Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 6 of 17
Found at i:735612 original size:21 final size:20
Alignment explanation
Indices: 735586--735664 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 20
735576 GTTGGGACCT
735586 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTA-AA
**
735607 TGTATCGATACATTCCATAAA
1 TGTATCGATACATT-TGTAAA
* **
735628 TGTATTGATACATTCTACAAA
1 TGTATCGATACATT-TGTAAA
735649 TGTATCGATACATTTG
1 TGTATCGATACATTTG
735665 GATAAAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.02
21 47 0.94
22 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTGTAAA
Found at i:736612 original size:11 final size:11
Alignment explanation
Indices: 736596--736654 Score: 75
Period size: 12 Copynumber: 5.3 Consensus size: 11
736586 TCATTCATAC
736596 AAAAAAAACAA
1 AAAAAAAACAA
736607 AAAAAAAAC-A
1 AAAAAAAACAA
736617 AAAAAAAACAA
1 AAAAAAAACAA
* *
736628 AAAAACCAAGAA
1 AAAAA-AAACAA
736640 AAAAAATAACAA
1 AAAAAA-AACAA
736652 AAA
1 AAA
736655 CAGAAATGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 10 0.24
11 15 0.37
12 16 0.39
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:736620 original size:21 final size:22
Alignment explanation
Indices: 736596--736654 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 22
736586 TCATTCATAC
736596 AAAAAAAACAAAAAAA-AA-ACA
1 AAAAAAAACAAAAAAACAAGA-A
736617 AAAAAAAACAAAAAAACCAAGAA
1 AAAAAAAACAAAAAAA-CAAGAA
736640 AAAAAATAACAAAAA
1 AAAAAA-AACAAAAA
736655 CAGAAATGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 16 0.47
23 9 0.26
24 9 0.26
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAACAAAAAAACAAGAA
Found at i:736628 original size:30 final size:31
Alignment explanation
Indices: 736594--736654 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
736584 TGTCATTCAT
736594 ACAAAAAAAACAA-AAAAAAAACAAAAAAAA
1 ACAAAAAAAACAAGAAAAAAAACAAAAAAAA
* * *
736624 ACAAAAAAACCAAGAAAAAAAATAACAAAAA
1 ACAAAAAAAACAAGAAAAAAAACAAAAAAAA
736655 CAGAAATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (31 bp):
ACAAAAAAAACAAGAAAAAAAACAAAAAAAA
Found at i:736642 original size:10 final size:10
Alignment explanation
Indices: 736596--736632 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
736586 TCATTCATAC
736596 AAAAAAAACAA
1 AAAAAAAAC-A
736607 AAAAAAAACA
1 AAAAAAAACA
736617 AAAAAAAACA
1 AAAAAAAACA
736627 AAAAAA
1 AAAAAA
736633 CCAAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:736653 original size:9 final size:8
Alignment explanation
Indices: 736597--736654 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 8
736587 CATTCATACA
736597 AAAAAAAC
1 AAAAAAAC
736605 -AAAAAA-
1 AAAAAAAC
*
736611 AAAACAA-
1 AAAAAAAC
736618 AAAAAAAC
1 AAAAAAAC
736626 AAAAAAACC
1 AAAAAAA-C
*
736635 AAGAAAA-
1 AAAAAAAC
*
736642 AAAATAAC
1 AAAAAAAC
736650 AAAAA
1 AAAAA
736655 CAGAAATGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
7 22 0.55
8 11 0.28
9 7 0.17
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:742896 original size:13 final size:13
Alignment explanation
Indices: 742878--742902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
742868 AAATTAATAT
742878 ATCTAACATAAAA
1 ATCTAACATAAAA
742891 ATCTAACATAAA
1 ATCTAACATAAA
742903 GTTATAACTT
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
ATCTAACATAAAA
Found at i:743958 original size:28 final size:27
Alignment explanation
Indices: 743927--743993 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 27
743917 AATTTATAAA
743927 ATATAAAAATTATTTTATATTAATATTT
1 ATATAAAAATTATTTTATATTAA-ATTT
*
743955 ATAT----ATT-TTATA-ATTAAATTT
1 ATATAAAAATTATTTTATATTAAATTT
*
743976 AAATAAAAATTATTTTAT
1 ATATAAAAATTATTTTAT
743994 TTTATAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 13
0.65 0.07 0.28
Matches are distributed among these distances:
21 7 0.23
22 5 0.17
23 4 0.13
24 3 0.10
25 3 0.10
26 4 0.13
28 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATATAAAAATTATTTTATATTAAATTT
Found at i:745357 original size:24 final size:25
Alignment explanation
Indices: 745325--745371 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
745315 CTTTCACATG
745325 CCAAAAAAAA-AAAAAAAAAAAAGC
1 CCAAAAAAAAGAAAAAAAAAAAAGC
* *
745349 CCAATAAAAAGAAAAGAAAAAAA
1 CCAAAAAAAAGAAAAAAAAAAAA
745372 CATCTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (25 bp):
CCAAAAAAAAGAAAAAAAAAAAAGC
Found at i:746794 original size:2 final size:2
Alignment explanation
Indices: 746787--746819 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
746777 CCTTTGAATC
*
746787 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
746820 TGATACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:746820 original size:10 final size:10
Alignment explanation
Indices: 746791--746831 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
746781 TGAATCTATA
*
746791 TATATATATA
1 TATATATATT
746801 TATATATATT
1 TATATATATT
746811 TATATATATT
1 TATATATATT
* *
746821 GATACATATT
1 TATATATATT
746831 T
1 T
746832 TAACCAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (10 bp):
TATATATATT
Found at i:747304 original size:16 final size:17
Alignment explanation
Indices: 747278--747309 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
747268 ATTCTGTACC
747278 ATTTATTTTTCCAAATG
1 ATTTATTTTTCCAAATG
747295 ATTT-TTTTTCCAAAT
1 ATTTATTTTTCCAAAT
747310 ATATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTATTTTTCCAAATG
Found at i:750190 original size:16 final size:16
Alignment explanation
Indices: 750165--750195 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
750155 TTAGTATATT
750165 AAAAAGTAATAAATAA
1 AAAAAGTAATAAATAA
*
750181 AAAAATTAATAAATA
1 AAAAAGTAATAAATA
750196 TAAATATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAAGTAATAAATAA
Found at i:750731 original size:2 final size:2
Alignment explanation
Indices: 750724--750759 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
750714 TTAAACACAT
*
750724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
750760 CATACATGCC
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
Found at i:750843 original size:22 final size:23
Alignment explanation
Indices: 750813--750856 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
750803 TGGAGATAAG
* *
750813 ATTATAAATATATTATTTTCAAA
1 ATTATAAATAAAATATTTTCAAA
750836 ATTA-AAATAAAATATTTTCAA
1 ATTATAAATAAAATATTTTCAA
750857 GAGATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTATAAATAAAATATTTTCAAA
Found at i:757481 original size:13 final size:13
Alignment explanation
Indices: 757463--757487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
757453 CAAAGATCAG
757463 TGTATCGATACAA
1 TGTATCGATACAA
757476 TGTATCGATACA
1 TGTATCGATACA
757488 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:757569 original size:32 final size:33
Alignment explanation
Indices: 757528--757593 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
757518 AGTAGCTTAA
757528 ATTGTATCGATACAAAAC-TTATGTATAGATAC
1 ATTGTATCGATACAAAACTTTATGTATAGATAC
* * *
757560 ATTGTATCGATACAACACTTTTTGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATAGATAC
757593 A
1 A
757594 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATAGATAC
Found at i:761585 original size:52 final size:52
Alignment explanation
Indices: 761505--761624 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
761495 AAAAGTTACT
* *
761505 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
761557 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
761609 TGCATGTATCGATACA
1 TGCATGTATCGATACA
761625 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:761637 original size:52 final size:52
Alignment explanation
Indices: 761505--761644 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
761495 AAAAGTTACT
* *
761505 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
761557 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*
761609 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
761645 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:761651 original size:13 final size:13
Alignment explanation
Indices: 761633--761657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
761623 CAAAGATCGG
761633 TGTATCGATACAA
1 TGTATCGATACAA
761646 TGTATCGATACA
1 TGTATCGATACA
761658 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:761735 original size:33 final size:33
Alignment explanation
Indices: 761698--761764 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
761688 AGTAGCTTAA
761698 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
761731 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
761764 A
1 A
761765 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:761738 original size:13 final size:13
Alignment explanation
Indices: 761720--761744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
761710 CAAAAAAATA
761720 TGTATCGATACAT
1 TGTATCGATACAT
761733 TGTATCGATACA
1 TGTATCGATACA
761745 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:764295 original size:22 final size:23
Alignment explanation
Indices: 764258--764301 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
764248 AAAATATCTC
* *
764258 TTGAAAATATTTTATTT-TAATT
1 TTGAAAATAATATATTTATAATT
764280 TTGAAAATAATATATTTATAAT
1 TTGAAAATAATATATTTATAAT
764302 CTTATCTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
TTGAAAATAATATATTTATAATT
Found at i:764367 original size:2 final size:2
Alignment explanation
Indices: 764355--764390 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
764345 GGCATGTATG
*
764355 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
764391 ATGTGTTTAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:764938 original size:16 final size:16
Alignment explanation
Indices: 764919--764949 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
764909 TTTATATTTA
764919 TATTTATTAATTTTTT
1 TATTTATTAATTTTTT
*
764935 TATTTATTACTTTTT
1 TATTTATTAATTTTT
764950 AATATACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATTAATTTTTT
Found at i:765930 original size:10 final size:9
Alignment explanation
Indices: 765898--765928 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
765888 AATATTTAAA
*
765898 TTTTAATAT
1 TTTTAATTT
765907 TTTTAATTT
1 TTTTAATTT
765916 TTTTAATTT
1 TTTTAATTT
765925 TTTT
1 TTTT
765929 TATCTCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTAATTT
Found at i:767839 original size:16 final size:17
Alignment explanation
Indices: 767818--767849 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
767808 GTTTTTATAT
767818 ATTTGGAAAAA-AAATC
1 ATTTGGAAAAATAAATC
767834 ATTTGGAAAAATAAAT
1 ATTTGGAAAAATAAAT
767850 GGTACAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.28
Consensus pattern (17 bp):
ATTTGGAAAAATAAATC
Found at i:768310 original size:10 final size:10
Alignment explanation
Indices: 768296--768344 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
768286 AAGTTGGTTA
*
768296 AAATATGTAT
1 AAATATATAT
*
768306 CAATATATAT
1 AAATATATAT
768316 AAATATATAT
1 AAATATATAT
*
768326 ATATATATAT
1 AAATATATAT
*
768336 ATATATATA
1 AAATATATA
768345 GATTCAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (10 bp):
AAATATATAT
Found at i:768315 original size:2 final size:2
Alignment explanation
Indices: 768308--768344 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
768298 ATATGTATCA
*
768308 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
768345 GATTCAAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:769795 original size:24 final size:25
Alignment explanation
Indices: 769760--769806 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
769750 TAGTAAGATG
769760 TTTTTTTCTTTTCTTTTTATTGGGC
1 TTTTTTTCTTTTCTTTTTATTGGGC
* *
769785 TTTTTTT-TTTTTTTTTTTTTGG
1 TTTTTTTCTTTTCTTTTTATTGG
769807 CATGTGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.81
Consensus pattern (25 bp):
TTTTTTTCTTTTCTTTTTATTGGGC
Found at i:770896 original size:2 final size:2
Alignment explanation
Indices: 770889--770921 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
770879 TATTAGTATG
*
770889 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
770922 TTGTTACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:771185 original size:21 final size:21
Alignment explanation
Indices: 771161--771200 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
771151 AATTTTTATT
771161 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
771182 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
771201 ATTTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:772251 original size:13 final size:13
Alignment explanation
Indices: 772235--772259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
772225 AAGTTATAAC
772235 TTTATGTTAGATT
1 TTTATGTTAGATT
772248 TTTATGTTAGAT
1 TTTATGTTAGAT
772260 ATATTAATTT
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
TTTATGTTAGATT
Found at i:773285 original size:12 final size:12
Alignment explanation
Indices: 773268--773293 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
773258 AAAATTGACG
773268 GCACAGTTGGCA
1 GCACAGTTGGCA
773280 GCACAGTTGGCA
1 GCACAGTTGGCA
773292 GC
1 GC
773294 CTTTGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.15
Consensus pattern (12 bp):
GCACAGTTGGCA
Found at i:777990 original size:12 final size:12
Alignment explanation
Indices: 777973--777998 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
777963 AAAATTGACG
777973 GCACAGTTGGCA
1 GCACAGTTGGCA
777985 GCACAGTTGGCA
1 GCACAGTTGGCA
777997 GC
1 GC
777999 CTTTGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.15
Consensus pattern (12 bp):
GCACAGTTGGCA
Found at i:779966 original size:152 final size:154
Alignment explanation
Indices: 779642--780097 Score: 648
Period size: 152 Copynumber: 3.0 Consensus size: 154
779632 AGTCTGACAG
* * * * * * * *
779642 ACATAAAGTAACTGTTAAATGCCTTTACTTTGGTGATAACTGTAGTTAGAAAG-CAAGGGTCATT
1 ACATAGAGTAACTATTAAATGCCATTGCTTTGGTGATAGCCGTAGTTAGAAAGTGAA-GGCCATT
*
779706 TTAAATAAGAAATCGAACATGTGGTAGATTACAAAATATAATGGGTCACATAGTTGCGTAAATGC
65 TTAAGTAAGAAATCGAACATGTGGTAGATTACAAAATATAATGGGTCACATAGTTGCGTAAATGC
* * *
779771 ACTTTTGTCACAACATCATCAGAAG
130 AATTTTGTCACAAGATCATCAGAAA
* *
779796 ACATAGAGTAACTATTAAATGCCCTTGCTTTGGTGATAGCCGTAGTTGGAAAGTGAAGGCCATTT
1 ACATAGAGTAACTATTAAATGCCATTGCTTTGGTGATAGCCGTAGTTAGAAAGTGAAGGCCATTT
* *
779861 TAAGTAAGAAATCGAACATGTGGTAAATTA-TAAA-ATAATGGGTCACATAGTTGCGTAAATGCA
66 TAAGTAAGAAATCGAACATGTGGTAGATTACAAAATATAATGGGTCACATAGTTGCGTAAATGCA
*
779924 ATTTTGTCACAAGATCATCATAAA
131 ATTTTGTCACAAGATCATCAGAAA
* * * * *
779948 ACATAGAGTAACTATTAAATGACATCGCTTTGGTGATAGCCATAATTAGAAAGTGATGGCCATTT
1 ACATAGAGTAACTATTAAATGCCATTGCTTTGGTGATAGCCGTAGTTAGAAAGTGAAGGCCATTT
* * *
780013 TAAGTAAGAAATCGAACATGTGGTAGATTACAAAATATAATAGGTCGCATAGTTACGTAAATGCA
66 TAAGTAAGAAATCGAACATGTGGTAGATTACAAAATATAATGGGTCACATAGTTGCGTAAATGCA
*
780078 GTTTTGTCACAAGATCATCA
131 ATTTTGTCACAAGATCATCA
780098 AAAGTTAAGC
Statistics
Matches: 270, Mismatches: 29, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
152 136 0.50
153 6 0.02
154 126 0.47
155 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (154 bp):
ACATAGAGTAACTATTAAATGCCATTGCTTTGGTGATAGCCGTAGTTAGAAAGTGAAGGCCATTT
TAAGTAAGAAATCGAACATGTGGTAGATTACAAAATATAATGGGTCACATAGTTGCGTAAATGCA
ATTTTGTCACAAGATCATCAGAAA
Found at i:782264 original size:20 final size:20
Alignment explanation
Indices: 782241--782338 Score: 126
Period size: 20 Copynumber: 4.9 Consensus size: 20
782231 AGAATACCCA
*
782241 AATGTATAGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
782261 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTC
* *
782281 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
*
782301 AATGTATTGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
782321 AATGTGTCGATACATTCT
1 AATGTATCGATACATTCT
782339 GTGTTTTTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 65 0.97
21 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:783279 original size:20 final size:21
Alignment explanation
Indices: 783247--783285 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
783237 AGCTTTTGAC
*
783247 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
783268 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
783286 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:789408 original size:16 final size:16
Alignment explanation
Indices: 789389--789436 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
789379 AAAAAAGGTC
789389 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
789405 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
789419 AAAAGTGCAAAAGCAAA
1 AAAA-TGCAAAAGCAAA
789436 A
1 A
789437 TAAAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 14 0.50
17 5 0.18
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:790821 original size:27 final size:27
Alignment explanation
Indices: 790778--791243 Score: 540
Period size: 27 Copynumber: 17.1 Consensus size: 27
790768 TGGCATTTCT
*
790778 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
790806 TTTTAAGTCCATAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
790833 TTTTAAAGTCCACAACTCCATAGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* ** *
790861 TTTTAAGTCCATAACTCCAAGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
790888 TTTTAAAATCCATAACTCCGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
790916 TTTTAAAGTTCACAACTTCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
790944 TTTAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
790971 TTTTAAGTCCACAACTCCGTGGCACCA
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
790998 TTTTAAGTCCACAACTCTGTGGCACCA
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
791025 TTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * * *
791052 TTTTAAAGTCCACAATTTCATGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
791080 TTTTAAGTCCACAAC-CCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
791106 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** *
791133 TTTTAAGTCCACAACTCAATGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
791160 TTTTGAAATCCACAACTCCGTGGCATCT
1 TTTT-AAGTCCACAACTCCGTGGCACCC
791188 TTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * * *
791214 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTT-TAAGTCCACAACTCCGTGGCACCC
791242 TT
1 TT
791244 CTCAAAGCCC
Statistics
Matches: 379, Mismatches: 52, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
26 27 0.07
27 233 0.61
28 119 0.31
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:790846 original size:55 final size:54
Alignment explanation
Indices: 790778--791243 Score: 571
Period size: 55 Copynumber: 8.6 Consensus size: 54
790768 TGGCATTTCT
* *
790778 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * * **
790833 TTTTAAAGTCCACAACTCCATAGCATCCTTTTAAGTCCATAACTCCAAGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * * *
790888 TTTTAAAATCCATAACTCCGTGGTACCCTTTTAAAGTTCACAACTTCGTGGCACC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
790943 CTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
790997 ATTTT-AAGTCCACAACTCTGTGGCACCATTTTAAGTCCACAACTCCGTGGCACTC
1 -TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-C
* * * *
791052 TTTTAAAGTCCACAATTTCATGGTACCCTTTTAAGTCCACAAC-CCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
**
791106 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAATGGCACTC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-C
* *
791160 TTTTGAAA-TCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGCACC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
791214 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTTTAAAGTCCACAACTCCGTGGCACCCTT
791244 CTCAAAGCCC
Statistics
Matches: 355, Mismatches: 46, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
53 38 0.11
54 116 0.33
55 184 0.52
56 17 0.05
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (54 bp):
TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:790892 original size:82 final size:81
Alignment explanation
Indices: 790778--791240 Score: 522
Period size: 82 Copynumber: 5.7 Consensus size: 81
790768 TGGCATTTCT
* *
790778 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTC
* * *
790843 CACAACTCCATAGCATCC
64 CACAACTCCGTGGCACCC
* ** * * * * *
790861 TTTTAAGTCCATAACTCCAAGGCATCCTTTTAAAATCCATAACTCCGTGGTACCCTTTTAAAGTT
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAAGTC
*
790926 CACAACTTCGTGGCACCC
64 CACAACTCCGTGGCACCC
* *
790944 TTTAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCATTTT-AAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC-TTTTAAAGTCC
* *
791008 ACAACTCTGTGGCACCA
65 ACAACTCCGTGGCACCC
* * * * *
791025 TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAATTTCATGGTACCCTTTT-AAGTC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAAGTC
791089 CACAAC-CCGTGGCACCC
64 CACAACTCCGTGGCACCC
**
791106 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAATGGCACTCTTTTGAAA-TC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTT-AAAGTC
* *
791170 CACAACTCCGTGGCATCT
64 CACAACTCCGTGGCACCC
* * * *
791188 TTTTAAGTCCACAACTCCGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACC
791241 CTTCTCAAAG
Statistics
Matches: 327, Mismatches: 44, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.00
80 21 0.06
81 102 0.31
82 129 0.39
83 74 0.23
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (81 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCA
CAACTCCGTGGCACCC
Found at i:791302 original size:28 final size:28
Alignment explanation
Indices: 791169--791802 Score: 448
Period size: 28 Copynumber: 21.8 Consensus size: 28
791159 CTTTTGAAAT
* * ** *
791169 CCACAACTCCGTGGCAT-CTTTTTAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
791196 CCACAACTCCGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
791223 CCACAAGTCAGTGGCACCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* * *
791252 CCACAAGTTAGTGGAATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
791280 CCACAAGTCAGTGGCATCCTTTCAAAAC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * **
791308 ACACAAGTCGGTGGCAAATCATTTGGAAGCC
1 CCACAAGTCAGTGGC--ATCCTTTCAAAG-C
** *
791339 CACACAAGTTGGTGGCAACCTATTTCAAAGCC
1 C-CACAAGTCAGTGGCATCC--TTTCAAAG-C
** *
791371 CACACAAGTTGGTGGCAACCTATTTCAAAGCC
1 C-CACAAGTCAGTGGCATCC--TTTCAAAG-C
** * *
791403 CACACAAGTTGGTGGCAACCTATTTGAAAGCC
1 C-CACAAGTCAGTGGCATCC--TTTCAAAG-C
* *
791435 CACACAAGTCAGTGGCAACTCATTTGAAAGCC
1 C-CACAAGTCAGTGGC-A-TCCTTTCAAAG-C
** * *
791467 CACACAAGTTGGTGGTAACTCATTTCAAAGCC
1 C-CACAAGTCAGTGG-CA-TCCTTTCAAAG-C
* *
791499 CACACAAGTCGGTGGCATCTTTTCAAAGC
1 C-CACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
791528 CCATAAGTTAGTGGCACCCTTTCAATGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
791556 CCACAAGTCAGTGGCATCCTTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
791584 CCACAAGTCGGTGGCATCTTTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
791612 CCACAAGTCAATGGTATCTTTTCCAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
791640 CCACGAGTTAGTGGCAGCTTTTCAAAAC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
791668 CCACGAGTCAGTGGCAACTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
791696 CCACGAGTCAGTGGCAACTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
791724 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
791752 CAACAAGTCAGTGGCATCTCTTT-AAAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
*
791780 CCACAGAAGTTAGTGGCA-CCTTT
1 CCAC--AAGTCAGTGGCATCCTTT
791803 TTTTAAAAAG
Statistics
Matches: 521, Mismatches: 71, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
27 37 0.07
28 269 0.52
29 31 0.06
30 31 0.06
31 2 0.00
32 149 0.29
33 1 0.00
34 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:791344 original size:32 final size:33
Alignment explanation
Indices: 791307--791530 Score: 254
Period size: 32 Copynumber: 7.1 Consensus size: 33
791297 CCTTTCAAAA
* * **
791307 CACACAAGTCGGTGGCAAATC-ATTTGGAAGCC
1 CACACAAGTTGGTGGCAAACCTATTTCAAAGCC
791339 CACACAAGTTGGTGGC-AACCTATTTCAAAGCC
1 CACACAAGTTGGTGGCAAACCTATTTCAAAGCC
791371 CACACAAGTTGGTGGC-AACCTATTTCAAAGCC
1 CACACAAGTTGGTGGCAAACCTATTTCAAAGCC
*
791403 CACACAAGTTGGTGGC-AACCTATTTGAAAGCC
1 CACACAAGTTGGTGGCAAACCTATTTCAAAGCC
** *
791435 CACACAAGTCAGTGGC-AA-CTCATTTGAAAGCC
1 CACACAAGTTGGTGGCAAACCT-ATTTCAAAGCC
*
791467 CACACAAGTTGGTGG-TAA-CTCATTTCAAAGCC
1 CACACAAGTTGGTGGCAAACCT-ATTTCAAAGCC
* *
791499 CACACAAGTCGGTGGC--ATCT-TTTCAAAGCC
1 CACACAAGTTGGTGGCAAACCTATTTCAAAGCC
791529 CA
1 CA
791531 TAAGTTAGTG
Statistics
Matches: 176, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
30 12 0.07
31 6 0.03
32 158 0.90
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (33 bp):
CACACAAGTTGGTGGCAAACCTATTTCAAAGCC
Found at i:791385 original size:64 final size:64
Alignment explanation
Indices: 791307--791515 Score: 314
Period size: 64 Copynumber: 3.3 Consensus size: 64
791297 CCTTTCAAAA
*
791307 CACACAAGTCGGTGGCAAATCATTTGGAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCC
1 CACACAAGTCGGTGGCAAATCATTTGAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCC
* * * *
791371 CACACAAGTTGGTGGC-AACCTATTTCAAAGCCCACACAAGTTGGTGGCAACCTATTTGAAAGCC
1 CACACAAGTCGGTGGCAAATC-ATTTGAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCC
* * *
791435 CACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGTAA-CTCATTTCAAAGCC
1 CACACAAGTCGGTGGCAAATCATTTGAAAGCCCACACAAGTTGGTGGCAACCT-ATTTCAAAGCC
791499 CACACAAGTCGGTGGCA
1 CACACAAGTCGGTGGCA
791516 TCTTTTCAAA
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
63 5 0.04
64 122 0.95
65 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (64 bp):
CACACAAGTCGGTGGCAAATCATTTGAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCC
Found at i:791434 original size:96 final size:96
Alignment explanation
Indices: 791307--791515 Score: 307
Period size: 96 Copynumber: 2.2 Consensus size: 96
791297 CCTTTCAAAA
* **
791307 CACACAAGTCGGTGGCAAATCATTTGGAAGCCCACACAAGTTGGTGGCAAC-CTATTTCAAAGCC
1 CACACAAGTCGGTGGCAAATCATTTGAAAGCCCACACAAGTCAGTGGCAACTC-ATTTCAAAGCC
791371 CACACAAGTTGGTGGCAAC-CTATTTCAAAGCC
65 CACACAAGTTGGTGGCAACTC-ATTTCAAAGCC
* * *
791403 CACACAAGTTGGTGGC-AACCTATTTGAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCC
1 CACACAAGTCGGTGGCAAATC-ATTTGAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCC
*
791467 CACACAAGTTGGTGGTAACTCATTTCAAAGCC
65 CACACAAGTTGGTGGCAACTCATTTCAAAGCC
791499 CACACAAGTCGGTGGCA
1 CACACAAGTCGGTGGCA
791516 TCTTTTCAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
95 3 0.03
96 96 0.95
97 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (96 bp):
CACACAAGTCGGTGGCAAATCATTTGAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCCC
ACACAAGTTGGTGGCAACTCATTTCAAAGCC
Found at i:791570 original size:56 final size:56
Alignment explanation
Indices: 790947--791803 Score: 457
Period size: 56 Copynumber: 15.0 Consensus size: 56
790937 GGCACCCTTT
* * * * * * * *
790947 AAAGTCCACAACTCTGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCATTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTC
* * * * * * * *
791002 -AAGTCCACAACTCTGTGGCACCATTT-TAAGTCCACAACTCCGTGGCACTCTTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTC
* * * * * * * *
791056 AAAGTCCACAATTTCA-TGGTACCCTTT-TAAGTCCACAA-CCCGTGGCACCCTTTT-
1 AAAGCCCACAA-GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTC
* * * * * * * *
791110 -AAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCAATGGCACTCTTTTG
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTC
* * * * ** * * * *
791165 AAA-TCCACAACTCCGTGGCA-TCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* *
791218 AAAGCCCACAAGTCAGTGGCACCCTTCTCAAAGCCCACAAGTTAGTGGAATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * * * * *
791275 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAACACACAAGTCGGTGGCAAATCATTTG
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ATCTTTTC
* ** * ** *
791333 GAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCCCACACAAGTTGGTGGCAACCTATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAG-CC-CACAAGTCAGTGGC-ATCT-TTTC
** * * * *
791397 AAAGCCCACACAAGTTGGTGGCAACCTATTTGAAAGCCCACACAAGTCAGTGGCAACTCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTC
** * * *
791461 AAAGCCCACACAAGTTGGTGGTAACTCATTTCAAAGCCCACACAAGTCGGTGGCATCTTTTC
1 AAAG-CC-CACAAGTCAGTGG-CAC-CCTTTCAAAG-CC-CACAAGTCAGTGGCATCTTTTC
* * * *
791523 AAAGCCCATAAGTTAGTGGCACCCTTTCAATGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * * * * * *
791579 AAAGTCCACAAGTCGGTGGCATCTTTTCAAAGTCCACAAGTCAATGGTATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * * * * * * *
791635 CAAGCCCACGAGTTAGTGGCAGCTTTTCAAAACCCACGAGTCAGTGGCAACTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * * *
791691 AAAGCCCACGAGTCAGTGGCAACTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * * *
791747 AAAGCCAACAAGTCAGTGGCATCTCTTT-AAAGCCCACAGAAGTTAGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCAC--AAGTCAGTGGCATCTTTT
791804 TTTAAAAAGC
Statistics
Matches: 667, Mismatches: 108, Indels: 51
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.00
53 38 0.06
54 94 0.14
55 70 0.10
56 223 0.33
57 35 0.05
58 32 0.05
59 4 0.01
60 23 0.03
61 4 0.01
62 16 0.02
63 5 0.01
64 119 0.18
65 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
Found at i:791978 original size:49 final size:49
Alignment explanation
Indices: 791908--792088 Score: 271
Period size: 49 Copynumber: 3.8 Consensus size: 49
791898 GGCACCTTTA
791908 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
* * * *
791957 TTAGCTCAATGTTGCTAGCCTTGAATCAGCACATT-GTCCAC-TTT--A
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
792002 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
* **
792051 TTAGTCCAATGTCGCTGGCCTTGAATTGGCACATTGGT
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGT
792089 AATCCTCTCA
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
45 32 0.27
46 6 0.05
47 6 0.05
48 6 0.05
49 67 0.57
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (49 bp):
TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
Found at i:792002 original size:94 final size:94
Alignment explanation
Indices: 791877--792086 Score: 325
Period size: 94 Copynumber: 2.2 Consensus size: 94
791867 TCCGATATCA
* * *
791877 CTAGCATTGAATCAGCATATTGGCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACAT
1 CTAGCCTTGAATCAGCACATTGCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACAT
*
791942 TGGTCCACTTTTCCCTTAG-CTCAATGTTG
66 TGGTCCACTTTTCCCTTAGTC-CAATGTCG
791971 CTAGCCTTGAATCAGCACATTGTCCA-CTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACA
1 CTAGCCTTGAATCAGCACATTG-CCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACA
792035 TTGGTCCACTTTTCCCTTAGTCCAATGTCG
65 TTGGTCCACTTTTCCCTTAGTCCAATGTCG
* **
792065 CTGGCCTTGAATTGGCACATTG
1 CTAGCCTTGAATCAGCACATTG
792087 GTAATCCTCT
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
94 104 0.97
95 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (94 bp):
CTAGCCTTGAATCAGCACATTGCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACAT
TGGTCCACTTTTCCCTTAGTCCAATGTCG
Found at i:792023 original size:45 final size:47
Alignment explanation
Indices: 791883--792086 Score: 245
Period size: 49 Copynumber: 4.3 Consensus size: 47
791873 ATCACTAGCA
* * *
791883 TTGAATCAGCATATTG-GCACCTTT-ATTAGCCCAATGTCGCTGGCC
1 TTGAATCAGCACATTGTCCACTTTTCATTAGCCCAATGTCGCTGGCC
* * * *
791928 TTGAATCAGCACATTGGTCCACTTTTCCCTTAGCTCAATGTTGCTAGCC
1 TTGAATCAGCACATT-GTCCACTTTT-CATTAGCCCAATGTCGCTGGCC
791977 TTGAATCAGCACATTGTCCAC-TTT-ATTAGCCCAATGTCGCTGGCC
1 TTGAATCAGCACATTGTCCACTTTTCATTAGCCCAATGTCGCTGGCC
* *
792022 TTGAATCAGCACATTGGTCCACTTTTCCCTTAGTCCAATGTCGCTGGCC
1 TTGAATCAGCACATT-GTCCACTTTT-CATTAGCCCAATGTCGCTGGCC
**
792071 TTGAATTGGCACATTG
1 TTGAATCAGCACATTG
792087 GTAATCCTCT
Statistics
Matches: 136, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
45 46 0.34
46 7 0.05
47 12 0.09
48 7 0.05
49 64 0.47
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (47 bp):
TTGAATCAGCACATTGTCCACTTTTCATTAGCCCAATGTCGCTGGCC
Found at i:792479 original size:20 final size:20
Alignment explanation
Indices: 792456--792573 Score: 114
Period size: 20 Copynumber: 5.9 Consensus size: 20
792446 AAAATACCCA
792456 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
* *
792476 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
* *
792496 AATGTATCAAAACATTCTTC
1 AATGTATCGATACATTCTTC
* *
792516 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
* * *
792536 AATGTATCAAAATATTCTTC
1 AATGTATCGATACATTCTTC
*
792556 AATGTATCGGTACATTCT
1 AATGTATCGATACATTCT
792574 GTGTTTTTAC
Statistics
Matches: 75, Mismatches: 19, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
19 2 0.03
20 71 0.95
21 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:792511 original size:40 final size:40
Alignment explanation
Indices: 792456--792570 Score: 194
Period size: 40 Copynumber: 2.9 Consensus size: 40
792446 AAAATACCCA
* *
792456 AATGTATCGATACATTCTTCAATGTATCGATACATGTATG
1 AATGTATCAAAACATTCTTCAATGTATCGATACATGTATG
792496 AATGTATCAAAACATTCTTCAATGTATCGATACATGTATG
1 AATGTATCAAAACATTCTTCAATGTATCGATACATGTATG
* *
792536 AATGTATCAAAATATTCTTCAATGTATCGGTACAT
1 AATGTATCAAAACATTCTTCAATGTATCGATACAT
792571 TCTGTGTTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (40 bp):
AATGTATCAAAACATTCTTCAATGTATCGATACATGTATG
Found at i:798946 original size:16 final size:16
Alignment explanation
Indices: 798906--798952 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
798896 CTCACATGAA
*
798906 AAAATAATAGTATTTT
1 AAAATAATAATATTTT
798922 --AATAA-AATATTTT
1 AAAATAATAATATTTT
798935 AAAATAATAATATTTT
1 AAAATAATAATATTTT
798951 AA
1 AA
798953 TAATTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 5 0.19
16 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAAATAATAATATTTT
Found at i:798948 original size:29 final size:28
Alignment explanation
Indices: 798906--798971 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
798896 CTCACATGAA
*
798906 AAAATAATAGTATTTTAATAAAATATTTT
1 AAAATAATAATATTTTAATAAAATA-TTT
**
798935 AAAATAATAATATTTTAATAATTTATTT
1 AAAATAATAATATTTTAATAAAATATTT
798963 AAAA-AATAA
1 AAAATAATAA
798972 GGTAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 5 0.15
28 7 0.21
29 22 0.65
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAATAATAATATTTTAATAAAATATTT
Found at i:798956 original size:14 final size:14
Alignment explanation
Indices: 798908--798956 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
798898 CACATGAAAA
*
798908 AATAATAGTATTTT
1 AATAATAATATTTT
798922 AATAA-AATATTTT
1 AATAATAATATTTT
798935 AAAATAATAATATTTT
1 --AATAATAATATTTT
798951 AATAAT
1 AATAAT
798957 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATAATAATATTTT
Found at i:798961 original size:13 final size:13
Alignment explanation
Indices: 798908--798962 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
798898 CACATGAAAA
798908 AATAATAGTATTTT
1 AATAATA-TATTTT
*
798922 AATAAAATATTTT
1 AATAATATATTTT
798935 AAAATAATAATATTTT
1 --AATAAT-ATATTTT
*
798951 AATAATTTATTT
1 AATAATATATTT
798963 AAAAAATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 11 0.31
14 12 0.34
15 5 0.14
16 7 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
AATAATATATTTT
Found at i:799788 original size:22 final size:21
Alignment explanation
Indices: 799755--799798 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
799745 AAATTAAAAA
799755 ATATATTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
799776 ATATATTTTTATAATTAAATTT
1 ATATA-TTTTATAATTAAATTT
799798 A
1 A
799799 CATTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:800093 original size:2 final size:2
Alignment explanation
Indices: 800086--800119 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
800076 TAACCCTAAC
800086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
800120 TGAAAGGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:801751 original size:21 final size:23
Alignment explanation
Indices: 801707--801751 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
801697 GAATATACAA
801707 TTTTTTT-TCTTTATCTTTCTTT
1 TTTTTTTCTCTTTATCTTTCTTT
*
801729 TTTTTTTCTCTTTGT-TTTCTTT
1 TTTTTTTCTCTTTATCTTTCTTT
801751 T
1 T
801752 ATTCTCTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTTCTCTTTATCTTTCTTT
Found at i:802282 original size:15 final size:14
Alignment explanation
Indices: 802262--802291 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
802252 TGAAAATGAT
802262 ATACACATAATATTA
1 ATACACATAA-ATTA
802277 ATACACATAAATTA
1 ATACACATAAATTA
802291 A
1 A
802292 ACGACTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
ATACACATAAATTA
Found at i:803452 original size:15 final size:14
Alignment explanation
Indices: 803428--803476 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
803418 ATAAAAAAAA
803428 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
803442 TTTC--TTT-TTTC
1 TTTCTTTTTCTTTC
*
803453 TTTATTTTTC-TTC
1 TTTCTTTTTCTTTC
*
803466 TTTTTTTTTCT
1 TTTCTTTTTCT
803477 CTCTCATCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 7 0.24
12 3 0.10
13 15 0.52
14 4 0.14
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:803472 original size:21 final size:21
Alignment explanation
Indices: 803428--803471 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
803418 ATAAAAAAAA
803428 TTTCTTTTTCTTTCTTTCTTT
1 TTTCTTTTTCTTTCTTTCTTT
803449 TTTCTTTATT-TTTC-TTCTTT
1 TTTCTTT-TTCTTTCTTTCTTT
803469 TTT
1 TTT
803472 TTTCTCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 11 0.50
22 2 0.09
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTTTTTCTTTCTTTCTTT
Found at i:803674 original size:17 final size:16
Alignment explanation
Indices: 803635--803674 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
803625 ATATAAATAT
803635 AAAATATAATATTTTA
1 AAAATATAATATTTTA
*
803651 AATATATAATTATTTTA
1 AAAATATAA-TATTTTA
803668 AAAATAT
1 AAAATAT
803675 TTATATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATAATATTTTA
Found at i:804762 original size:25 final size:25
Alignment explanation
Indices: 804732--804784 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
804722 ATTTTTCCAA
*
804732 ATACAAAAGACTAATTAGTTTAAAT
1 ATACAAAAGACAAATTAGTTTAAAT
** *
804757 ATACAAAATCCAAATTAGTTTGAAT
1 ATACAAAAGACAAATTAGTTTAAAT
804782 ATA
1 ATA
804785 TATATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (25 bp):
ATACAAAAGACAAATTAGTTTAAAT
Found at i:804787 original size:2 final size:2
Alignment explanation
Indices: 804780--804804 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
804770 ATTAGTTTGA
804780 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
804805 GCACTGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:807964 original size:20 final size:20
Alignment explanation
Indices: 807939--807978 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
807929 TATTCATGTG
*
807939 GCTAATAACTTGGATTGCTT
1 GCTAATAACTTAGATTGCTT
**
807959 GCTAATTGCTTAGATTGCTT
1 GCTAATAACTTAGATTGCTT
807979 TTTTATGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (20 bp):
GCTAATAACTTAGATTGCTT
Found at i:808342 original size:24 final size:24
Alignment explanation
Indices: 808310--808358 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
808300 AACAACCATC
808310 GTTACAAAAACTAGTTTAAACAAT
1 GTTACAAAAACTAGTTTAAACAAT
*
808334 GTTACAAAAACTAGTTTAAATAAT
1 GTTACAAAAACTAGTTTAAACAAT
808358 G
1 G
808359 CTGATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (24 bp):
GTTACAAAAACTAGTTTAAACAAT
Found at i:808498 original size:164 final size:164
Alignment explanation
Indices: 808227--808561 Score: 670
Period size: 164 Copynumber: 2.0 Consensus size: 164
808217 TCTGACTTTT
808227 CATCATATGAGTTAATTATTAGGCTTTTTAAAAACCTAAGCTTTTTACTAAGTATCATAAAGTTA
1 CATCATATGAGTTAATTATTAGGCTTTTTAAAAACCTAAGCTTTTTACTAAGTATCATAAAGTTA
808292 GTCTTCCAAACAACCATCGTTACAAAAACTAGTTTAAACAATGTTACAAAAACTAGTTTAAATAA
66 GTCTTCCAAACAACCATCGTTACAAAAACTAGTTTAAACAATGTTACAAAAACTAGTTTAAATAA
808357 TGCTGATTTTTAGAAATTTAAAGTTTCTTTTAAG
131 TGCTGATTTTTAGAAATTTAAAGTTTCTTTTAAG
808391 CATCATATGAGTTAATTATTAGGCTTTTTAAAAACCTAAGCTTTTTACTAAGTATCATAAAGTTA
1 CATCATATGAGTTAATTATTAGGCTTTTTAAAAACCTAAGCTTTTTACTAAGTATCATAAAGTTA
808456 GTCTTCCAAACAACCATCGTTACAAAAACTAGTTTAAACAATGTTACAAAAACTAGTTTAAATAA
66 GTCTTCCAAACAACCATCGTTACAAAAACTAGTTTAAACAATGTTACAAAAACTAGTTTAAATAA
808521 TGCTGATTTTTAGAAATTTAAAGTTTCTTTTAAG
131 TGCTGATTTTTAGAAATTTAAAGTTTCTTTTAAG
808555 CATCATA
1 CATCATA
808562 AAGTTATTCT
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 171 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (164 bp):
CATCATATGAGTTAATTATTAGGCTTTTTAAAAACCTAAGCTTTTTACTAAGTATCATAAAGTTA
GTCTTCCAAACAACCATCGTTACAAAAACTAGTTTAAACAATGTTACAAAAACTAGTTTAAATAA
TGCTGATTTTTAGAAATTTAAAGTTTCTTTTAAG
Found at i:808506 original size:24 final size:24
Alignment explanation
Indices: 808474--808522 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
808464 AACAACCATC
808474 GTTACAAAAACTAGTTTAAACAAT
1 GTTACAAAAACTAGTTTAAACAAT
*
808498 GTTACAAAAACTAGTTTAAATAAT
1 GTTACAAAAACTAGTTTAAACAAT
808522 G
1 G
808523 CTGATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (24 bp):
GTTACAAAAACTAGTTTAAACAAT
Found at i:812783 original size:19 final size:19
Alignment explanation
Indices: 812747--812785 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
812737 ATTAGAAAAA
*
812747 ATAAATGAAAAACTTAAAT
1 ATAAATGAAAAACATAAAT
**
812766 ATAAATGACTAACATAAAT
1 ATAAATGAAAAACATAAAT
812785 A
1 A
812786 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAATGAAAAACATAAAT
Found at i:814018 original size:21 final size:22
Alignment explanation
Indices: 813975--814032 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
813965 TTAAATATAA
* *
813975 AAAAATTAAT-AAAACTAATTT
1 AAAAATAAATAAAAATTAATTT
*
813996 AAAAATAACTAAAAATTAA-TT
1 AAAAATAAATAAAAATTAATTT
*
814017 AAATATAAATAAAAAT
1 AAAAATAAATAAAAAT
814033 CTCTAGGACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATAAATAAAAATTAATTT
Found at i:814248 original size:69 final size:69
Alignment explanation
Indices: 814174--814306 Score: 187
Period size: 69 Copynumber: 1.9 Consensus size: 69
814164 TGTATTTATT
**
814174 CTTATTATCAGAGCAAATTAGTAAAAAAAAAATTAAAATTTACTTTT-CAATATGATAAAATTAT
1 CTTATTATCAGAGCAAATTAGT-AAAAAAAAATTAAAAAATACTTTTACAATATGATAAAATTAT
814238 TTAAC
65 TTAAC
* * * * *
814243 CTTATTGTCAGAGTAAATTAGTAAAAAAATATTAAAAAATGCTTTTACAATGTGATAAAATTAT
1 CTTATTATCAGAGCAAATTAGTAAAAAAAAATTAAAAAATACTTTTACAATATGATAAAATTAT
814307 CCCATTCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 20 0.36
69 36 0.64
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (69 bp):
CTTATTATCAGAGCAAATTAGTAAAAAAAAATTAAAAAATACTTTTACAATATGATAAAATTATT
TAAC
Found at i:815281 original size:32 final size:33
Alignment explanation
Indices: 815209--815284 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
815199 AAAAAAAGTA
815209 ATCAAAGTTAACCAAAAACGTATAATATCTATG
1 ATCAAAGTTAACCAAAAACGTATAATATCTATG
** *
815242 ATCAAAGTTAACCAAAAGTGTATAA-ATCTGTG
1 ATCAAAGTTAACCAAAAACGTATAATATCTATG
815274 ATCAAAGTTAA
1 ATCAAAGTTAA
815285 TAGCTTTAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 17 0.43
33 23 0.57
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (33 bp):
ATCAAAGTTAACCAAAAACGTATAATATCTATG
Found at i:818942 original size:14 final size:15
Alignment explanation
Indices: 818919--818957 Score: 71
Period size: 14 Copynumber: 2.7 Consensus size: 15
818909 ATCTACACTT
818919 TAATTAAAAACCTTA
1 TAATTAAAAACCTTA
818934 TAA-TAAAAACCTTA
1 TAATTAAAAACCTTA
818948 TAATTAAAAA
1 TAATTAAAAA
818958 AATAAGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATTAAAAACCTTA
Found at i:822942 original size:32 final size:31
Alignment explanation
Indices: 822890--823008 Score: 113
Period size: 32 Copynumber: 4.0 Consensus size: 31
822880 TACATAAATG
*
822890 TTTTTAAAAG-TCATGGATGAACAATAAAAA
1 TTTTTAAAAGATCATGAATGAACAATAAAAA
*
822920 TTTTTCAAAAGATCATGAATGAACAGTAAAAA
1 TTTTT-AAAAGATCATGAATGAACAATAAAAA
* * * * **
822952 ATGTTAAAAGATTATGAAT-AAAAAT-TTAA
1 TTTTTAAAAGATCATGAATGAACAATAAAAA
*
822981 TTTTTAAAA-ATTATGAATGAA-AATAAAA
1 TTTTTAAAAGATCATGAATGAACAATAAAA
823009 TAGTAATAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
28 12 0.17
29 12 0.17
30 9 0.12
31 18 0.25
32 21 0.29
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (31 bp):
TTTTTAAAAGATCATGAATGAACAATAAAAA
Found at i:830926 original size:19 final size:18
Alignment explanation
Indices: 830893--830931 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
830883 AGATTTGACG
830893 AAAAAAATAACAAGAAGTT
1 AAAAAAATAACAAGAA-TT
* *
830912 AAAAAAATTATAAGAATT
1 AAAAAAATAACAAGAATT
830930 AA
1 AA
830932 GTGGAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAAAAAATAACAAGAATT
Found at i:832616 original size:70 final size:72
Alignment explanation
Indices: 832493--832628 Score: 206
Period size: 70 Copynumber: 1.9 Consensus size: 72
832483 ATGTTTATCC
* **
832493 TTATTATTAGAGTAAATTAATAAAAAAATAATATTAAAATTTACTTTTTCAATGTGATGAA-ATT
1 TTATTATCAGAGTAAATTAATAAAAAAATAATATTAAAATTTACTTTCACAATGTGAT-AATATT
832557 ATTTAGCA
65 ATTTAGCA
*
832565 TTATTATCAGAGTAAATTAGT-AAAAAA-AATATTAAAATTTACTTTCACAATGTGATAATATTA
1 TTATTATCAGAGTAAATTAATAAAAAAATAATATTAAAATTTACTTTCACAATGTGATAATATTA
832628 T
66 T
832629 CTCATTCTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 2 0.03
70 32 0.54
71 6 0.10
72 19 0.32
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (72 bp):
TTATTATCAGAGTAAATTAATAAAAAAATAATATTAAAATTTACTTTCACAATGTGATAATATTA
TTTAGCA
Found at i:834258 original size:21 final size:22
Alignment explanation
Indices: 834231--834293 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
834221 TATGTAAAAT
834231 ATAAAAATAATTAAAATATGAC
1 ATAAAAATAATTAAAATATGAC
*
834253 AT-AAAATAA-TAAAAGTA--AT
1 ATAAAAATAATTAAAA-TATGAC
834272 ATGAAAAATAATTAAAATATGA
1 AT-AAAAATAATTAAAATATGA
834294 TAATATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 18 0.53
22 7 0.21
23 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (22 bp):
ATAAAAATAATTAAAATATGAC
Found at i:834310 original size:12 final size:12
Alignment explanation
Indices: 834253--834314 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 12
834243 AAAATATGAC
*
834253 ATAAAATAATAAA
1 ATAATATAA-AAA
*
834266 AGTAATATGAAAA
1 A-TAATATAAAAA
834279 ATAAT-TAAAATA
1 ATAATATAAAA-A
834291 TGATAATATAAAAA
1 --ATAATATAAAAA
834305 ATAATATAAA
1 ATAATATAAA
834315 CATAACATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
11 4 0.10
12 15 0.37
13 5 0.12
14 12 0.29
15 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:835231 original size:7 final size:7
Alignment explanation
Indices: 835219--835246 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
835209 AAATATATAA
835219 ATTTTTT
1 ATTTTTT
835226 ATTTTTT
1 ATTTTTT
835233 ATTTTTT
1 ATTTTTT
835240 ATTTTTT
1 ATTTTTT
835247 CTCTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:835273 original size:14 final size:15
Alignment explanation
Indices: 835245--835275 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
835235 TTTTTATTTT
835245 TTCTCTTTCTTTTCC
1 TTCTCTTTCTTTTCC
835260 TTCTCTTT-TTTTCC
1 TTCTCTTTCTTTTCC
835274 TT
1 TT
835276 GTTTTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTCTTTCTTTTCC
Found at i:836187 original size:15 final size:16
Alignment explanation
Indices: 836169--836199 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
836159 AATTATTAAC
836169 GAAT-AAAATTTATAT
1 GAATAAAAATTTATAT
836184 GAATAAAAATTTATAT
1 GAATAAAAATTTATAT
836200 AAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
GAATAAAAATTTATAT
Found at i:840762 original size:34 final size:33
Alignment explanation
Indices: 840675--840762 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
840665 TGAACACGTA
*
840675 AAAAAT-TATTTAA-AAAATATTTAAAATAACAT
1 AAAAATATA-TTAATAAATTATTTAAAATAACAT
** * *
840707 ACAAAATATAAAAATATATTATTTAAAAGTATCAT
1 A-AAAATATATTAATAAATTATTTAAAA-TAACAT
840742 AAAAATATATTAATAAATTAT
1 AAAAATATATTAATAAATTAT
840763 ATTATGTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
32 1 0.02
33 7 0.16
34 30 0.68
35 6 0.14
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (33 bp):
AAAAATATATTAATAAATTATTTAAAATAACAT
Found at i:840803 original size:16 final size:16
Alignment explanation
Indices: 840779--840809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
840769 TAAATATTTT
*
840779 TTATTTTTTTTTAAAA
1 TTATATTTTTTTAAAA
840795 TTATATTTTTTTAAA
1 TTATATTTTTTTAAA
840810 TACTCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATTTTTTTAAAA
Found at i:842056 original size:26 final size:24
Alignment explanation
Indices: 841990--842056 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 24
841980 TAAATTTATT
*
841990 TATATTATATTTTTATTTTTTAAAA
1 TATA-TATATTTTTAATTTTTAAAA
*
842015 TATATTTATTAATTTAATTTTTAATAA
1 TATATATATT--TTTAATTTTTAA-AA
*
842042 TTTAATATATTTTTA
1 TAT-ATATATTTTTA
842057 TTAAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
24 5 0.15
25 4 0.12
26 15 0.44
27 4 0.12
28 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATATATTTTTAATTTTTAAAA
Found at i:842920 original size:19 final size:19
Alignment explanation
Indices: 842896--842952 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
842886 TTGGTTATCG
842896 AGGCACTATTCACGTATAC
1 AGGCACTATTCACGTATAC
*
842915 AGGCACTATTCACGTATAT
1 AGGCACTATTCACGTATAC
* *
842934 GGGCACCATTCACGTATAC
1 AGGCACTATTCACGTATAC
842953 GGTACTGTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (19 bp):
AGGCACTATTCACGTATAC
Found at i:847043 original size:22 final size:22
Alignment explanation
Indices: 847015--847061 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
847005 GATTAAATGG
847015 TGATTTGGTAGTTTGCCATTAT
1 TGATTTGGTAGTTTGCCATTAT
* * *
847037 TGATTTGGTGGTTTGTCATTGT
1 TGATTTGGTAGTTTGCCATTAT
847059 TGA
1 TGA
847062 CTAAATGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.06, G:0.28, T:0.51
Consensus pattern (22 bp):
TGATTTGGTAGTTTGCCATTAT
Found at i:847085 original size:34 final size:34
Alignment explanation
Indices: 847038--847220 Score: 233
Period size: 34 Copynumber: 5.4 Consensus size: 34
847028 TGCCATTATT
* *
847038 GATTTGGTGGTTTGTCATTGTTGACTAAATGAGA
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGAGA
* * *
847072 GATTTGGTAGTTTGTCATTGTTGATTAAATG-GTT
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGAG-A
* * *
847106 GATTTGATGGTTTGCCATTGTTGACTAAATGAGG
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGAGA
847140 GATTTGGTAGTTTGCCATTGTTGACTAAATGAGA
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGAGA
* * * *
847174 GATTTGGTAGTTTGCCATTATTGATTAAATGGGT
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGAGA
*
847208 GATTTAGTAGTTT
1 GATTTGGTAGTTT
847221 TTACCAAACC
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
33 1 0.01
34 129 0.98
35 1 0.01
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.43
Consensus pattern (34 bp):
GATTTGGTAGTTTGCCATTGTTGACTAAATGAGA
Found at i:847682 original size:16 final size:16
Alignment explanation
Indices: 847663--847705 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
847653 ATGTATATAT
*
847663 AAAATA-AAATATTTTA
1 AAAATATAAA-ATTTAA
847679 AAAATATAAAATTTAA
1 AAAATATAAAATTTAA
*
847695 AAAATTTAAAA
1 AAAATATAAAA
847706 AATTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATAAAATTTAA
Found at i:847685 original size:25 final size:26
Alignment explanation
Indices: 847657--847713 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
847647 ATTTAAATGT
* *
847657 ATATATAAA-ATAAAATATTTTAAAA
1 ATATATAAATATAAAAAATTTAAAAA
*
847682 ATATA-AAATTTAAAAAATTTAAAAA
1 ATATATAAATATAAAAAATTTAAAAA
*
847707 ATTTATA
1 ATATATA
847714 TTAAACACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 22 0.85
26 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATATATAAATATAAAAAATTTAAAAA
Found at i:847700 original size:9 final size:9
Alignment explanation
Indices: 847686--847711 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
847676 TTAAAAATAT
847686 AAAATTTAA
1 AAAATTTAA
847695 AAAATTTAA
1 AAAATTTAA
847704 AAAATTTA
1 AAAATTTA
847712 TATTAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATTTAA
Found at i:848495 original size:20 final size:20
Alignment explanation
Indices: 848470--848522 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
848460 TATTAATGTT
*
848470 ATAAATAAAAATATTAAATA
1 ATAAATAAAAATATAAAATA
* *
848490 ATAAATAATATTATAAAATA
1 ATAAATAAAAATATAAAATA
848510 A-AAATTAAAAATA
1 ATAAA-TAAAAATA
848523 ATCATATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAATAAAAATATAAAATA
Found at i:848499 original size:17 final size:16
Alignment explanation
Indices: 848468--848514 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
848458 AATATTAATG
848468 TTAT-AAATAAAAATA
1 TTATAAAATAAAAATA
848483 TTA-AATAATAAATAATA
1 TTATAA-AATAAA-AATA
848500 TTATAAAATAAAAAT
1 TTATAAAATAAAAAT
848515 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 9 0.32
17 13 0.46
18 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTATAAAATAAAAATA
Found at i:848522 original size:33 final size:32
Alignment explanation
Indices: 848463--848524 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
848453 TTAACAATAT
* *
848463 TAATGTTATAAATAAAAATATTAAATAATAAA
1 TAATATTATAAATAAAAATATAAAATAATAAA
848495 TAATATTATAAAATAAAAAT-TAAAAATAAT
1 TAATATTAT-AAATAAAAATAT-AAAATAAT
848525 CATATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 9 0.35
33 17 0.65
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (32 bp):
TAATATTATAAATAAAAATATAAAATAATAAA
Found at i:849551 original size:17 final size:19
Alignment explanation
Indices: 849531--849565 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
849521 AATAAAATTT
849531 TAATAAT-TA-ATATATAA
1 TAATAATATATATATATAA
849548 TAATAATATATATATATA
1 TAATAATATATATATATA
849566 TATACAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAATATATATATATAA
Found at i:850091 original size:15 final size:15
Alignment explanation
Indices: 850071--850110 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
850061 AGTTTTTTTA
850071 ATTAAATATAAAAAT
1 ATTAAATATAAAAAT
**
850086 ATTAAATATAATTAT
1 ATTAAATATAAAAAT
850101 A-TAAATATAA
1 ATTAAATATAA
850111 TATAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAAATATAAAAAT
Found at i:850115 original size:11 final size:10
Alignment explanation
Indices: 850086--850145 Score: 63
Period size: 11 Copynumber: 6.0 Consensus size: 10
850076 ATATAAAAAT
850086 ATTAAATATA
1 ATTAAATATA
850096 ATT--ATATA
1 ATTAAATATA
*
850104 AATATAATATA
1 ATTA-AATATA
850115 ATTAAA-ATA
1 ATTAAATATA
850124 ATTAAAATATA
1 ATT-AAATATA
850135 ATATAAATATA
1 AT-TAAATATA
850146 TATTTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.17
9 6 0.14
10 8 0.19
11 20 0.48
12 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAATATA
Found at i:850134 original size:25 final size:26
Alignment explanation
Indices: 850069--850140 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 26
850059 CAAGTTTTTT
*
850069 TAATT-AAATATAA-AAATATTAAATA
1 TAATTAAAATATAATATA-ATTAAATA
850094 TAATTATATAAATATAATATAATTAAA-A
1 TAA-T-TA-AAATATAATATAATTAAATA
850122 TAATTAAAATATAATATAA
1 TAATTAAAATATAATATAA
850141 ATATATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
25 16 0.39
26 3 0.07
27 2 0.05
28 4 0.10
29 14 0.34
30 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TAATTAAAATATAATATAATTAAATA
Found at i:850153 original size:25 final size:24
Alignment explanation
Indices: 850083--850154 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
850073 TAAATATAAA
*
850083 AATATTAAATATAATTATATAAATAT
1 AATA-TAAATATAATTTTA-AAATAT
* * *
850109 AATATAATTAAAATAATTAAAATAT
1 AATATAAATATAAT-TTTAAAATAT
850134 AATATAAATATATATTTTAAA
1 AATATAAATATA-ATTTTAAA
850155 TTTTACATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 29 0.78
26 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATATAAATATAATTTTAAAATAT
Found at i:850277 original size:18 final size:18
Alignment explanation
Indices: 850254--850293 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
850244 GATATATATT
* *
850254 ATTAAATTATTAAATTAA
1 ATTAAAATAATAAATTAA
*
850272 ATTAAAATAATAAATTAT
1 ATTAAAATAATAAATTAA
850290 ATTA
1 ATTA
850294 TTTAGAGCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAAAATAATAAATTAA
Found at i:850894 original size:34 final size:37
Alignment explanation
Indices: 850829--850920 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 37
850819 AATATTTTAT
**
850829 TATTTATTATATTATTAAAATATTATTTTTAAATTAA
1 TATTTATTATATTATTAAAATATTAAATTTAAATTAA
* *
850866 TATTTA-TATA-TATTAATA-ATTAAATTTAAATAAA
1 TATTTATTATATTATTAAAATATTAAATTTAAATTAA
* *
850900 AATATTATTTTTATTATTAAA
1 TAT-TTA-TTATATTATTAAA
850921 TAATAATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
34 15 0.34
35 10 0.23
36 4 0.09
37 9 0.20
38 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
TATTTATTATATTATTAAAATATTAAATTTAAATTAA
Found at i:852579 original size:19 final size:17
Alignment explanation
Indices: 852525--852580 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
852515 ATGAATTGAA
852525 TTTAAATTAAAATTTTTT
1 TTTAAATTAAAA-TTTTT
*
852543 TTTCAAATT-CAA-TTTT
1 TTT-AAATTAAAATTTTT
852559 TTTAAATTAAAAGTTTATT
1 TTTAAATTAAAA-TTT-TT
852578 TTT
1 TTT
852581 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 5 0.16
16 9 0.29
18 7 0.23
19 10 0.32
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAAATTAAAATTTTT
Found at i:852623 original size:21 final size:20
Alignment explanation
Indices: 852599--852645 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
852589 AATATTTTAT
852599 ATTTTA-TAATTAAATCAATAA
1 ATTTTATTAATTAAAT-AAT-A
*
852620 ATTTTATTATTTAAATAATA
1 ATTTTATTAATTAAATAATA
852640 ATTTTA
1 ATTTTA
852646 ACCAATCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTATTAATTAAATAATA
Found at i:853174 original size:15 final size:16
Alignment explanation
Indices: 853143--853179 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
853133 TATATTATTT
853143 AAAAATTATAATAATA
1 AAAAATTATAATAATA
853159 AAAATATTA-AAT-ATA
1 AAAA-ATTATAATAATA
853174 AAAAAT
1 AAAAAT
853180 ACAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 7 0.35
16 7 0.35
17 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTATAATAATA
Found at i:853726 original size:16 final size:16
Alignment explanation
Indices: 853702--853754 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
853692 AAAAAATAAA
853702 TTTTG-AAAATAAGTT
1 TTTTGTAAAATAAGTT
853717 TTTTGTAAAAT-A--T
1 TTTTGTAAAATAAGTT
*
853730 TTTT-TAAAATAGGTT
1 TTTTGTAAAATAAGTT
*
853745 TTTTTTAAAA
1 TTTTGTAAAA
853755 ATACATTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
12 6 0.19
13 5 0.16
15 11 0.34
16 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
TTTTGTAAAATAAGTT
Found at i:853755 original size:29 final size:29
Alignment explanation
Indices: 853693--853757 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
853683 AGAATATTAA
853693 AAAAATAAATTTTGAAAATAAGTTTTTTGT
1 AAAAAT-AATTTTGAAAATAAGTTTTTTGT
* * * *
853723 -AAAATATTTTTTAAAATAGGTTTTTTTT
1 AAAAATAATTTTGAAAATAAGTTTTTTGT
853751 AAAAATA
1 AAAAATA
853758 CATTGAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (29 bp):
AAAAATAATTTTGAAAATAAGTTTTTTGT
Found at i:854241 original size:195 final size:193
Alignment explanation
Indices: 853868--854241 Score: 407
Period size: 195 Copynumber: 1.9 Consensus size: 193
853858 TTTAATTAAA
* *
853868 TTTAAAAATTTTAAGGTATGATTTGTAAAATTAATTGTTAAAATATTTTTGATATGATTATACAA
1 TTTAAAAATATTAAGGTATGATTTGTAAAATTAATTGTTAAAATATTTTTGATATAATTATACAA
* * *** * *
853933 ATTTAATTTAATTTTTTTAGATAATTTAAAACTTTTTTAAAGTATGATTTTTTTATTTATAAAAT
66 ATTTAATTTAATTTTTTAAGATAATTCAAAAAAATTTTAAAATATAATTTTTTTATTTATAAAAT
* ** * *** * ***
853998 TAATTTAATTTATTTTTATATGTATTATTTTTCGGTAACGACTTAAATATAAATTTTCTTTAAAA
131 AAATTTAAAATATTATTATAAAAATAAAAATT--GTAAC-ACTTAAATATAAATTTTCTTTAAAA
854063 T
193 T
*
854064 TTTAAAAA-ATTAAGGTATGATTTGTAAAATTAATTGTTAAAATATTTTGTGATATAATTATATA
1 TTTAAAAATATTAAGGTATGATTTGTAAAATTAATTGTTAAAATATTTT-TGATATAATTATACA
*
854128 AATTTAATTTAA-TTTTTAAG-TAATTCAAAAAAATTTTAAAATCTAATTTATTTTTATTTTATT
65 AATTTAATTTAATTTTTTAAGATAATTCAAAAAAATTTTAAAATATAA-TT-TTTTTA-TTTA-T
* *
854191 ATATATAAATTTAAAATATTAATTATAAAAATAAAAATT-TAA-ATTTAAATA
126 A-AAATAAATTTAAAATATT-ATTATAAAAATAAAAATTGTAACACTTAAATA
854242 AAAAAGGTCA
Statistics
Matches: 147, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
194 19 0.13
195 56 0.38
196 39 0.27
197 7 0.05
198 2 0.01
199 14 0.10
200 10 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (193 bp):
TTTAAAAATATTAAGGTATGATTTGTAAAATTAATTGTTAAAATATTTTTGATATAATTATACAA
ATTTAATTTAATTTTTTAAGATAATTCAAAAAAATTTTAAAATATAATTTTTTTATTTATAAAAT
AAATTTAAAATATTATTATAAAAATAAAAATTGTAACACTTAAATATAAATTTTCTTTAAAAT
Found at i:858049 original size:18 final size:18
Alignment explanation
Indices: 857999--858049 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 18
857989 AAAAACATAA
857999 TAATTAATATTTTTAATTAT
1 TAATTAAT-TTTTTAA-TAT
858019 TAATATAA-TTTTTAA-ACT
1 TAAT-TAATTTTTTAATA-T
858037 TAATTAATTTTTT
1 TAATTAATTTTTT
858050 TATTTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 7 0.25
20 4 0.14
21 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTAATTTTTTAATAT
Found at i:858150 original size:123 final size:125
Alignment explanation
Indices: 857971--858201 Score: 314
Period size: 123 Copynumber: 1.8 Consensus size: 125
857961 AAAATTATAA
857971 TTTAAAATTTTTTGTTTTAAAAACATAATAATTAATATTTTTAATTATTAATATAA-TTTTTAAA
1 TTTAAAATTTTTTGTTTTAAAAACATAATAATTAATATTTTTAATTATTAATATAATTTTTTAAA
858035 CTTAATT-A-ATT-TTTTT-ATTTTATTAAAAATTATAATAAAAAACTTTCTTATTTTTTAT
66 CTTAATTAATATTATTTTTAATTTTATTAAAAA--ATAATAAAAAACTTTCTTATTTTTTAT
* * * *
858093 TTTAAATTTTTTATTTTTATAAAAACAT-ATAATTAATA-TTTTAATTTGTTATTATAATTTTTT
1 TTTAAAATTTTT-TGTTT-TAAAAACATAATAATTAATATTTTTAA-TTATTAATATAA-TTTTT
858156 TAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAAA
62 TAAACTTAATT-AATATTATTTTTAATTTTATTAAAAAATAATAAA
858202 TATAAACCCT
Statistics
Matches: 95, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
122 17 0.18
123 24 0.25
124 9 0.09
125 15 0.16
127 1 0.01
128 11 0.12
129 5 0.05
130 13 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.55
Consensus pattern (125 bp):
TTTAAAATTTTTTGTTTTAAAAACATAATAATTAATATTTTTAATTATTAATATAATTTTTTAAA
CTTAATTAATATTATTTTTAATTTTATTAAAAAATAATAAAAAACTTTCTTATTTTTTAT
Found at i:859391 original size:12 final size:12
Alignment explanation
Indices: 859374--859419 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
859364 AAAATGATAT
859374 AATTAAAAATAA
1 AATTAAAAATAA
*
859386 AATTAAAACTTAA
1 AATTAAAA-ATAA
*
859399 ATTTAAAAATAA
1 AATTAAAAATAA
*
859411 AAATAAAAA
1 AATTAAAAA
859420 ATTACAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (12 bp):
AATTAAAAATAA
Found at i:859735 original size:19 final size:19
Alignment explanation
Indices: 859711--859747 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
859701 ATATATATAA
*
859711 TTAAAAATAAAATTAAAAT
1 TTAAAAATAAAAATAAAAT
859730 TTAAAAATAAAAATAAAA
1 TTAAAAATAAAAATAAAA
859748 AAATTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
TTAAAAATAAAAATAAAAT
Found at i:860096 original size:5 final size:6
Alignment explanation
Indices: 860080--860104 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
860070 TATATATAAT
860080 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
860105 TATAAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:860245 original size:17 final size:18
Alignment explanation
Indices: 860210--860257 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
860200 ACAATTTTTT
* * *
860210 TATTTGTTAGATATGAAA
1 TATTTTTTAAATATAAAA
860228 T-TTTTTTAAATATAAAA
1 TATTTTTTAAATATAAAA
860245 TAATTTTTTAAAT
1 T-ATTTTTTAAAT
860258 TTGTTGGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 14 0.56
18 1 0.04
19 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TATTTTTTAAATATAAAA
Found at i:860487 original size:21 final size:21
Alignment explanation
Indices: 860461--860513 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
860451 TAAAAAAAAA
860461 TAAAAAAATTACAAATTTTTT
1 TAAAAAAATTACAAATTTTTT
*
860482 TAAAAAATTTACAAATTTTTT
1 TAAAAAAATTACAAATTTTTT
*
860503 TTAAAAAATTA
1 TAAAAAAATTA
860514 AGGGATTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAAAATTACAAATTTTTT
Found at i:860501 original size:22 final size:21
Alignment explanation
Indices: 860461--860512 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 21
860451 TAAAAAAAAA
*
860461 TAAAAAAATTACAAATTTTTT
1 TAAAAAATTTACAAATTTTTT
860482 TAAAAAATTTACAAATTTTTTT
1 TAAAAAATTTACAAA-TTTTTT
860504 TAAAAAATT
1 TAAAAAATT
860513 AAGGGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAAAATTTACAAATTTTTT
Found at i:860626 original size:17 final size:18
Alignment explanation
Indices: 860591--860638 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
860581 CAATTTTTTT
* * *
860591 TATTTGTTAGATATGAAA
1 TATTTTTTAAATATAAAA
860609 T-TTTTTTAAATATAAAA
1 TATTTTTTAAATATAAAA
860626 TAATTTTTTAAAT
1 T-ATTTTTTAAAT
860639 TTGTTAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 14 0.56
18 1 0.04
19 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TATTTTTTAAATATAAAA
Found at i:860729 original size:25 final size:25
Alignment explanation
Indices: 860701--860748 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
860691 TAAATATATT
860701 AATTAAAAATAAAATAAAAATTTAA
1 AATTAAAAATAAAATAAAAATTTAA
** *
860726 AATTAATTATAAAATAATAATTT
1 AATTAAAAATAAAATAAAAATTT
860749 TCTTTTTCAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAAAATAAAATAAAAATTTAA
Found at i:860830 original size:6 final size:6
Alignment explanation
Indices: 860819--860866 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
860809 ATTAAAATAT
860819 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
860867 ATTATAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:861160 original size:755 final size:741
Alignment explanation
Indices: 859511--861594 Score: 3250
Period size: 755 Copynumber: 2.8 Consensus size: 741
859501 TAAATCTCCT
**
859511 AAATAATTTTTTTATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCT
1 AAATAATTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCT
859576 TTTAAATATATTAGTTAAATATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTT-TTT
66 TTTAAATATATTAGTTAAATATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTT
* *
859640 TTCAAATGTGTTGGGTATAAATATTAAATATATATGATTCATAACGCGAACTATTGTTAAAATAT
131 TTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAATGCGAACTATTGTTAAAATAT
859705 ATATAATTAAAAATAAAATTAAAATTTAAAAATAAAA-ATAAAAAAATTAC-AATTTTTTTTAAA
196 ATATAATTAAAAATAAAATTAAAATTTAAAAATAAAATAT-AAAAAATTACAAATTTTTTTT--A
*
859768 AAAAATTAAGGAATTTAGTGTC--T-A----TTAGGCAAAGAGCTTGACACATGTCAAGCTTTAA
258 AAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGC-TTAA
* *
859826 ATCTCCTAAACAATTTTTTTATTTGTTAGATACAAAAATTTTTTAAATATAAAATAATTCTTTAA
322 ATCTCCTAAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATAAAATAATTTTTTAA
859891 ATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCTTTTAAATATATTA
387 ATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCTTTTAAATATATTA
*
859956 GTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTTTTCAAATGTGCTG
452 GTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTTTTCAAATGTGTTG
* * * *
860021 GGTATAAATATTAAATATATATGATTCATAACACGAACTATTATTAAAATAT----ATATAATTA
517 GGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATATAAAAATAAAAATA
* * * * *
860082 AAAATAAAAATAAAAATAAAAATTATAAATTACAAATTTTTTAAAAAAATTAAGGGATTTATTGT
582 AAAATAAAAATAAAAATAAAAATTAAAAATAAAAAATTTTTTAAAAAAATTAAGAGATTTAGTGT
* *
860147 TTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGACTTAAATCTCCTAAACAATTTTTTTA
647 CTATCATGTGTTAGGCAAAGAGCTTAACACATGTCAAGACTTAAATCTCCTAAACAATTTTTTTA
**
860212 TTTGTTAGATATGAAATTTTTTTAAATATA
712 TTTGTTAGATACAAAATTTTTTTAAATATA
* ** *
860242 AAATAATTTTTTAAATTTGTTGGATACAAAATTTAAATTAATTTGAAAATTTTGATCATCAACTA
1 AAATAA-TTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
* *
860307 TTTTAAACATATTAGTTAAATAGAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
65 TTTTAAATATATTAGTTAAATATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
* *
860372 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAATGAGAACTATTATTAAAATA
130 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAATGCGAACTATTGTTAAAATA
* ** *
860437 TATATAATTAAAAATAAAA-AAAAATAAAAAAATTACAAATTTTTTTAAAAAATTTACAAATTTT
195 TATATAATTAAAAATAAAATTAAAATTTAAAAA-TA-AAA----TATAAAAAA-TTACAAATTTT
* *
860501 TTTTAAAAAATTAAGGGATTTAGTATCTATCATGTGTTAGGCAAAGAGCTTGAAACATGTCAAGT
253 TTTTAAAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAG-
* *
860566 CTTAAATCTCCTAAACAATTTTTTTTATTTGTTAGATATGAAATTTTTTTAAATATAAAATAATT
317 CTTAAATCTCCTAAACAA-TTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATAAAATAATT
* *
860631 TTTTAAATTTGTTAGATACGAAATTTAAATCGATTT-AAAGATTTTGATCACCAACTCTTTTAAA
381 TTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAA-ATTTTGATCATCAACTCTTTTAAA
*
860695 TATATTAATTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTTTTCAAA
445 TATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTTTTCAAA
* * *
860760 TGTTTTGAGTATGAATATTAAATATATATGATTCATAACGTGAACTATTATTAAAATATTAAAAA
510 TGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA-TAAAAA
860825 TAAAAATAAAAATAAAAATAAAAATAAAAA-TAAAAATAAAAAATTATAATTTAAAAAAAAATTA
574 TAAAAATAAAAATAAAAATAAAAATAAAAATTAAAAATAAAAAATT-T--TTT--AAAAAAATTA
*
860889 AGAGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTAACACATGTCAAGCCTTAAATCTCCTA
634 AGAGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTAACACATGTCAAGACTTAAATCTCCTA
860954 AACAATTTTTTTATTTGTTAGATACAAAATTTTTTTAAATATA
699 AACAATTTTTTTATTTGTTAGATACAAAATTTTTTTAAATATA
**
860997 AAATAATTCTTTAAATTTGTTAGATAGGAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
1 AAATAATT-TTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
*
861062 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
65 TTTTAAATATATTAGTTAAATATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
* *
861127 TTTCAAATTTGCTGGGTATGAATATTAAATATATATGATTCATAATGCGAACTATTGTTAAAATA
130 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAATGCGAACTATTGTTAAAATA
* *
861192 TATATAATTAAAAATAAAATTTAAATTTAAAAATAAAAATAAAAATAAAAAATTACAAATTATTT
195 TATATAATTAAAAATAAAATTAAAATTTAAAAAT-AAAAT----ATAAAAAATTACAAATTTTTT
* *
861257 TAAAAAAATCAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCT
255 TTAAAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAG-CT
*
861322 TAAATCT-CTGAAACAATTTTTTTATTTTTTAGATACGAAAATTTTTTAAATATAAAATAATTTT
319 TAAATCTCCT-AAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATAAAATAATTTT
* *
861386 TTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATTAACTTTTTTAAATAT
383 TTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCTTTTAAATAT
* * *
861451 ATTAGTTAAAAATCAAATAAAAATTTAAAATTAATTATAAAATGATAATTTTTTTTTTCAAATGT
448 ATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTTTTCAAATGT
861516 GTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATATAAAAATAAA
513 GTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATATAAAAATAAA
861581 AATAAAAATAAAAA
578 AATAAAAATAAAAA
861595 AATTATAATT
Statistics
Matches: 1231, Mismatches: 82, Indels: 59
0.90 0.06 0.04
Matches are distributed among these distances:
731 6 0.00
732 122 0.10
733 84 0.07
734 3 0.00
738 27 0.02
739 5 0.00
740 11 0.01
741 1 0.00
745 47 0.04
746 217 0.18
747 1 0.00
750 12 0.01
751 31 0.03
752 24 0.02
753 220 0.18
754 90 0.07
755 320 0.26
756 10 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (741 bp):
AAATAATTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCT
TTTAAATATATTAGTTAAATATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTT
TTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAATGCGAACTATTGTTAAAATAT
ATATAATTAAAAATAAAATTAAAATTTAAAAATAAAATATAAAAAATTACAAATTTTTTTTAAAA
AATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCTTAAATCT
CCTAAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATAAAATAATTTTTTAAATTT
GTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTCTTTTAAATATATTAGTTA
AAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTTTTTCAAATGTGTTGGGTA
TGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATATAAAAATAAAAATAAAAA
TAAAAATAAAAATAAAAATTAAAAATAAAAAATTTTTTAAAAAAATTAAGAGATTTAGTGTCTAT
CATGTGTTAGGCAAAGAGCTTAACACATGTCAAGACTTAAATCTCCTAAACAATTTTTTTATTTG
TTAGATACAAAATTTTTTTAAATATA
Found at i:861242 original size:19 final size:19
Alignment explanation
Indices: 861201--861244 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
861191 ATATATAATT
* * * *
861201 AAAAATAAAATTTAAATTT
1 AAAAATAAAAATAAAAATA
861220 AAAAATAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
861239 AAAAAT
1 AAAAAT
861245 TACAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATAAAAATAAAAATA
Done.