Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 73 of 444
Found at i:17297730 original size:81 final size:81
Alignment explanation
Indices: 17297408--17297752 Score: 310
Period size: 81 Copynumber: 4.3 Consensus size: 81
17297398 AATACTTTAG
* * * * *
17297408 TTTACCAAATTACTAAAATACCC-CCAGC-TGTAAAATTAC-CAAAGTACCCCCAATTTATAAAA
1 TTTACAAAATTACTGAAATACCCTCGA-CTTGTAAAATTACTCAAA-TACCCCCGATTTACAAAA
*
17297470 TTACCCAAATACCCTCGA
64 TTACCGAAATACCCTCGA
* * * * * **
17297488 TTTATAAAATTA-TCGAAATACCGTTGA-TTGTAAAATTACTGAAATACCCTCGATTTGTAAAAT
1 TTTACAAAATTACT-GAAATACCCTCGACTTGTAAAATTACTCAAATACCCCCGATTTACAAAAT
*
17297551 TATCGAAATACCCTC-A
65 TACCGAAATACCCTCGA
* * * * *
17297567 CTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTC-AGTTTTCAAAA
1 -TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACTCAAATACCCCCGA-TTTACAAAA
**
17297631 TTACTAAAATACCCTCGA
64 TTACCGAAATACCCTCGA
** * *
17297649 TTTGTAAAATTACTAAAATACCCTTGACTTGTAAAATTAC-CAAAGTACCCCCGATTTACAAAAT
1 TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACTCAAA-TACCCCCGATTTACAAAAT
*** *
17297713 TACCGTTTTACCATCGA
65 TACCGAAATACCCTCGA
*
17297730 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACTGAAATACCC
17297753 CTGTAGGGTA
Statistics
Matches: 216, Mismatches: 38, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
79 2 0.01
80 82 0.38
81 130 0.60
82 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACTCAAATACCCCCGATTTACAAAATT
ACCGAAATACCCTCGA
Found at i:17297767 original size:27 final size:27
Alignment explanation
Indices: 17297744--17298094 Score: 504
Period size: 27 Copynumber: 13.0 Consensus size: 27
17297734 CAAAATTATT
17297744 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17297771 GAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
17297798 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
17297825 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17297852 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
17297879 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
17297906 GAAATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
17297933 TAAATACCCTTGTAGGATAAAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17297960 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
17297987 GAAATACCCCTGTAGGATAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
17298014 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17298041 GAAATACCCCTGTAGGGTAGAATTAAC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
17298068 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
17298095 ATTTTGCCCC
Statistics
Matches: 286, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 286 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:17298425 original size:20 final size:20
Alignment explanation
Indices: 17298379--17298425 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17298369 GAAGGCTGTG
* *
17298379 TGCCGTTATTGTGGGCTTCG
1 TGCCGATATTGTGGGCTTCA
**
17298399 TATCGATATTGTGGGCTTCA
1 TGCCGATATTGTGGGCTTCA
17298419 TGCCGAT
1 TGCCGAT
17298426 TATAGACCCG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (20 bp):
TGCCGATATTGTGGGCTTCA
Found at i:17298470 original size:22 final size:22
Alignment explanation
Indices: 17298442--17298500 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
17298432 CCCGTTATCG
17298442 ATGGCTTTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
17298464 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
17298486 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
17298501 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:17298688 original size:27 final size:26
Alignment explanation
Indices: 17298658--17298765 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
17298648 ATTCTGTGAA
*
17298658 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
*
17298685 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTG
17298712 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* * *
17298739 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
17298765 G
1 G
17298766 CAGCCATACT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 14 0.19
27 52 0.71
28 7 0.10
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:17298915 original size:25 final size:25
Alignment explanation
Indices: 17298887--17298949 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
17298877 TTCACATTCA
* * * *
17298887 GATTATGATTCTTTTACCTGATACT
1 GATTCTGATTCTGTCACCTAATACT
*
17298912 GATTCTGATTCTGTCACCTAATTCT
1 GATTCTGATTCTGTCACCTAATACT
17298937 GATTCTGATTCTG
1 GATTCTGATTCTG
17298950 ATTCTGATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (25 bp):
GATTCTGATTCTGTCACCTAATACT
Found at i:17298921 original size:6 final size:6
Alignment explanation
Indices: 17298904--17299006 Score: 77
Period size: 6 Copynumber: 16.8 Consensus size: 6
17298894 ATTCTTTTAC
* * *
17298904 CTGATA CTGATT CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
* * * *
17298953 CTGATT CTG-TCAC CTGATT TTGATT CTGATT CTCATT TTGATT CT-AGTT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT
17299002 CTGAT
1 CTGAT
17299007 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
5 3 0.04
6 65 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:17298945 original size:37 final size:37
Alignment explanation
Indices: 17298904--17298997 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
17298894 ATTCTTTTAC
*
17298904 CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* *
17298941 CTGATTCTGATTCTGATTCTGTCACCTGATTTTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* *
17298978 CTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCTGATTCT
17298998 AGTTCTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:17303054 original size:13 final size:13
Alignment explanation
Indices: 17303036--17303069 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
17303026 TATGTTTCAT
*
17303036 TATAATATTATAA
1 TATAATAATATAA
17303049 TATAATAATATAA
1 TATAATAATATAA
17303062 TATAATAA
1 TATAATAA
17303070 CATTTACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:17303121 original size:17 final size:17
Alignment explanation
Indices: 17303089--17303122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17303079 AAATAATAAG
*
17303089 TAAATATATATTTATTA
1 TAAATATATATATATTA
*
17303106 TAAATATATGTATATTA
1 TAAATATATATATATTA
17303123 ACATTACACA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAATATATATATATTA
Found at i:17309063 original size:27 final size:26
Alignment explanation
Indices: 17309026--17309140 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
17309016 AGCATGGCTG
* *
17309026 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17309052 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
17309080 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
17309107 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
17309134 CCAGAAC
1 CCAGAAC
17309141 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17309085 original size:54 final size:54
Alignment explanation
Indices: 17309026--17309140 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
17309016 AGCATGGCTG
*
17309026 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
17309080 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
17309134 CCAGAAC
1 CCAGAAC
17309141 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:17310790 original size:26 final size:26
Alignment explanation
Indices: 17310754--17310913 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
17310744 CATGAAATTC
*
17310754 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
17310780 TTATCATGAAAC-TTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
17310805 TTATCATGAAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17310831 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
17310857 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17310883 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17310908 TTATCA
1 TTATCA
17310914 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
25 47 0.36
26 82 0.64
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:17310834 original size:51 final size:52
Alignment explanation
Indices: 17310754--17310913 Score: 270
Period size: 51 Copynumber: 3.1 Consensus size: 52
17310744 CATGAAATTC
* *
17310754 TTATCATGAAACATTTACCTAACCCATTATCATGAAAC-TTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCTA
*
17310805 TTATCATGAAATATTTACCTAACCTATTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCTA
*
17310857 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCTA
17310908 TTATCA
1 TTATCA
17310914 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
51 59 0.57
52 44 0.43
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCTA
Found at i:17310898 original size:77 final size:77
Alignment explanation
Indices: 17310754--17310913 Score: 268
Period size: 77 Copynumber: 2.1 Consensus size: 77
17310744 CATGAAATTC
*
17310754 TTATCATGAAACATTTACCTAACCCATTATCATGAAACTTTACCTAACCCATTATCATGAAATAT
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACTTTACCTAACCCATTATCATGAAACAT
17310819 TTACCTAACCTA
66 TTACCTAACCTA
* * *
17310831 TTATCATGAAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTATTATCATG-AACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAAC-TTTACCTAACCCATTATCATGAAACA
17310895 TTTACCTAACCTA
65 TTTACCTAACCTA
17310908 TTATCA
1 TTATCA
17310914 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 58 0.74
78 20 0.26
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (77 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACTTTACCTAACCCATTATCATGAAACAT
TTACCTAACCTA
Found at i:17313796 original size:10 final size:10
Alignment explanation
Indices: 17313769--17313798 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
17313759 TACAGACAAT
17313769 AATTCAGAAA
1 AATTCAGAAA
17313779 ATATTCAGAAA
1 A-ATTCAGAAA
17313790 AATTCAGAA
1 AATTCAGAA
17313799 TACTTACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (10 bp):
AATTCAGAAA
Found at i:17313808 original size:21 final size:23
Alignment explanation
Indices: 17313759--17313809 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
17313749 AGGATTTTAG
17313759 TACAGACAATAATTCAGAAAATAT
1 TACAGACAATAATTCAG-AAATAT
17313783 T-CAGA-AA-AATTCAG-AATACT
1 TACAGACAATAATTCAGAAATA-T
17313803 TACAGAC
1 TACAGAC
17313810 TTGAGCTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
19 4 0.17
20 2 0.08
21 11 0.46
22 2 0.08
23 4 0.17
24 1 0.04
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.24
Consensus pattern (23 bp):
TACAGACAATAATTCAGAAATAT
Found at i:17314910 original size:27 final size:28
Alignment explanation
Indices: 17314873--17315011 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
17314863 AGCATGGCTG
* *
17314873 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
17314899 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
17314927 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
17314954 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
17314981 CCAGAT-CA-ATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
17315007 CCAGA
1 CCAGA
17315012 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
26 27 0.26
27 61 0.58
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:17316661 original size:26 final size:26
Alignment explanation
Indices: 17316625--17316786 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
17316615 CATGAAATTC
*
17316625 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
17316651 TTATCATGAAACCTTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
17316677 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17316703 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
17316729 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17316755 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17316781 TTATCA
1 TTATCA
17316787 ATTTGTATCA
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 131 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:17318862 original size:5 final size:5
Alignment explanation
Indices: 17318852--17318876 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17318842 ACTCATGTGA
17318852 TCAAT TCAAT TCAAT TCAAT TCAAT
1 TCAAT TCAAT TCAAT TCAAT TCAAT
17318877 ATCATCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:17319532 original size:6 final size:6
Alignment explanation
Indices: 17319521--17319547 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17319511 AAAACTCTAA
17319521 TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT
17319548 CTCCCCTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:17319632 original size:13 final size:13
Alignment explanation
Indices: 17319614--17319647 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17319604 TATGTTTCAT
* *
17319614 TATAATATTATAC
1 TATAATAATATAA
17319627 TATAATAATATAA
1 TATAATAATATAA
17319640 TATAATAA
1 TATAATAA
17319648 CATTTACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:17319699 original size:17 final size:17
Alignment explanation
Indices: 17319667--17319700 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17319657 AAATAATAAG
*
17319667 TAAATATATATTTATTA
1 TAAATATATATATATTA
*
17319684 TAAATATATGTATATTA
1 TAAATATATATATATTA
17319701 ACATTACACA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAATATATATATATTA
Found at i:17320375 original size:16 final size:16
Alignment explanation
Indices: 17320333--17320383 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
17320323 TATATTTTTT
17320333 TTATAATTGT-TTATA
1 TTATAATTGTGTTATA
*
17320348 ATATTCATATTGTGTTATA
1 TTA-T-A-ATTGTGTTATA
*
17320367 TTATAATTGTGATATA
1 TTATAATTGTGTTATA
17320383 T
1 T
17320384 ATGTATGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 2 0.07
16 12 0.41
17 2 0.07
18 6 0.21
19 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (16 bp):
TTATAATTGTGTTATA
Found at i:17338000 original size:12 final size:12
Alignment explanation
Indices: 17337983--17338015 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
17337973 TAGTTAGAAA
17337983 AAGAAATTATTG
1 AAGAAATTATTG
17337995 AAGAAATTATTG
1 AAGAAATTATTG
17338007 AAGAAATTA
1 AAGAAATTA
17338016 GGTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:17351065 original size:257 final size:256
Alignment explanation
Indices: 17350581--17351074 Score: 744
Period size: 257 Copynumber: 1.9 Consensus size: 256
17350571 TCATTTTATC
* * **
17350581 ATTTCAAAAAGAGATAAAAACAAATAAAGGAAGACTTGGTTAAGTTCTATCATTAATATGCCCTA
1 ATTTCAAAAAGAGATAAAAACAAACAAAGGAAGACTTGGTCAAACTCTATCATTAATATGCCCTA
* * *
17350646 AGTTTGAGGGTTGTGGAACAACACCTAACCTGGAAAGTTGATGAACAAAGGCAAGTTTAGGTAAG
66 AGTTTGAGGGTTGTGGAACAACACCTAAACTGGAAAGTTAATGAACAAAGGCAAATTTAGGTAAG
** *
17350711 GTTGATTGACATTGAAAGTTTTCCTGTCAACATGATCTTGGATAAAGTGAAGATTGATTACAAGG
131 GTTGATTGACATTGAAAGTTTTCCAATCAACACGATCTTGGATAAAGTGAAGATTGATTACAAGG
*
17350776 TGCTTCATATTTGTATGCATAACCAACTGTTGACAACAATATTTTAAAAAAATAAATCCAA
196 TGCTTCATATTTCTATGCATAACCAACTGTTGACAACAATATTTTAAAAAAATAAATCCAA
* *
17350837 ATTTTAAAAAGAGAT-AAAA-GAACAAAGGAAGACTTGGTCAAACTCTATCATTAATATGCCTCC
1 ATTTCAAAAAGAGATAAAAACAAACAAAGGAAGACTTGGTCAAACTCTATCATTAATATG---CC
* *
17350900 CTAAGTTT-AGGGGTTGTGGAACAACACCTAAATTGGAAAGTTAATGAACAAAGGCAAATTTGGG
63 CTAAGTTTGA-GGGTTGTGGAACAACACCTAAACTGGAAAGTTAATGAACAAAGGCAAATTTAGG
** *
17350964 TAAGGTTGATTGACATTGAAAGTTTTCCAATCAATGCGATCTTGGCTAAAGTGAAGATTGATTAC
127 TAAGGTTGATTGACATTGAAAGTTTTCCAATCAACACGATCTTGGATAAAGTGAAGATTGATTAC
*
17351029 GAGGTGCTTCATATTTCTATGCATAA-CAAGCTGTTGACAACAATAT
192 AAGGTGCTTCATATTTCTATGCATAACCAA-CTGTTGACAACAATAT
17351075 GTGGCCCCAA
Statistics
Matches: 214, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
254 34 0.16
255 4 0.02
256 18 0.08
257 158 0.74
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (256 bp):
ATTTCAAAAAGAGATAAAAACAAACAAAGGAAGACTTGGTCAAACTCTATCATTAATATGCCCTA
AGTTTGAGGGTTGTGGAACAACACCTAAACTGGAAAGTTAATGAACAAAGGCAAATTTAGGTAAG
GTTGATTGACATTGAAAGTTTTCCAATCAACACGATCTTGGATAAAGTGAAGATTGATTACAAGG
TGCTTCATATTTCTATGCATAACCAACTGTTGACAACAATATTTTAAAAAAATAAATCCAA
Found at i:17351565 original size:26 final size:26
Alignment explanation
Indices: 17351529--17351664 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
17351519 TGATACAAAT
17351529 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17351555 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17351581 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17351607 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17351633 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17351659 TGATAA
1 TGATAA
17351665 GAATTTCATG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:17351764 original size:10 final size:10
Alignment explanation
Indices: 17351749--17351778 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
17351739 AGAACAAAGT
17351749 TTTGTCCATC
1 TTTGTCCATC
17351759 TTTGTCCATC
1 TTTGTCCATC
*
17351769 TTTGTTCATC
1 TTTGTCCATC
17351779 ATAGCTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (10 bp):
TTTGTCCATC
Found at i:17353335 original size:27 final size:27
Alignment explanation
Indices: 17353294--17353433 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
17353284 GAGGAAGCGT
*
17353294 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
17353321 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
17353348 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
17353375 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
17353403 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
17353429 TCTGG
1 TCTGG
17353434 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:17353379 original size:54 final size:55
Alignment explanation
Indices: 17353294--17353433 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
17353284 GAGGAAGCGT
* * *
17353294 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
17353348 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
17353403 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
17353434 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:17356039 original size:48 final size:49
Alignment explanation
Indices: 17355957--17356049 Score: 161
Period size: 48 Copynumber: 1.9 Consensus size: 49
17355947 TTTATTTGTC
17355957 TTTAATTAAATTTTTTATTCTATATTAAAAATATATTTTAAATATTTAA
1 TTTAATTAAATTTTTTATTCTATATTAAAAATATATTTTAAATATTTAA
* *
17356006 TTTAATTTAATTTTTTATTCTGT-TTAAAAATATATTTTAAATAT
1 TTTAATTAAATTTTTTATTCTATATTAAAAATATATTTTAAATAT
17356050 GAAATGTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 21 0.50
49 21 0.50
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (49 bp):
TTTAATTAAATTTTTTATTCTATATTAAAAATATATTTTAAATATTTAA
Found at i:17356069 original size:49 final size:48
Alignment explanation
Indices: 17355966--17356068 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 48
17355956 CTTTAATTAA
** *
17355966 ATTTTTTATTCTATATTAAAAATATATTTTAAATATTTAATTTAATTT
1 ATTTTTTATTCTATATTAAAAATATATTTTAAATATGAAATTTAAATT
* *
17356014 AATTTTTTATTCTGT-TTAAAAATATATTTTAAATATGAAATGTTAAA-A
1 -ATTTTTTATTCTATATTAAAAATATATTTTAAATATGAAAT-TTAAATT
17356062 ATTTTTT
1 ATTTTTT
17356069 TAAGTGGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 7 0.15
48 24 0.50
49 17 0.35
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (48 bp):
ATTTTTTATTCTATATTAAAAATATATTTTAAATATGAAATTTAAATT
Found at i:17356070 original size:48 final size:48
Alignment explanation
Indices: 17355957--17356068 Score: 147
Period size: 49 Copynumber: 2.3 Consensus size: 48
17355947 TTTATTTGTC
**
17355957 TTTAATTAAATTTTTTATTCTATATTAAAAATATATTTTAAATATTTAA
1 TTTAA-TAAATTTTTTATTCTATATTAAAAATATATTTTAAATATGAAA
* *
17356006 TTTAATTTAATTTTTTATTCTGT-TTAAAAATATATTTTAAATATGAAA
1 TTTAA-TAAATTTTTTATTCTATATTAAAAATATATTTTAAATATGAAA
17356054 TGTTAA-AAATTTTTT
1 T-TTAATAAATTTTTT
17356069 TAAGTGGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 8 0.14
48 24 0.42
49 25 0.44
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (48 bp):
TTTAATAAATTTTTTATTCTATATTAAAAATATATTTTAAATATGAAA
Found at i:17357149 original size:13 final size:12
Alignment explanation
Indices: 17357119--17357159 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
17357109 CGTTAATGTC
* *
17357119 TTCTCTTTTCTT
1 TTCTTTTTTTTT
17357131 TTCTTTTTTTTT
1 TTCTTTTTTTTT
*
17357143 TTCCTTTTTTTT
1 TTCTTTTTTTTT
17357155 TTCTT
1 TTCTT
17357160 AGATATAGGT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:17362927 original size:10 final size:10
Alignment explanation
Indices: 17362881--17362938 Score: 62
Period size: 11 Copynumber: 5.4 Consensus size: 10
17362871 GTTATTTTGC
17362881 AAAATGGAGAG
1 AAAAT-GAGAG
17362892 AAAATAGATGAG
1 AAAAT-GA-GAG
* *
17362904 AAAAAGAAATG
1 AAAATGAGA-G
17362915 AAAATGAGAG
1 AAAATGAGAG
17362925 AAAATGAGAG
1 AAAATGAGAG
17362935 AAAA
1 AAAA
17362939 AGGGAGGTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 16 0.40
11 17 0.43
12 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (10 bp):
AAAATGAGAG
Found at i:17365284 original size:53 final size:55
Alignment explanation
Indices: 17365185--17365379 Score: 294
Period size: 53 Copynumber: 3.6 Consensus size: 55
17365175 TCATATCTTT
17365185 TAAGATTGTATATCATATCTAAGATTG--TATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
*
17365239 TAAGATTG-TATCATATCTAAGATTGCA-ATCATATCTAAGACTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
* *
17365292 TAAGATTG-TATCATATCTAAGATTGCATATCACATCTAAGATTG-TATCATATC
1 TAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
*
17365345 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCATATCAT
17365380 TGAAGATTAT
Statistics
Matches: 130, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
52 17 0.13
53 68 0.52
54 22 0.17
55 23 0.18
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (55 bp):
TAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
Found at i:17365387 original size:17 final size:18
Alignment explanation
Indices: 17365185--17365376 Score: 127
Period size: 17 Copynumber: 10.7 Consensus size: 18
17365175 TCATATCTTT
* *
17365185 TAAGATTGTATATCATATC
1 TAAGATTGCATAT-ACATC
*
17365204 TAAGATTG--TATCATATC
1 TAAGATTGCATAT-ACATC
*
17365221 TAAGATTGCA-ATCATATC
1 TAAGATTGCATAT-ACATC
*
17365239 TAAGATTG--TATCATATC
1 TAAGATTGCATAT-ACATC
*
17365256 TAAGATTGCA-ATCATATC
1 TAAGATTGCATAT-ACATC
* *
17365274 TAAGACTGCA-ATCATATC
1 TAAGATTGCATAT-ACATC
*
17365292 TAAGATTG--TATCATATC
1 TAAGATTGCATAT-ACATC
17365309 TAAGATTGCATATCACATC
1 TAAGATTGCATAT-ACATC
*
17365328 TAAGATTG--TATCATATC
1 TAAGATTGCATAT-ACATC
17365345 TAAGATTGCATATCACATC
1 TAAGATTGCATAT-ACATC
17365364 TAAGATTGCATAT
1 TAAGATTGCATAT
17365377 CATTGAAGAT
Statistics
Matches: 158, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
17 65 0.41
18 48 0.30
19 45 0.28
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCATATACATC
Found at i:17365387 original size:36 final size:38
Alignment explanation
Indices: 17365185--17365379 Score: 277
Period size: 36 Copynumber: 5.4 Consensus size: 38
17365175 TCATATCTTT
*
17365185 TAAGATTGTATATCATATCTAAGATTG--TATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCATATCATATC
17365221 TAAGATTGCA-ATCATATCTAAGATTG--TATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCATATCATATC
*
17365256 TAAGATTGCA-ATCATATCTAAGACTGCA-ATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCATATCATATC
*
17365292 TAAGATTG--TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGCATATCATATCTAAGATTGCATATCATATC
*
17365328 TAAGATTG--TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGCATATCATATCTAAGATTGCATATCATATC
17365364 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
17365380 TGAAGATTAT
Statistics
Matches: 149, Mismatches: 4, Indels: 10
0.91 0.02 0.06
Matches are distributed among these distances:
35 67 0.45
36 76 0.51
38 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTGCATATCATATC
Found at i:17366201 original size:207 final size:207
Alignment explanation
Indices: 17365744--17366664 Score: 1547
Period size: 207 Copynumber: 4.5 Consensus size: 207
17365734 AAATCTGCTT
* * * *
17365744 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
17365809 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* ** ** *
17365874 GGATC-TGCTTCAGTCTAAACATCTGAAGGTTAGATCTGCTATAAGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
17365938 GGAGACGCCAAA
196 GGAGACGCCAAA
*
17365950 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
17366015 GTGAAATCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGAACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
17366080 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGCCTACCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
17366145 GGAGACGCCAAA
196 GGAGACGCCAAA
17366157 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
17366222 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
17366287 GGATCTTGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
17366352 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
17366364 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
17366429 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
17366494 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
17366559 GGATACGCCAAA
196 GGAGACGCCAAA
* * * * *
17366571 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
17366636 GTGAAAGCTAAATTAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
17366665 CTACTTTCCA
Statistics
Matches: 672, Mismatches: 42, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 125 0.19
207 547 0.81
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:17367062 original size:85 final size:84
Alignment explanation
Indices: 17366789--17367161 Score: 517
Period size: 85 Copynumber: 4.4 Consensus size: 84
17366779 TATGCTATAC
17366789 TTTAACCTGTTACCCTACTGCTTAAGGGG-TTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCT
1 TTTAACCTGTTACCCTACTGCTT-AGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCT
* * *
17366852 TAGGGAGACAAGATCTACAAT
64 TAGGGAGATAAGATCTGCAAA
* * *
17366873 TTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCAATCTGCTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
17366938 TTAGGGAGATAAGATCTGC---
63 TTAGGGAGATAAGATCTGCAAA
* * * * *
17366957 --GAACTTGTTACCCTACTGCTTAGGAGATTAAGGCGAGTCTTCGATCTACTCCACTACTTCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
17367020 GGGAGAATAAGATCTGCAAA
66 GGGAG-ATAAGATCTGCAAA
* *
17367040 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
17367105 GGGAGAATAAGATCTGCAAA
66 GGGAG-ATAAGATCTGCAAA
17367125 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
17367162 CTGAATTTTG
Statistics
Matches: 259, Mismatches: 19, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
79 24 0.09
80 11 0.04
81 1 0.00
82 35 0.14
83 6 0.02
84 32 0.12
85 115 0.44
87 35 0.14
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:17367064 original size:44 final size:44
Alignment explanation
Indices: 17367010--17367151 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
17367000 ATCTACTCCA
*
17367010 CTACTTCTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
1 CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
* * **** ** * *
17367054 CTACTGCTTAGGG-GATTAAG-GC-GGGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
*
17367094 ACTACTACTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
17367139 CTACTGCTTAGGG
1 CTACTGCTTAGGG
17367152 GATTAAGGCG
Statistics
Matches: 70, Mismatches: 23, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
40 2 0.03
41 20 0.29
42 7 0.10
43 7 0.10
44 32 0.46
45 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
Found at i:17368125 original size:12 final size:12
Alignment explanation
Indices: 17368108--17368154 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
17368098 GGCCTCTCCA
17368108 TTTTTTT-TTTT
1 TTTTTTTCTTTT
17368119 TTTTTTTCTTTT
1 TTTTTTTCTTTT
* *
17368131 TTTTCTTCTCTT
1 TTTTTTTCTTTT
17368143 TTTTTTTCTTTT
1 TTTTTTTCTTTT
17368155 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:17373920 original size:35 final size:36
Alignment explanation
Indices: 17373866--17374024 Score: 243
Period size: 35 Copynumber: 4.4 Consensus size: 36
17373856 TCATATCTTT
*
17373866 TAAGATTGTATATCATATCTAAGATTG-TATCATATC
1 TAAGATTGCA-ATCATATCTAAGATTGCTATCATATC
17373902 TAAGATTGCAATCATATCTAAGATTG-TATCATATC
1 TAAGATTGCAATCATATCTAAGATTGCTATCATATC
*
17373937 TAAGATTGCAATCATATCTAAGATTGCAATCATATC
1 TAAGATTGCAATCATATCTAAGATTGCTATCATATC
*
17373973 TAAGATTG-TATCATATCTAAGATTGCATATCATATC
1 TAAGATTGCAATCATATCTAAGATTGC-TATCATATC
17374009 TAAGATTGCATATCAT
1 TAAGATTGCA-ATCAT
17374025 TGAAGATTAT
Statistics
Matches: 114, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
35 68 0.60
36 41 0.36
38 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TAAGATTGCAATCATATCTAAGATTGCTATCATATC
Found at i:17374032 original size:17 final size:19
Alignment explanation
Indices: 17373867--17374032 Score: 174
Period size: 17 Copynumber: 9.3 Consensus size: 19
17373857 CATATCTTTT
* *
17373867 AAGATTGTATATCATATCT
1 AAGATTGCATATCATATCG
*
17373886 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
*
17373903 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
17373921 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
*
17373938 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
17373956 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
17373974 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
*
17373991 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
17374010 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
17374027 AAGATT
1 AAGATT
17374033 ATATTTCCAT
Statistics
Matches: 138, Mismatches: 1, Indels: 18
0.88 0.01 0.11
Matches are distributed among these distances:
17 55 0.40
18 51 0.37
19 32 0.23
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:17374032 original size:53 final size:54
Alignment explanation
Indices: 17373866--17374024 Score: 270
Period size: 53 Copynumber: 2.9 Consensus size: 54
17373856 TCATATCTTT
17373866 TAAGATTGTATATCATATCTAAGATTG--TATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
17373920 TAAGATTGTATCATATCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
17373973 TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
17374025 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
52 17 0.17
53 53 0.52
54 26 0.26
55 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (54 bp):
TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATC
Found at i:17381373 original size:20 final size:20
Alignment explanation
Indices: 17381350--17381388 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17381340 TTGGACAAAG
17381350 GACTAAATCATAATA-AATTT
1 GACTAAATCA-AATAGAATTT
*
17381370 GACTAATTCAAATAGAATT
1 GACTAAATCAAATAGAATT
17381389 AAGAACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (20 bp):
GACTAAATCAAATAGAATTT
Found at i:17389583 original size:27 final size:27
Alignment explanation
Indices: 17389544--17389729 Score: 158
Period size: 27 Copynumber: 6.9 Consensus size: 27
17389534 CAGTTTGATG
* *
17389544 AAATGACTATTTTTCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
17389571 AAATGACTGTTTTGCCTCTT-TGTGGTA
1 AAATGACTGTTTTGCC-CTTATGTGGTA
* * * * * * *
17389598 AAATGATTGTATTACCCCTGTGTGATT
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * * *
17389625 AAATAACTATTTTTCCCTTACGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
17389652 AAATGATTGTTTTGCCCTTGTGAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * * *
17389679 AAATGATTATTTTTCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
17389706 AGATGACTGTTTTGCCCCTATGTG
1 AAATGACTGTTTTGCCCTTATGTG
17389730 ATGTGTGTTT
Statistics
Matches: 121, Mismatches: 36, Indels: 4
0.75 0.22 0.02
Matches are distributed among these distances:
26 2 0.02
27 116 0.96
28 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:17389641 original size:81 final size:81
Alignment explanation
Indices: 17389530--17389686 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 81
17389520 GTATACGTAG
* * * *
17389530 ACCCCAGTTTGATGAAATGACTATTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCTCTT-TGT
1 ACCCCAGTGTGATGAAATAACTATTTTTCCCTTACGTGGTAAAATGACTGTTTTGCC-CTTGTGA
17389594 GGTAAAATGATTGTATT
65 GGTAAAATGATTGTATT
* * *
17389611 ACCCCTGTGTGATTAAATAACTATTTTTCCCTTACGTGGTAAAATGATTGTTTTGCCCTTGTGAG
1 ACCCCAGTGTGATGAAATAACTATTTTTCCCTTACGTGGTAAAATGACTGTTTTGCCCTTGTGAG
17389676 GTAAAATGATT
66 GTAAAATGATT
17389687 ATTTTTCCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.04
81 65 0.96
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (81 bp):
ACCCCAGTGTGATGAAATAACTATTTTTCCCTTACGTGGTAAAATGACTGTTTTGCCCTTGTGAG
GTAAAATGATTGTATT
Found at i:17390731 original size:30 final size:31
Alignment explanation
Indices: 17390607--17390750 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
17390597 TTAGTCTTGA
*
17390607 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
17390637 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
17390668 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
17390699 CATATCACTGGGCCGAAGCCTTTTCA-AAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
17390729 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
17390751 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
29 13 0.12
30 18 0.16
31 81 0.72
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:17390821 original size:42 final size:42
Alignment explanation
Indices: 17390774--17390907 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
17390764 TGGCCCTTAG
*
17390774 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17390816 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17390858 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17390900 GCCCATTT
1 GCCCATTT
17390908 GGGGAGACTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:17391083 original size:25 final size:25
Alignment explanation
Indices: 17391055--17391112 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
17391045 CTCTTTTAAT
17391055 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
17391080 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
17391105 AACTGGGG
1 AACTGGGG
17391113 AGCCCTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17391956 original size:27 final size:27
Alignment explanation
Indices: 17391926--17391988 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
17391916 GGGCATATTC
17391926 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
17391953 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
17391980 GTCTTTTTA
1 GTCATTTTA
17391989 TTAGGGGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:17392070 original size:27 final size:27
Alignment explanation
Indices: 17392017--17392300 Score: 163
Period size: 27 Copynumber: 10.7 Consensus size: 27
17392007 TTTCATCCTA
* * * * *
17392017 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
17392044 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
17392071 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * *
17392100 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * *
17392127 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
** * *
17392154 TGAGGGTATTTC-GTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
17392180 C-AGTGGTATTTCGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * *
17392206 CTAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * *
17392233 TAGGGGTATTTTGGTAATTTTA-CAA-
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * *
17392258 CTAGGGTATTTTGGTAATTCT-T--A-
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
17392281 CAAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCGGTAATTT
17392301 CAAATCGAGG
Statistics
Matches: 207, Mismatches: 43, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
23 17 0.08
25 19 0.09
26 44 0.21
27 98 0.47
28 14 0.07
29 15 0.07
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:17392169 original size:26 final size:26
Alignment explanation
Indices: 17392130--17392283 Score: 213
Period size: 26 Copynumber: 5.8 Consensus size: 26
17392120 TGTAAATCAG
*
17392130 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
* * *
17392157 GGGTA-TTTCGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACTA
*
17392182 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
17392209 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
17392235 GGGGTATTTTGGTAATTTTAC-AACTA
1 -GGGTATTTTGGTAATTTTACAAACTA
17392261 GGGTATTTTGGTAATTCTTACAA
1 GGGTATTTTGGTAATT-TTACAA
17392284 GGGTATTTCA
Statistics
Matches: 113, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
25 18 0.16
26 52 0.46
27 43 0.38
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:17392190 original size:53 final size:52
Alignment explanation
Indices: 17392020--17392283 Score: 226
Period size: 53 Copynumber: 4.9 Consensus size: 52
17392010 CATCCTACAA
* * * * ** *
17392020 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTC-GTAATTTTACAAACCAG
* * * * ** *
17392074 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAA--CTAGGGTATTTC-GTAATTTTACAAACCAG
* *
17392130 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTCGTAATTTTACAAACCAG
* * * *
17392183 TGGTATTTCGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGTA-TTTCGTAATTTTACAAACCAG
*
17392236 GGGTATTTTGGTAATTTTAC-AACTAGGGTATTTTGGTAATTCTTACAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGTA-TTTCGTAATT-TTACAA
17392284 GGGTATTTCA
Statistics
Matches: 176, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
52 27 0.15
53 77 0.44
54 19 0.11
55 16 0.09
56 37 0.21
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTCGTAATTTTACAAACCAG
Found at i:17392340 original size:27 final size:27
Alignment explanation
Indices: 17392302--17392394 Score: 143
Period size: 27 Copynumber: 3.4 Consensus size: 27
17392292 CAGTAATTTC
17392302 AAATCGAGGGTAAAACGGTAATTTTGT
1 AAATCGAGGGTAAAACGGTAATTTTGT
*
17392329 AAA-CTGAGGGTAAAATGGTAATTTTGT
1 AAATC-GAGGGTAAAACGGTAATTTTGT
* *
17392356 AAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTTTGT
17392383 AAATCGAGGGTA
1 AAATCGAGGGTA
17392395 CTTTGGTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 58 0.97
28 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTTTGT
Found at i:17392402 original size:27 final size:27
Alignment explanation
Indices: 17392302--17392419 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
17392292 CAGTAATTTC
* *
17392302 AAATCGAGGGTAAAACGGTAATTTTGT
1 AAATCGAGGGTAAAATGGTAATTTTAT
*
17392329 AAA-CTGAGGGTAAAATGGTAATTTTGT
1 AAATC-GAGGGTAAAATGGTAATTTTAT
* *
17392356 AAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAATGGTAATTTTAT
*** *
17392383 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTAAAATGGTAATTTTAT
*
17392410 AAGTCGAGGG
1 AAATCGAGGG
17392420 ATTTCATAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (27 bp):
AAATCGAGGGTAAAATGGTAATTTTAT
Found at i:17392417 original size:54 final size:54
Alignment explanation
Indices: 17392294--17392419 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
17392284 GGGTATTTCA
* *
17392294 GTAA-TTT-CAAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATG
** ***
17392346 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACT-GAGGGTAAAATG
*
17392400 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
17392420 ATTTCATAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.06
53 4 0.06
54 54 0.87
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATG
Found at i:17393890 original size:14 final size:14
Alignment explanation
Indices: 17393859--17393893 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
17393849 CCAATTTCGA
*
17393859 AAAAAGAAAAAAAT
1 AAAAATAAAAAAAT
17393873 -AAAATAAAAAAAT
1 AAAAATAAAAAAAT
17393886 AAAAATAA
1 AAAAATAA
17393894 TTTTCTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:17394711 original size:31 final size:31
Alignment explanation
Indices: 17394668--17394813 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
17394658 TTAGCCTTGA
* *
17394668 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
*
17394698 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
17394729 CATATCACTGGGCCGAAGCCTTTTCATAAAC
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
17394760 CATATCACTGGGCCGAAGCCTTTTCATAAAC
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
17394791 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
17394814 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
30 5 0.04
31 108 0.96
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAC
Found at i:17394884 original size:42 final size:42
Alignment explanation
Indices: 17394837--17394928 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
17394827 TGGCCCTTAG
*
17394837 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17394879 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17394921 GCCCATTT
1 GCCCATTT
17394929 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:17395104 original size:25 final size:24
Alignment explanation
Indices: 17395076--17395143 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
17395066 CTCTTTTAAT
17395076 AACTGGGGCAAAGCCCTTTCTGATA
1 AACTGGGGCAAAGCCCTTTC-GATA
* *
17395101 AACTGGGGCAAAGCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTCGATA
*
17395125 AACTGGGGCAGAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
17395144 TAGCACTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 20 0.51
25 19 0.49
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTCGATA
Found at i:17395144 original size:25 final size:26
Alignment explanation
Indices: 17395076--17395144 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
17395066 CTCTTTTAAT
17395076 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
17395101 AACTGGGGCAAAG-CCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
17395125 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17395145 AGCACTCCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.43
25 23 0.57
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:17396083 original size:27 final size:27
Alignment explanation
Indices: 17396053--17396160 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
17396043 GTAAATCTAC
17396053 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
17396080 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
17396106 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
17396136 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
17396161 ACAAATTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:17396158 original size:56 final size:55
Alignment explanation
Indices: 17396057--17396186 Score: 147
Period size: 56 Copynumber: 2.4 Consensus size: 55
17396047 ATCTACAAAC
* *
17396057 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTTTACAAAGT
* * * * *
17396113 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTTTACAAATT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTTTACAAAGT
* *
17396168 GAA-GGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
17396187 CACAAACCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 15 0.23
55 12 0.19
56 37 0.58
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (55 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTACAAAGT
Found at i:17396166 original size:27 final size:26
Alignment explanation
Indices: 17396116--17396293 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
17396106 AGAAAGTCAA
**
17396116 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAA-CAG
**
17396143 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAACAG
* * *
17396169 AAGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-CAG
* * *
17396197 TGGTATTTCGGTAATATTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
* *
17396224 GGATATTTTGGTAATTTAACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
*
17396251 GGGTATTTTGGTAATTTTGCAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
*
17396278 GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATT
17396294 CTATCCTATA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.02
27 122 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:17396274 original size:81 final size:81
Alignment explanation
Indices: 17396141--17396292 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
17396131 TTTGTAAATC
* * * *
17396141 AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGATATTTTGGTAATTTAACAAATAGAAGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
17396206 GGTAATATTACAAACT
66 GGTAATATTACAAACT
* * ** * *
17396222 AGGGATATTTTGGTAATTTAACAAACTAG-GGGTATTTTGGTAATTTTGCAAACTAGGGGTGTTT
1 AGGGATATTTTGGTAATTTAACAAA-TAGAAGGTATTTCGGTAATTTCACAAACCAGGGGTATTT
*
17396286 TGGTAAT
65 CGGTAAT
17396293 TCTATCCTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 57 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (81 bp):
AGGGATATTTTGGTAATTTAACAAATAGAAGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
GGTAATATTACAAACT
Found at i:17396277 original size:54 final size:53
Alignment explanation
Indices: 17396140--17396293 Score: 191
Period size: 54 Copynumber: 2.8 Consensus size: 53
17396130 TTTTGTAAAT
* * * *
17396140 CAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTAACAAAC
* * *
17396194 CAGTGGTATTTCGGTAATATTACAAACTAGGGATATTTTGGTAATTTAACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGG-TATTTTGGTAATTTAACAAAC
* * *
17396248 TAGGGGTATTTTGGTAATTTTGCAAACTAGGGGTGTTTTGGTAATT
1 CAGGGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATT
17396294 CTATCCTATA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.93
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTAACAAAC
Found at i:17396306 original size:54 final size:54
Alignment explanation
Indices: 17396141--17396326 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 54
17396131 TTTGTAAATC
* * * * * *
17396141 AGGGGTATTTTGGTAATTTTACAAATTGAAGG-TATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTTACAAACT-AGGGATATTTTGGTAATTTAACAAACT
* *
17396195 AGTGGTATTTCGGTAATATTACAAACTAGGGATATTTTGGTAATTTAACAAACT
1 AGGGGTATTTCGGTAATTTTACAAACTAGGGATATTTTGGTAATTTAACAAACT
* * * * * **
17396249 AGGGGTATTTTGGTAATTTTGCAAACTAGGGGTGTTTTGGTAATTCTATCCTA-T
1 AGGGGTATTTCGGTAATTTTACAAACTAGGGATATTTTGGTAATT-TAACAAACT
* *
17396303 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTTACAA
17396327 TCAAGGGTAA
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.03
54 102 0.94
55 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTCGGTAATTTTACAAACTAGGGATATTTTGGTAATTTAACAAACT
Found at i:17396344 original size:26 final size:26
Alignment explanation
Indices: 17396315--17396373 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
17396305 GGGTATTTCA
17396315 GTAATTT-CACAATCAAGGGTAAAACG
1 GTAATTTGCA-AATCAAGGGTAAAACG
*
17396341 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAA-TTTGCAAATCAAGGGTAAAACG
*
17396368 ATAATT
1 GTAATT
17396374 CTATAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 22 0.76
28 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (26 bp):
GTAATTTGCAAATCAAGGGTAAAACG
Found at i:17396389 original size:27 final size:27
Alignment explanation
Indices: 17396325--17396381 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
17396315 GTAATTTCAC
* * *
17396325 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACGATAATTCTATA
17396352 AATCAAGGGTAAAACGATAATTCTATA
1 AATCAAGGGTAAAACGATAATTCTATA
17396379 AAT
1 AAT
17396382 TGAGGGTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.28
Consensus pattern (27 bp):
AATCAAGGGTAAAACGATAATTCTATA
Found at i:17398028 original size:19 final size:19
Alignment explanation
Indices: 17398004--17398041 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17397994 TTCGAAAGAT
17398004 AAATGTTTTTCAAAAATAC
1 AAATGTTTTTCAAAAATAC
17398023 AAATGTTTTTCAAAAATAC
1 AAATGTTTTTCAAAAATAC
17398042 CACATATACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
AAATGTTTTTCAAAAATAC
Found at i:17400937 original size:18 final size:18
Alignment explanation
Indices: 17400903--17401198 Score: 168
Period size: 18 Copynumber: 16.1 Consensus size: 18
17400893 TTATTAACAA
* *
17400903 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
17400920 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
17400938 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * * *
17400956 TCAATAATAACCAGTCAT
1 TCAGTAACAATCAATTAT
* *
17400974 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
17400998 ATCCAGTAACAGTCAATTAT
1 -T-CAGTAACAATCAATTAT
* *
17401018 TTAGTAA-AATTAGA-TAT
1 TCAGTAACAATCA-ATTAT
* *
17401035 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
17401054 TCAGTAACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
17401072 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
*
17401090 TCAGTAATGAA-CAATTAT
1 TCAGTAA-CAATCAATTAT
* * *
17401108 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
17401126 TCAGTAACAGTCTATTAT
1 TCAGTAACAATCAATTAT
* *
17401144 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
17401162 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
17401180 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
17401198 T
1 T
17401199 TTATACCTTT
Statistics
Matches: 214, Mismatches: 50, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
17 17 0.08
18 162 0.76
19 19 0.09
20 1 0.00
24 1 0.00
25 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:17401124 original size:72 final size:72
Alignment explanation
Indices: 17400996--17401198 Score: 191
Period size: 72 Copynumber: 2.8 Consensus size: 72
17400986 AATTGATCGG
* * * ** *
17400996 TTATCCAGTAACAGTCAATTATTTAGTAA-A-ATTAGA-TATTCAGTAGCAATTAAGTTATTCAG
1 TTATCCAGTAACAATCAATTATTCAGTAACAGA-CA-ATTATTCAGTAATAA-TCAGTTATTCAG
17401058 TAACAAT-TA
63 TAACAATCTA
* * * * *
17401067 TTTATTCAGTGACAATCAGTTATTCAGTAA-TGAACAATTATTCAGTAATATTCAGTTATTCAGT
1 -TTATCCAGTAACAATCAATTATTCAGTAACAG-ACAATTATTCAGTAATAATCAGTTATTCAGT
*
17401131 AACAGTCTA
64 AACAATCTA
* * *
17401140 TTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGACAATTATTCAGTAATAATCAGTTATT
17401199 TTATACCTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
72 91 0.86
73 14 0.13
74 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAGACAATTATTCAGTAATAATCAGTTATTCAGTAA
CAATCTA
Found at i:17401420 original size:45 final size:45
Alignment explanation
Indices: 17401371--17401469 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
17401361 ATTCGGAACG
** *
17401371 GTAACAGTATTCAACACACAAAGTGTTGAATCGATAACTGTAACA
1 GTAACAGTATTCAACACACAAAGTGTCAAATCGATAACAGTAACA
* * * *
17401416 GTAACAGCATTCGACACACAAAGTGTCAAATCGGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTCAAATCGATAACAGTAACA
17401461 GTAACAGTA
1 GTAACAGTA
17401470 ATAGTAGTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGTCAAATCGATAACAGTAACA
Found at i:17403217 original size:5 final size:5
Alignment explanation
Indices: 17403209--17403267 Score: 109
Period size: 5 Copynumber: 11.6 Consensus size: 5
17403199 TTTATATAAT
17403209 ATATA ATATA TATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
17403260 ATATA ATA
1 ATATA ATA
17403268 ACAATTTCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 48 0.91
6 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:17406511 original size:19 final size:19
Alignment explanation
Indices: 17406487--17406584 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
17406477 AATCTTTAAG
17406487 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17406506 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
17406525 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17406542 GATATCCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17406561 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
17406582 GAT
1 GAT
17406585 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17406517 original size:36 final size:36
Alignment explanation
Indices: 17406477--17406584 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 36
17406467 ATGGAAATAT
*
17406477 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAATCTTAGATATGATATCC
*
17406513 AATC-TT-AGGTATGATACAATCTTAGATATGATATCC
1 AATCTTTAAGG-AT-ATGCAATCTTAGATATGATATCC
* *
17406549 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT-TA-AGGATATGCAATCTT--AGATATGAT
17406585 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 3 0.05
35 4 0.07
36 29 0.49
37 1 0.02
38 9 0.15
39 2 0.03
40 11 0.19
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAATCTTAGATATGATATCC
Found at i:17409574 original size:18 final size:18
Alignment explanation
Indices: 17409553--17409835 Score: 147
Period size: 18 Copynumber: 15.3 Consensus size: 18
17409543 GAACAATTAT
* *
17409553 TTATTCAGTAACAGTCAC
1 TTATTCAGTAACAATCAA
*
17409571 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
17409589 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* *
17409607 TTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
17409625 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
17409651 TTATTTAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
17409669 -TATTCAGTAGCAATTAA
1 TTATTCAGTAACAATCAA
* * * *
17409686 GTTATTCAGTAATAGTTAT
1 -TTATTCAGTAACAATCAA
* * *
17409705 TTATTCAATGACAATCAG
1 TTATTCAGTAACAATCAA
**
17409723 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
17409741 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
* * *
17409759 TTATTCGGTAACAGTCTA
1 TTATTCAGTAACAATCAA
* *
17409777 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* **
17409795 TTATTCGGTAACAGCCAA
1 TTATTCAGTAACAATCAA
* *
17409813 TTATTCAATAATAATCAA
1 TTATTCAGTAACAATCAA
17409831 TTATT
1 TTATT
17409836 TTATACCTTT
Statistics
Matches: 197, Mismatches: 56, Indels: 24
0.71 0.20 0.09
Matches are distributed among these distances:
17 13 0.07
18 153 0.78
19 15 0.08
20 1 0.01
24 1 0.01
25 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:17410058 original size:45 final size:45
Alignment explanation
Indices: 17410003--17410113 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
17409993 ATCTGGAACA
**
17410003 ATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 ATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCG
* *
17410048 ATAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCAAATCG
1 ATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCG
* *
17410093 GTAACAGTAACGGTAACAGTA
1 ATAACAGTAACAGTAACAGTA
17410114 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (45 bp):
ATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCG
Found at i:17410108 original size:12 final size:12
Alignment explanation
Indices: 17410091--17410115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17410081 AGTGCCAAAT
17410091 CGGTAACAGTAA
1 CGGTAACAGTAA
17410103 CGGTAACAGTAA
1 CGGTAACAGTAA
17410115 C
1 C
17410116 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:17411437 original size:24 final size:20
Alignment explanation
Indices: 17411396--17411436 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17411386 TTCAATTTAA
17411396 TCCTAACTAAATTCACTTAC
1 TCCTAACTAAATTCACTTAC
17411416 TCCTAACTAAATTCACTTAC
1 TCCTAACTAAATTCACTTAC
17411436 T
1 T
17411437 TTTCTATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (20 bp):
TCCTAACTAAATTCACTTAC
Found at i:17412514 original size:23 final size:23
Alignment explanation
Indices: 17412460--17412541 Score: 112
Period size: 23 Copynumber: 3.6 Consensus size: 23
17412450 CCGCATTACA
* * *
17412460 GAAACGGTAAGCTCTATTGAGCT
1 GAAACAGTAAGCTCCAATGAGCT
17412483 -AAACAGTAAGCTCCAATGAGCT
1 GAAACAGTAAGCTCCAATGAGCT
* *
17412505 GAAACGGTAAGCTCCAGTGAGCT
1 GAAACAGTAAGCTCCAATGAGCT
17412528 GAAACAGTAAGCTC
1 GAAACAGTAAGCTC
17412542 TTACGAGTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.37
23 33 0.63
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (23 bp):
GAAACAGTAAGCTCCAATGAGCT
Found at i:17414998 original size:34 final size:34
Alignment explanation
Indices: 17414955--17415022 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17414945 GAAGTACTTT
17414955 CAACCAATGCTTGGACAAACTCCTTTCTTCTTCC
1 CAACCAATGCTTGGACAAACTCCTTTCTTCTTCC
17414989 CAACCAATGCTTGGACAAACTCCTTTCTTCTTCC
1 CAACCAATGCTTGGACAAACTCCTTTCTTCTTCC
17415023 TTCACTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.35, G:0.09, T:0.32
Consensus pattern (34 bp):
CAACCAATGCTTGGACAAACTCCTTTCTTCTTCC
Found at i:17422233 original size:23 final size:23
Alignment explanation
Indices: 17422205--17422259 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
17422195 CTGGACCCAA
17422205 TTTGAATTAGCTTTAAATTCAAT
1 TTTGAATTAGCTTTAAATTCAAT
17422228 TTTGAATTAGCTTTAAATTCAAT
1 TTTGAATTAGCTTTAAATTCAAT
*
17422251 TTTTAATTA
1 TTTGAATTA
17422260 ATTCACTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTGAATTAGCTTTAAATTCAAT
Found at i:17427780 original size:27 final size:27
Alignment explanation
Indices: 17427748--17427801 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
17427738 GGAAGAAATG
*
17427748 ATAATTTTTCTGAGTAAAATGTCAATT
1 ATAATTTTTCTAAGTAAAATGTCAATT
17427775 ATAATTTTTCTAAGTAAAATGTCAATT
1 ATAATTTTTCTAAGTAAAATGTCAATT
17427802 TGGTTGAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (27 bp):
ATAATTTTTCTAAGTAAAATGTCAATT
Found at i:17434330 original size:27 final size:26
Alignment explanation
Indices: 17434290--17434384 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 26
17434280 ATAGTCACAA
*
17434290 ATTATCTGATCTGGTGGCTCTGCCAC
1 ATTATCTGTTCTGGTGGCTCTGCCAC
17434316 ATATATCTGTTCTGGTGGCTCTGCCAC
1 AT-TATCTGTTCTGGTGGCTCTGCCAC
* *
17434343 GATTATCTGTATCTGGTGACTCTGTCAC
1 -ATTATCTGT-TCTGGTGGCTCTGCCAC
17434371 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
17434385 CAGCCATGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.11
27 39 0.62
28 17 0.27
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTGCCAC
Found at i:17441849 original size:27 final size:28
Alignment explanation
Indices: 17441775--17441860 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
17441765 AGGAAGCGTC
* * *
17441775 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGACTCTGCCAC-GATTATCTGTAT
*
17441803 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCACGATTATCTGTAT
* *
17441831 TTGGTGACTCTGTCA-GATTATCTGT-T
1 CTGGTGACTCTGCCACGATTATCTGTAT
17441857 CTGG
1 CTGG
17441861 CAGCCAAGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
26 4 0.08
27 18 0.35
28 29 0.57
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (28 bp):
CTGGTGACTCTGCCACGATTATCTGTAT
Found at i:17444893 original size:25 final size:25
Alignment explanation
Indices: 17444864--17444911 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17444854 TTATAATATG
* * *
17444864 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17444889 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17444912 GTTTATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17444962 original size:9 final size:9
Alignment explanation
Indices: 17444950--17445006 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
17444940 TTTGATAAAC
17444950 ATGATATGT
1 ATGATATGT
17444959 ATGATATGT
1 ATGATATGT
*
17444968 ACATGACATGT
1 --ATGATATGT
*
17444979 ATGATATGCAC
1 ATGATATG--T
17444990 ATGATATGT
1 ATGATATGT
17444999 ATGATATG
1 ATGATATG
17445007 CACATGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:17444973 original size:20 final size:20
Alignment explanation
Indices: 17444948--17445018 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
17444938 ATTTTGATAA
*
17444948 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
*
17444968 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17444988 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17445008 ACATGAGATGT
1 ACATGATATGT
17445019 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17445192 original size:25 final size:24
Alignment explanation
Indices: 17445065--17445279 Score: 298
Period size: 23 Copynumber: 9.0 Consensus size: 24
17445055 AGGAAGTGCA
17445065 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
17445088 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
17445111 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
17445134 AAAGGGCTTATGCCCCAGTT-TAT
1 AAAGGGCTTATGCCCCAGTTATAT
17445157 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
17445182 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
17445207 AAAGGGCTTATGCCCTAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
17445231 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
17445255 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
17445280 GATAAAGCAG
Statistics
Matches: 177, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
22 1 0.01
23 87 0.49
24 31 0.18
25 58 0.33
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:17445507 original size:31 final size:31
Alignment explanation
Indices: 17445471--17445534 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17445461 CGTTTACAGT
*
17445471 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
17445502 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17445533 AA
1 AA
17445535 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17449807 original size:25 final size:25
Alignment explanation
Indices: 17449778--17449825 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17449768 TTATAATATG
* * *
17449778 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17449803 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17449826 GTTTATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17449876 original size:9 final size:9
Alignment explanation
Indices: 17449864--17449920 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17449854 TTTGATAAAG
17449864 ATGATATGT
1 ATGATATGT
*
17449873 ATGATATGCAC
1 ATGATATG--T
*
17449884 ATGACATGT
1 ATGATATGT
*
17449893 ATGATATGCAC
1 ATGATATG--T
17449904 ATGATATGT
1 ATGATATGT
17449913 ATGATATG
1 ATGATATG
17449921 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:17449892 original size:20 final size:20
Alignment explanation
Indices: 17449864--17449932 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
17449854 TTTGATAAAG
17449864 ATGATATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
*
17449884 ATGACATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
17449904 ATGATATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
*
17449924 ATGAGATGT
1 ATGATATGT
17449933 TCATAAATGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGATATGTATGATATGCAC
Found at i:17449909 original size:11 final size:11
Alignment explanation
Indices: 17449873--17449927 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17449863 GATGATATGT
17449873 ATGATATGCAC
1 ATGATATGCAC
* *
17449884 ATGACATG--T
1 ATGATATGCAC
17449893 ATGATATGCAC
1 ATGATATGCAC
*
17449904 ATGATATG--T
1 ATGATATGCAC
17449913 ATGATATGCAC
1 ATGATATGCAC
17449924 ATGA
1 ATGA
17449928 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17450058 original size:25 final size:24
Alignment explanation
Indices: 17449979--17450172 Score: 252
Period size: 25 Copynumber: 8.0 Consensus size: 24
17449969 AGGAAGTGCA
17449979 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
17450002 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
17450025 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
17450050 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
17450075 GAAGGGCTTATGCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
17450100 AAAGGGCTTATGCCCTAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
17450124 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
17450148 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
17450173 GATAAAGCAG
Statistics
Matches: 155, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
23 45 0.29
24 30 0.19
25 80 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:17450398 original size:31 final size:31
Alignment explanation
Indices: 17450362--17450425 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17450352 CGTTTACAGT
*
17450362 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
17450393 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17450424 AA
1 AA
17450426 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17453967 original size:18 final size:18
Alignment explanation
Indices: 17453946--17453988 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
17453936 TGAGGATTTT
*
17453946 GCTTGAGGACAAGCAAAC
1 GCTTAAGGACAAGCAAAC
17453964 GCTTAAGGACAAGCAAAC
1 GCTTAAGGACAAGCAAAC
17453982 GCTTAAG
1 GCTTAAG
17453989 TGTGGGGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (18 bp):
GCTTAAGGACAAGCAAAC
Found at i:17457718 original size:28 final size:28
Alignment explanation
Indices: 17457678--17457738 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
17457668 GACGATAAAT
* *
17457678 AAGGGTGCAAAAGAGAGGAGAAAGGAAG
1 AAGGGTGAAAAAGAGAGGAAAAAGGAAG
*
17457706 AAGGGTGAAAAAGAGAGGAAAAAGGAAT
1 AAGGGTGAAAAAGAGAGGAAAAAGGAAG
17457734 AAGGG
1 AAGGG
17457739 AAAAAATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.41, T:0.05
Consensus pattern (28 bp):
AAGGGTGAAAAAGAGAGGAAAAAGGAAG
Found at i:17457744 original size:28 final size:28
Alignment explanation
Indices: 17457686--17457744 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
17457676 ATAAGGGTGC
* **
17457686 AAAAGAGAGGAGAAAGGAAGAAGGGTGA
1 AAAAGAGAGGAAAAAGGAAGAAGGGAAA
*
17457714 AAAAGAGAGGAAAAAGGAATAAGGGAAA
1 AAAAGAGAGGAAAAAGGAAGAAGGGAAA
17457742 AAA
1 AAA
17457745 TGTGTTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (28 bp):
AAAAGAGAGGAAAAAGGAAGAAGGGAAA
Found at i:17471904 original size:23 final size:25
Alignment explanation
Indices: 17471872--17471920 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17471862 CTTATTAAAG
*
17471872 TATGCCAC-AAGG-GCCATACAAAA
1 TATGCCACAAAGGCGACATACAAAA
*
17471895 TATGCTACAAAGGCGACATACAAAA
1 TATGCCACAAAGGCGACATACAAAA
17471920 T
1 T
17471921 TACGTGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.16
Consensus pattern (25 bp):
TATGCCACAAAGGCGACATACAAAA
Found at i:17472190 original size:110 final size:110
Alignment explanation
Indices: 17471993--17472233 Score: 288
Period size: 110 Copynumber: 2.2 Consensus size: 110
17471983 TATACATAAA
** * * * *
17471993 TTCATGTATTGTGATCTATTC-GTTCTATGTTCATATTATCGAAGGCTACACCATGAACATTCAT
1 TTCATGTATTGTGATCT-GCCAGTTCAATGTTCACACTATCAAAGGCTACACCATGAACATTCAT
* * * * * *
17472057 ACAATCGTATCTTGCCATTGGTCTCAGCCACATGGACGT-ACACATT
65 ACAATCATATCTTACAATGGGTCTCAGCCACATAGAC-TCACACACT
* * *
17472103 TTCATGTATTGTGATCTGCCAGTTCAATGTTCACACTATTAAAGGCTACATCATGAACATTCATG
1 TTCATGTATTGTGATCTGCCAGTTCAATGTTCACACTATCAAAGGCTACACCATGAACATTCATA
* *
17472168 CAGTCATATCTTACAATGGGTCTTAGCCACATAGACTCACACACT
66 CAATCATATCTTACAATGGGTCTCAGCCACATAGACTCACACACT
*
17472213 TTCATGTATCGTGATCTGCCA
1 TTCATGTATTGTGATCTGCCA
17472234 TTCCAATCTT
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
109 2 0.02
110 109 0.98
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (110 bp):
TTCATGTATTGTGATCTGCCAGTTCAATGTTCACACTATCAAAGGCTACACCATGAACATTCATA
CAATCATATCTTACAATGGGTCTCAGCCACATAGACTCACACACT
Found at i:17477462 original size:2 final size:2
Alignment explanation
Indices: 17477455--17477481 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17477445 TGCTTCCCTC
17477455 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
17477482 TTCCTCTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17481548 original size:13 final size:13
Alignment explanation
Indices: 17481530--17481554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17481520 TGTTGGTGCA
17481530 CACGGTCGTGTCG
1 CACGGTCGTGTCG
17481543 CACGGTCGTGTC
1 CACGGTCGTGTC
17481555 TGTCTTTGTT
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:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGTCGTGTCG
Found at i:17482378 original size:14 final size:14
Alignment explanation
Indices: 17482359--17482385 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17482349 TATTGTCAGT
17482359 TTTAGTAGAACGGA
1 TTTAGTAGAACGGA
17482373 TTTAGTAGAACGG
1 TTTAGTAGAACGG
17482386 TTTGGATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (14 bp):
TTTAGTAGAACGGA
Found at i:17483862 original size:43 final size:43
Alignment explanation
Indices: 17483814--17483902 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
17483804 GTAAGCCGTC
17483814 TCAGGTGTCTTATTAATGATAGTTCCTCCAGCGGCTGCATCAA
1 TCAGGTGTCTTATTAATGATAGTTCCTCCAGCGGCTGCATCAA
*
17483857 TCAGGTGTCTTATTATTGATAGTTCCTCCAGCGGCTGCATCAA
1 TCAGGTGTCTTATTAATGATAGTTCCTCCAGCGGCTGCATCAA
17483900 TCA
1 TCA
17483903 TCTCCCGAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (43 bp):
TCAGGTGTCTTATTAATGATAGTTCCTCCAGCGGCTGCATCAA
Found at i:17487275 original size:27 final size:27
Alignment explanation
Indices: 17487239--17487298 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
17487229 GATTTAAGAA
* *
17487239 AGAGAAATAGAGAGTAATATCTTGCAG
1 AGAGAAATAGAGAATAATATCTTGAAG
17487266 AGAGAAATAGAGAATAATATCTTGAAG
1 AGAGAAATAGAGAATAATATCTTGAAG
*
17487293 AAAGAA
1 AGAGAA
17487299 GAACCTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.52, C:0.05, G:0.23, T:0.20
Consensus pattern (27 bp):
AGAGAAATAGAGAATAATATCTTGAAG
Found at i:17491484 original size:28 final size:28
Alignment explanation
Indices: 17491449--17491502 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
17491439 GACACTACTA
17491449 AAACTTTACACTTTCAGTATACTAACCG
1 AAACTTTACACTTTCAGTATACTAACCG
17491477 AAACTTTACACTTTCAGTATACTAAC
1 AAACTTTACACTTTCAGTATACTAAC
17491503 TTGGGTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (28 bp):
AAACTTTACACTTTCAGTATACTAACCG
Found at i:17498660 original size:20 final size:20
Alignment explanation
Indices: 17498635--17498693 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
17498625 CGTGATAGGA
17498635 TTTGTGTTCCTAAGGATACT
1 TTTGTGTTCCTAAGGATACT
17498655 TTTGTGTTCCTAAGGATACT
1 TTTGTGTTCCTAAGGATACT
17498675 TTTGTGTTCCTAAGGATAC
1 TTTGTGTTCCTAAGGATAC
17498694 CGAGTTGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTGTGTTCCTAAGGATACT
Found at i:17508394 original size:41 final size:40
Alignment explanation
Indices: 17508328--17508411 Score: 114
Period size: 41 Copynumber: 2.1 Consensus size: 40
17508318 ACGTCAAATT
* *
17508328 GAAAAAGAAAAGATAATAATTCAATTCCAAATAGAAATAG
1 GAAAAAGAAAAGAGAATAATCCAATTCCAAATAGAAATAG
* * *
17508368 GAAAAGAGAAGAGAGAATAATCCAATTCCAAATTGAAGTAG
1 GAAAA-AGAAAAGAGAATAATCCAATTCCAAATAGAAATAG
17508409 GAA
1 GAA
17508412 TACAAAAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 5 0.13
41 33 0.87
ACGTcount: A:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (40 bp):
GAAAAAGAAAAGAGAATAATCCAATTCCAAATAGAAATAG
Found at i:17508515 original size:15 final size:15
Alignment explanation
Indices: 17508495--17508529 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
17508485 TAAATAATTT
*
17508495 AATAAATTAAAATAA
1 AATAAATAAAAATAA
17508510 AATAAATAAAAATAA
1 AATAAATAAAAATAA
17508525 AATAA
1 AATAA
17508530 TATCTTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATAAAAATAA
Found at i:17512910 original size:47 final size:47
Alignment explanation
Indices: 17512839--17513104 Score: 276
Period size: 47 Copynumber: 5.7 Consensus size: 47
17512829 TGGGTAAGGT
17512839 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* *
17512886 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCA-A
* * * * * *
17512934 GCCGATG-CATGTACAAGACAT-GTCTTACACTGGCTTACGTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AA
* * * *
17512980 GCCGATG-CATGTCCCTGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * ***
17513025 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAA
*
17513074 GCCAATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
17513105 AGCCAACAAC
Statistics
Matches: 186, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.38
47 83 0.45
48 30 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:17513087 original size:94 final size:92
Alignment explanation
Indices: 17512838--17513107 Score: 323
Period size: 94 Copynumber: 2.9 Consensus size: 92
17512828 GTGGGTAAGG
* * * * *
17512838 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGAGGCCGATG-CATGTCCCA
17512903 GACATGGTCTTACACT-GACTATCATCTCA
65 GACAT-GTCTTACACTAG-CTATCATCTCA
* * *
17512932 TAGCCGATG-CATGTACAAGACAT-GTCTTACACTGGCT-TACGTATCGAGGCCGATGCATGTCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAT-GAGGCCGATGCATGTCC
* * *
17512994 CTGACATGTCTTACACTAGCTCTCGTCTCAA
63 CAGACATGTCTTACACTAGCTATCATCTC-A
* *
17513025 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGAGGCCGATGCATGTCCCA
17513090 GACATGTCTTACACTAGC
65 GACATGTCTTACACTAGC
17513108 CAACAACAAC
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
92 25 0.17
93 45 0.30
94 70 0.47
95 10 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGAGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCTATCATCTCA
Found at i:17513099 original size:140 final size:141
Alignment explanation
Indices: 17512839--17513104 Score: 376
Period size: 140 Copynumber: 1.9 Consensus size: 141
17512829 TGGGTAAGGT
* *
17512839 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAG
* *
17512904 ACATGGTCTTACACTGACTATCATCTCATAGCCGATGCATGTACAAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATATCATAGCCAATGCATGTACAAGACATGTCTTACACTGGCT
17512969 TACGTATCGAG
131 TACGTATCGAG
* * *
17512980 GCCGATG-CATGTCCCTGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCCCA
* * * * * *
17513043 GACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATGCATGTCCCAGACATGTCTTACACT
65 GACATGGTCTTACACTGACTATCAT-ATCATAGCCAATGCATGTACAAGACATGTCTTACACT
17513105 AGCCAACAAC
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
139 21 0.19
140 81 0.74
141 8 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATATCATAGCCAATGCATGTACAAGACATGTCTTACACTGGCT
TACGTATCGAG
Found at i:17517704 original size:28 final size:26
Alignment explanation
Indices: 17517644--17517705 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
17517634 CAACAATTTT
17517644 AGAAAATTATCAAAAAATAAAAGTAA
1 AGAAAATTATCAAAAAATAAAAGTAA
* *
17517670 ATAAAAATT-TCAAAAATATATAAAGTGAG
1 A-GAAAATTATCAAAAA-ATA-AAAGT-AA
17517699 AGAAAAT
1 AGAAAAT
17517706 GAGGGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 8 0.28
27 9 0.31
28 10 0.34
29 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (26 bp):
AGAAAATTATCAAAAAATAAAAGTAA
Found at i:17518587 original size:22 final size:23
Alignment explanation
Indices: 17518546--17518588 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17518536 TTTGAGGACT
* *
17518546 AAAATTGTTACTATACCAACTAA
1 AAAATTGTCACTATAACAACTAA
17518569 AAAATTGTCACT-TAACAACT
1 AAAATTGTCACTATAACAACT
17518589 CAGTGACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (23 bp):
AAAATTGTCACTATAACAACTAA
Found at i:17521259 original size:24 final size:24
Alignment explanation
Indices: 17521244--17521294 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17521234 AATCAATGTC
*
17521244 AAATATATTATGCTAATAAATCCT
1 AAATATATTATACTAATAAATCCT
*
17521268 AAATATATTATACTAAT-AATACT
1 AAATATATTATACTAATAAATCCT
17521291 AAAT
1 AAAT
17521295 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATCCT
Found at i:17521424 original size:2 final size:2
Alignment explanation
Indices: 17521417--17521452 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17521407 AACCTTAGTT
*
17521417 TA TA TA 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 TA TA TA
17521453 AACTCAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Done.