTTTC
1 TTTCTTCGATTTTTTTC
71745769 TTTCTTC-ATTTTTTT
1 TTTCTTCGATTTTTTT
71745784 TTCGATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTTCGATTTTTTTC
Found at i:71752309 original size:13 final size:13
Alignment explanation
Indices: 71752279--71752326 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
71752269 CAAACAAATG
71752279 AAAAATTAGAATGT-
1 AAAAATTA-AAT-TA
71752293 AAAAATTAAATTA
1 AAAAATTAAATTA
*
71752306 AAAATATTAAAATA
1 AAAA-ATTAAATTA
71752320 AAAAATT
1 AAAAATT
71752327 GCTAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 10 0.32
14 20 0.65
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (13 bp):
AAAAATTAAATTA
Found at i:71754025 original size:17 final size:15
Alignment explanation
Indices: 71754001--71754040 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
71753991 CTAATAGTAG
71754001 AATAATAAGAAACTAA
1 AATAATAAGAAAC-AA
*
71754017 AATTAATAATAAACAA
1 AA-TAATAAGAAACAA
71754033 AATAATAA
1 AATAATAA
71754041 TAAATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 10 0.45
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATAAGAAACAA
Found at i:71754053 original size:16 final size:15
Alignment explanation
Indices: 71754001--71754081 Score: 69
Period size: 16 Copynumber: 5.3 Consensus size: 15
71753991 CTAATAGTAG
*
71754001 AATAATAAGAAACTAA
1 AATAATAATAAAC-AA
71754017 AATTAATAATAAACAA
1 AA-TAATAATAAACAA
*
71754033 AATAATAATAAATCAT
1 AATAATAATAAA-CAA
* *
71754049 TATAATAATATAA-TA
1 AATAATAATA-AACAA
71754064 AA-AATAATAAA-AA
1 AATAATAATAAACAA
71754077 AATAA
1 AATAA
71754082 ACACAAAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.09
14 9 0.17
15 11 0.20
16 17 0.31
17 12 0.22
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (15 bp):
AATAATAATAAACAA
Found at i:71760946 original size:21 final size:21
Alignment explanation
Indices: 71760922--71760965 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
71760912 AGTTTATTGC
71760922 TATAAATTGTATGTA-ATTGAT
1 TATAAATTGTAT-TATATTGAT
* *
71760943 TATAATTTGTGTTATATTGAT
1 TATAAATTGTATTATATTGAT
71760964 TA
1 TA
71760966 GAATCATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TATAAATTGTATTATATTGAT
Found at i:71765644 original size:104 final size:105
Alignment explanation
Indices: 71765524--71765890 Score: 534
Period size: 104 Copynumber: 3.5 Consensus size: 105
71765514 TAAATTTTTT
* *
71765524 TTTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAATTTTTGGTA
1 TTTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
* *
71765589 GTGGCCTGACAATGGTCGGCACCACCTTTTGTAAAAAAAA
66 GTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAA
* * *
71765629 TTTAC-TTTTTTCGTGTCAGATGAAGCCATCAATATACGAAAAAAGTAAAAAAAAAAATTTGGTG
1 TTTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
71765693 GTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAA
66 GTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAA
* *
71765733 --TACTTTTTTTCGTGTCAGATGAAGCTATTAGTATACGAAAAGTAA-AAAAAAAAAAATTTTGG
1 TTTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAA--AAGTAAAAAAAAAATTTTGG
*
71765795 TGGTGGCCTGGCAATGGCCGACACCACCTTTT-TAAAAACAAAA
64 TGGTGGCCTGGCAATGGCCGGCACCACCTTTTGT-AAAA-AAAA
*
71765838 TTTTAC--TTTTTCGTGTCAGAT-AAGATATCAGTATACGAAAAAAGTAAAAAAAA
1 -TTTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAA
71765891 TTGTGGTGCA
Statistics
Matches: 237, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
102 3 0.01
103 37 0.16
104 150 0.63
105 29 0.12
106 15 0.06
108 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (105 bp):
TTTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
GTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAA
Found at i:71767385 original size:27 final size:29
Alignment explanation
Indices: 71767341--71767395 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
71767331 GTTCATCGTG
71767341 ACCTTGAGGCTATGTC-GTCGCAACATGA
1 ACCTTGAGGCTATGTCGGTCGCAACATGA
*
71767369 ACCTTGA-GCTATTTCGTGTCGCAACAT
1 ACCTTGAGGCTATGTCG-GTCGCAACAT
71767396 CGAGGGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 7 0.29
29 10 0.42
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (29 bp):
ACCTTGAGGCTATGTCGGTCGCAACATGA
Found at i:71771677 original size:22 final size:24
Alignment explanation
Indices: 71771652--71771701 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
71771642 ATTGTTGTAG
71771652 ATTTAATTTTTTTAATT-TTA-CA
1 ATTTAATTTTTTTAATTCTTATCA
* *
71771674 ATTTACTTTTTTTATTTCTTATCA
1 ATTTAATTTTTTTAATTCTTATCA
71771698 ATTT
1 ATTT
71771702 TAGTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.62
23 3 0.12
24 6 0.25
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTAATTTTTTTAATTCTTATCA
Found at i:71774589 original size:6 final size:6
Alignment explanation
Indices: 71774580--71774613 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
71774570 TCGCCCTCGC
71774580 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTC
1 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTC
71774614 TACTCAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.53, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCAT
Found at i:71778692 original size:21 final size:21
Alignment explanation
Indices: 71778668--71778710 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
71778658 CAACATATCC
71778668 ATCAAATAACATATATATATA
1 ATCAAATAACATATATATATA
71778689 ATCAAATAACATATATATATA
1 ATCAAATAACATATATATATA
71778710 A
1 A
71778711 ACACCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCAAATAACATATATATATA
Found at i:71783787 original size:18 final size:17
Alignment explanation
Indices: 71783754--71783792 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
71783744 TTGTATAAAT
71783754 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
71783772 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
71783789 TGTG
1 TGTG
71783793 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:71790065 original size:18 final size:17
Alignment explanation
Indices: 71790032--71790070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
71790022 TTGTATAAAT
71790032 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
71790050 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
71790067 TGTG
1 TGTG
71790071 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:71790323 original size:23 final size:23
Alignment explanation
Indices: 71790296--71790393 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
71790286 AGTGTTATTG
71790296 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
71790319 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
71790342 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
71790364 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
71790387 ATCAGTG
1 ATCAGTG
71790394 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:71790362 original size:45 final size:45
Alignment explanation
Indices: 71790298--71790386 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
71790288 TGTTATTGAT
* *
71790298 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
71790343 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
71790387 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:71793444 original size:125 final size:127
Alignment explanation
Indices: 71793222--71793489 Score: 380
Period size: 125 Copynumber: 2.1 Consensus size: 127
71793212 GGTCAAGCAG
* * * * *
71793222 GAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTGTTCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTGTTCAGTAATTTTGCTGACAATGCATC
* * * *
71793287 TTGCTTGAAGCGTTTTTTACACTATTTTTTCAGAACCTTCTTATCAAAATT-ATTTTT-TAA
66 CTGCTTGAAGCGTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTAATTTTTCTAA
* *
71793347 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTGTTCAGTAATTTTGCTGACAATGCATC
* * *
71793412 CTGCTTGAAGCGTTTTTGACATTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCTTA
66 CTGCTTGAAGCGTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTAATTTTTCTAA
*
71793474 -AACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
71793490 TAATCCTTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 103 0.82
126 21 0.17
127 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (127 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTGTTCAGTAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTAATTTTTCTAA
Found at i:71793632 original size:34 final size:33
Alignment explanation
Indices: 71793584--71793688 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 33
71793574 TTTAAAAAAA
71793584 TAAACCCTAATTTAATTAATTTTCTTAAAAACTC
1 TAAACCCTAATTTAATTAATTTT-TTAAAAACTC
* * *
71793618 TAAACCCTATTTTAATTAATTTATTTAAAACCCC
1 TAAACCCTAATTTAATTAATTT-TTTAAAAACTC
* * *
71793652 TAAAACATAATTTAATTAA--TTTAAAAAACTC
1 TAAACCCTAATTTAATTAATTTTTTAAAAACTC
71793683 TAAACC
1 TAAACC
71793689 TTGATTTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 13 0.22
32 1 0.02
34 45 0.75
35 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTTTTAAAAACTC
Found at i:71799020 original size:21 final size:24
Alignment explanation
Indices: 71798996--71799040 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
71798986 ATAACTAAAA
71798996 GAAAGA-CGAA-AGAGAG-GAAAG
1 GAAAGATCGAACAGAGAGCGAAAG
*
71799017 GAAAGATCTAACAGAGAGCGAAAG
1 GAAAGATCGAACAGAGAGCGAAAG
71799041 CGAGAGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 6 0.30
24 5 0.25
ACGTcount: A:0.53, C:0.09, G:0.33, T:0.04
Consensus pattern (24 bp):
GAAAGATCGAACAGAGAGCGAAAG
Found at i:71801085 original size:126 final size:126
Alignment explanation
Indices: 71800769--71801416 Score: 877
Period size: 126 Copynumber: 5.2 Consensus size: 126
71800759 GGTTTTGTGT
* * * * * * *
71800769 TTTTTCTACACTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * * *
71800834 ACGCTTCAAGCAGGATACAGTGTCAGCAAAATTACTAAAAAAAGCCCCCACGTGGATGCTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* *
71800895 TTTTTCTATAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTAAAA
1 TTTTTCTACAGTAGTTCCTG-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* *
71800960 AATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* * * *
71801022 TTTTTCTATAATAATTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
** * * * * * *
71801087 ACACTTCAAGAAAGATGTACTATTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
** *
71801148 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTTTGAAAAAA-AGTGT-AAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * *
71801211 ATGCTTCAAGTAGGATGCAGTGTCAGCAAAATTGCTGAAAAAAGCTCCCACGTGGACGCTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* ** *
71801272 TTTTTCTACAGTAGTTCCTGAACAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAGAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* *
71801337 ATGCTTCGAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
*
71801398 TTTTTCTACAATAGTTCCT
1 TTTTTCTACAGTAGTTCCT
71801417 ACTTGGCCTT
Statistics
Matches: 458, Mismatches: 61, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
124 105 0.23
125 9 0.02
126 233 0.51
127 111 0.24
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
Found at i:71801321 original size:250 final size:252
Alignment explanation
Indices: 71800768--71801416 Score: 881
Period size: 250 Copynumber: 2.6 Consensus size: 252
71800758 AGGTTTTGTG
* * * * * *
71800768 TTTTTTCTACACTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAA
1 TTTTTTCTACAATAGTTCCTGAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * * *
71800833 AACGCTTCAAGCAGGATACAGTGTCAGCAAAATTACTAAAAAAAGCCCCCACGTGGATGCTTTTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTT
* *
71800898 TTCTATAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAT
130 TTCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTAAAAAAT
* *
71800963 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCT
195 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCT
* * * *
71801021 CTTTTTCTATAATAATTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATAAAA
1 TTTTTTCTACAATAGTTCCTG-AAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * * * * *
71801086 AACACTTCAAGAAAGATGTACTATTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTT
* * *
71801151 TTCTACAGTAGTTCCTG-AAAAAATAATTTTGAGAAGATAGTTTTGAAAAAA-AGTGT-AAAAAT
130 TTCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTAAAAAAT
* * * *
71801213 GCTTCAAGTAGGATGCAGTGTCAGCAAAATTGCTGAAAAAAGCTCCCACGTGGACGCT
195 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCT
* ** *
71801271 TTTTTTCTACAGTAGTTCCTGAACAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAGAA
1 TTTTTTCTACAATAGTTCCTGAA-AAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * *
71801336 AATGCTTCGAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTCTTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTT
*
71801401 TTCTACAATAGTTCCT
130 TTCTACAGTAGTTCCT
71801417 ACTTGGCCTT
Statistics
Matches: 342, Mismatches: 52, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
249 2 0.01
250 182 0.53
251 5 0.01
252 30 0.09
253 118 0.35
254 5 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (252 bp):
TTTTTTCTACAATAGTTCCTGAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTT
TCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTAAAAAATG
CTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCT
Found at i:71804957 original size:18 final size:18
Alignment explanation
Indices: 71804931--71804970 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
71804921 GACTGGGAAA
*
71804931 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
71804949 AGGACACATATAAGGGCT
1 AGGAAACATATAAGGGCT
71804967 AGGA
1 AGGA
71804971 TACGCACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.10, G:0.30, T:0.17
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:71817028 original size:28 final size:27
Alignment explanation
Indices: 71816997--71817051 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
71816987 AAAAATAATT
*
71816997 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
71817025 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
71817052 TGAATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:71823643 original size:45 final size:45
Alignment explanation
Indices: 71823587--71823789 Score: 257
Period size: 45 Copynumber: 4.5 Consensus size: 45
71823577 CAAATAAAAA
* *
71823587 CATAGTTGAAAGACACTATGGCAATAT-ATCAGAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATGA-CAAAAATGAATAAGAC
* * *
71823632 CATAGTTGAAAGAAATTATGGCATCATGTA-AAAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATG-ACAAAAATGAATAAGAC
* * *
71823677 TAAAGTTGAAAGACACTATGGAAACATGACAAAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATGACAAAAATGAATAAGAC
**
71823722 CATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATGACAAAAATGAATAAGAC
* * *
71823767 CGTAGCTGAAAAACACTATGGCA
1 CATAGTTGAAAGACACTATGGCA
71823790 TCCTTGAACA
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 134 0.99
47 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (45 bp):
CATAGTTGAAAGACACTATGGCAACATGACAAAAATGAATAAGAC
Done.