Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 35 of 103
Found at i:13236642 original size:5 final size:5
Alignment explanation
Indices: 13236636--13236691 Score: 85
Period size: 5 Copynumber: 11.2 Consensus size: 5
13236626 CTATTCAACC
* **
13236636 TAACC TAACT TAACT TAACT TAACT TGGCT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
13236686 TAACT T
1 TAACT T
13236692 GGGCCACACT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (5 bp):
TAACT
Found at i:13243382 original size:35 final size:35
Alignment explanation
Indices: 13243311--13243383 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
13243301 CTCTCCTAGC
* * *
13243311 TCATGTGCACTCCCACACTGCACATAGCTAGGTCA
1 TCATGTGCACTCCCACACCGCACATAGCAAGATCA
*
13243346 TCATGTGCACTCCCACACCGCACATTA-CAATATCA
1 TCATGTGCACTCCCACACCGCACA-TAGCAAGATCA
13243381 TCA
1 TCA
13243384 GCAGCATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACATAGCAAGATCA
Found at i:13243412 original size:44 final size:44
Alignment explanation
Indices: 13243344--13243502 Score: 266
Period size: 44 Copynumber: 3.6 Consensus size: 44
13243334 ATAGCTAGGT
* * *
13243344 CATCATGTGCACTCCCACACCGCACATTACAATATCATCAGCAG
1 CATCATGTGCTCTCCCACATCGCACATTACAATATCATCATCAG
13243388 CATCATGTGCTCTCCCACATCGCACATTACAATATCATCATCAG
1 CATCATGTGCTCTCCCACATCGCACATTACAATATCATCATCAG
*
13243432 CATCATGTGCTCTCCCACA-CTGCACATTACAATATCATCATTAG
1 CATCATGTGCTCTCCCACATC-GCACATTACAATATCATCATCAG
13243476 CATCATGTGCTCTCCCACATCGCACAT
1 CATCATGTGCTCTCCCACATCGCACAT
13243503 GGCATAAATC
Statistics
Matches: 109, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
43 1 0.01
44 107 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (44 bp):
CATCATGTGCTCTCCCACATCGCACATTACAATATCATCATCAG
Found at i:13254752 original size:42 final size:42
Alignment explanation
Indices: 13254703--13254810 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
13254693 CCTTTTGTGT
13254703 GATGATGATGACCCAGCCATGTGCATGT-AGAAGTACACATGA
1 GATGATGATGACCCAGCCATGTGCATGTAAG-AGTACACATGA
* * * *
13254745 GCTGATGATGACCCAGCCATGTGCTTGTAAGAGTTCATATGA
1 GATGATGATGACCCAGCCATGTGCATGTAAGAGTACACATGA
* * *
13254787 GATGATGCTGACCCAACTATGTGC
1 GATGATGATGACCCAGCCATGTGC
13254811 GAGTGGGGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (42 bp):
GATGATGATGACCCAGCCATGTGCATGTAAGAGTACACATGA
Found at i:13269640 original size:2 final size:2
Alignment explanation
Indices: 13269635--13269665 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13269625 TATATATATC
13269635 TG TG 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 TG TG T
13269666 TATAGAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:13275357 original size:2 final size:2
Alignment explanation
Indices: 13275345--13275405 Score: 77
Period size: 2 Copynumber: 30.0 Consensus size: 2
13275335 CTATCAATAC
* *
13275345 AT AT CAT AT AT AT TT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
**
13275388 CN AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
13275406 CAACATAACA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13277867 original size:26 final size:23
Alignment explanation
Indices: 13277806--13277865 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
13277796 TATATGTATA
13277806 CCCATCATCATCATGAACACCAT
1 CCCATCATCATCATGAACACCAT
13277829 CCCATCATCATCAT-ACACACCAT
1 CCCATCATCATCATGA-ACACCAT
*
13277852 CACATCATCATCAT
1 CCCATCATCATCAT
13277866 CACCAGCTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.35, C:0.40, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATGAACACCAT
Found at i:13278746 original size:23 final size:22
Alignment explanation
Indices: 13278720--13278779 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
13278710 AAGGAGGAAA
* *
13278720 AAGAAAAAGCTGTTGGAAAATGG
1 AAGAAGAAGCTGCTGGAAAAT-G
*
13278743 AAGAAGAAGCTACTGGAAAATG
1 AAGAAGAAGCTGCTGGAAAATG
13278765 AGAGAAGAAGCTGCT
1 A-AGAAGAAGCTGCT
13278780 TGAAGAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.47, C:0.08, G:0.30, T:0.15
Consensus pattern (22 bp):
AAGAAGAAGCTGCTGGAAAATG
Found at i:13280768 original size:19 final size:19
Alignment explanation
Indices: 13280755--13280791 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13280745 GCTTGCTTGG
13280755 GTCTAGTGGGCTTGCCTAA
1 GTCTAGTGGGCTTGCCTAA
13280774 GTCTAGTGGGCTTGCCTA
1 GTCTAGTGGGCTTGCCTA
13280792 CTAGGCTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (19 bp):
GTCTAGTGGGCTTGCCTAA
Found at i:13286039 original size:21 final size:22
Alignment explanation
Indices: 13285999--13286039 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13285989 CCATTGGTCC
*
13285999 GTTTTTAAAATTTCATCCATTT
1 GTTTCTAAAATTTCATCCATTT
*
13286021 GTTTCTAAATTTTCA-CCAT
1 GTTTCTAAAATTTCATCCAT
13286040 ACACTTGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (22 bp):
GTTTCTAAAATTTCATCCATTT
Found at i:13298346 original size:43 final size:43
Alignment explanation
Indices: 13298298--13298420 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
13298288 CACCATCCCA
* * *** *
13298298 TCATCACCAGCTCATGTGCACTCCCTACTCGCACATGGTTGGG
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAACTAGG
* *
13298341 TCATCACCAGTTTATGCGTACTCCCTACTCGCACATAACTAGG
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAACTAGG
* *
13298384 TCATCATCAGCTTATGCGCACTCCTTACTCGCACATA
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATA
13298421 GCTATGTCCA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (43 bp):
TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAACTAGG
Found at i:13300718 original size:60 final size:60
Alignment explanation
Indices: 13300598--13300744 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
13300588 AGACCAAAAT
* * * * *
13300598 AGAAGGTTTTTCGCTGCAGCGAGATTCTTTCTCGCTGCAGCGAAATTGTAACCCAGAAAC
1 AGAAGGTTTCTCGCTGCAGCGAGATTCTTTCTCACTACAGCGAAATTGCAACCCACAAAC
* **
13300658 AGAAGGTTTCTCGCTGCAGCGGGATTCTTTCTCACTACAGCGAAATT-CAACTGATCAAAC
1 AGAAGGTTTCTCGCTGCAGCGAGATTCTTTCTCACTACAGCGAAATTGCAACCCA-CAAAC
*
13300718 AG-AGAATTTCTCGCTGCAGCGAGATTC
1 AGAAG-GTTTCTCGCTGCAGCGAGATTC
13300745 CTTTTCGCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
59 6 0.08
60 69 0.92
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (60 bp):
AGAAGGTTTCTCGCTGCAGCGAGATTCTTTCTCACTACAGCGAAATTGCAACCCACAAAC
Found at i:13301180 original size:43 final size:43
Alignment explanation
Indices: 13301103--13301212 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
13301093 TCACCAGCTC
* *** * *
13301103 ATGCGCACTCCCTACTCTCACATGATTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCTCACATAACCAGATCATC-CTCGGCTT
13301146 ATGCGCACTCCCTACTCTCACATAACCAGATCATCCTCGGCTT
1 ATGCGCACTCCCTACTCTCACATAACCAGATCATCCTCGGCTT
* * *
13301189 ATGTGCACTCCTTACTCGCACATA
1 ATGCGCACTCCCTACTCTCACATA
13301213 GCCAAGTCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCTCACATAACCAGATCATCCTCGGCTT
Found at i:13303364 original size:21 final size:21
Alignment explanation
Indices: 13303331--13303371 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13303321 ATTTTAAATT
**
13303331 GATTTTCGTTGCAACAAAACG
1 GATTTTCAATGCAACAAAACG
*
13303352 GATTTTCAATGCAGCAAAAC
1 GATTTTCAATGCAACAAAAC
13303372 CCCCCCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (21 bp):
GATTTTCAATGCAACAAAACG
Found at i:13303956 original size:2 final size:2
Alignment explanation
Indices: 13303949--13303986 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13303939 CTTTTGTATG
* *
13303949 TA TA TA TA TA TG TA TA TA TA CA 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 TA
13303987 CTCGATGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13304648 original size:36 final size:36
Alignment explanation
Indices: 13304601--13304671 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
13304591 ATTGTAATAT
*
13304601 TTTGAGTGGTTATACCTTAAC-CAAGTTAAAAGGTAG
1 TTTGAGTGGTTATACCTTAACTAAAG-TAAAAGGTAG
13304637 TTTGAGTGGTTATACCTTAACTAAAGTAAAAGGTA
1 TTTGAGTGGTTATACCTTAACTAAAGTAAAAGGTA
13304672 AGGTGGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 30 0.91
37 3 0.09
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (36 bp):
TTTGAGTGGTTATACCTTAACTAAAGTAAAAGGTAG
Found at i:13304723 original size:36 final size:36
Alignment explanation
Indices: 13304676--13304744 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
13304666 AAGGTAAGGT
13304676 GGTTGTACTTGATCCATAAAA-AGCATTGTATTGTAA
1 GGTTGTACTTGATCCATAAAAGA-CATTGTATTGTAA
*
13304712 GGTTGTGCTTGATCCATAAAAGACATTGTATTG
1 GGTTGTACTTGATCCATAAAAGACATTGTATTG
13304745 AACTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (36 bp):
GGTTGTACTTGATCCATAAAAGACATTGTATTGTAA
Found at i:13315732 original size:5 final size:5
Alignment explanation
Indices: 13315702--13315753 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
13315692 TTACATTTGT
* * *
13315702 ATTTAC ATTTC ACTTAC ATTTC ATTTT ATTTG ATTTC ATTTGC ATTTC
1 ATTT-C ATTTC A-TTTC ATTTC ATTTC ATTTC ATTTC ATTT-C ATTTC
13315750 ATTT
1 ATTT
13315754 GCTTCTGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
5 26 0.67
6 13 0.33
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:13315750 original size:11 final size:11
Alignment explanation
Indices: 13315695--13315755 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
13315685 CAACATCTTA
*
13315695 CATTTGTATTT
1 CATTTGCATTT
*
13315706 ACATTT-CACTTA
1 -CATTTGCA-TTT
13315718 CATTT-CATTT
1 CATTTGCATTT
*
13315728 TATTTG-ATTT
1 CATTTGCATTT
13315738 CATTTGCATTT
1 CATTTGCATTT
13315749 CATTTGC
1 CATTTGC
13315756 TTCTGAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 15 0.37
11 19 0.46
12 7 0.17
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (11 bp):
CATTTGCATTT
Found at i:13315910 original size:82 final size:82
Alignment explanation
Indices: 13315773--13315928 Score: 285
Period size: 82 Copynumber: 1.9 Consensus size: 82
13315763 TTATTAGTGA
* *
13315773 TTGAAAGACTGATTCGTCTCTTTTCTTCTGTTTTAATTCCTTTTGTCGAAAGCATGCAAAGGCTG
1 TTGAAAGACTGATTCGTCTCTTTTCTTCTGCTTTAATTCCCTTTGTCGAAAGCATGCAAAGGCTG
13315838 TCTTGTCTTCTTTATTT
66 TCTTGTCTTCTTTATTT
*
13315855 TTGAAAGACTGATTCGTCTTTTTTCTTCTGCTTTAATTCCCTTTGTCGAAAGCATGCAAAGGCTG
1 TTGAAAGACTGATTCGTCTCTTTTCTTCTGCTTTAATTCCCTTTGTCGAAAGCATGCAAAGGCTG
13315920 TCTTGTCTT
66 TCTTGTCTT
13315929 TTTTTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (82 bp):
TTGAAAGACTGATTCGTCTCTTTTCTTCTGCTTTAATTCCCTTTGTCGAAAGCATGCAAAGGCTG
TCTTGTCTTCTTTATTT
Found at i:13322793 original size:2 final size:2
Alignment explanation
Indices: 13322786--13322820 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
13322776 CATGTGCTTA
*
13322786 TC TC TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13322821 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
TC
Found at i:13322825 original size:2 final size:2
Alignment explanation
Indices: 13322820--13322858 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13322810 TCTCTCTCTC
13322820 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13322859 TTGTCTTTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13328589 original size:21 final size:21
Alignment explanation
Indices: 13328562--13328602 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13328552 GGGTACGCAA
*
13328562 ATTTTTTT-TAAAATAAAATT
1 ATTTTTTTATAAAAAAAAATT
13328582 ATTTTTTTATAAAAAAAAATT
1 ATTTTTTTATAAAAAAAAATT
13328603 TTTATTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTTTTTATAAAAAAAAATT
Found at i:13330486 original size:33 final size:32
Alignment explanation
Indices: 13330432--13330496 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
13330422 TAAATTATGC
* * *
13330432 AATTGATCTGTGTATTTTAAAAATATATATAAA
1 AATTAATCTGTGTATTCTAAAAA-AAATATAAA
*
13330465 AATTAATCTTTGTATTCTAAAAAAAATATAAA
1 AATTAATCTGTGTATTCTAAAAAAAATATAAA
13330497 TTTAGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (32 bp):
AATTAATCTGTGTATTCTAAAAAAAATATAAA
Found at i:13330704 original size:17 final size:17
Alignment explanation
Indices: 13330679--13330718 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13330669 CGATATAATC
* *
13330679 ACATTAATATTAATGTG
1 ACATAAATACTAATGTG
*
13330696 ACATAAATACTGATGTG
1 ACATAAATACTAATGTG
13330713 ACATAA
1 ACATAA
13330719 CCCATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
ACATAAATACTAATGTG
Found at i:13334470 original size:20 final size:20
Alignment explanation
Indices: 13334428--13334470 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13334418 AAATGGATGA
*
13334428 TTTAGATACCGAAATTTATT
1 TTTAGATACCGAAATGTATT
*
13334448 TTTAGATA-TGAAATGTATAT
1 TTTAGATACCGAAATGTAT-T
13334468 TTT
1 TTT
13334471 TCATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTAGATACCGAAATGTATT
Found at i:13338022 original size:41 final size:42
Alignment explanation
Indices: 13337964--13338046 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
13337954 GGTCGTGACA
*
13337964 CTGCTTCCCAAGCGTAATCAAATTTCTAAA-ATTTCCAAAGT
1 CTGCTTCCCAAGCGTAATCAAATTTCCAAATATTTCCAAAGT
* *
13338005 CTGCTTCTCAAGTGTAATCAAATTTCCAAATATTTCCAAAGT
1 CTGCTTCCCAAGCGTAATCAAATTTCCAAATATTTCCAAAGT
13338047 TTCACTTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 27 0.71
42 11 0.29
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (42 bp):
CTGCTTCCCAAGCGTAATCAAATTTCCAAATATTTCCAAAGT
Found at i:13343209 original size:15 final size:15
Alignment explanation
Indices: 13343191--13343219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13343181 ATGGTTTGAC
13343191 TCAACCTTTCAGTGA
1 TCAACCTTTCAGTGA
13343206 TCAACCTTTCAGTG
1 TCAACCTTTCAGTG
13343220 TAATTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (15 bp):
TCAACCTTTCAGTGA
Found at i:13344752 original size:14 final size:14
Alignment explanation
Indices: 13344733--13344760 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13344723 TCAATATTCA
13344733 ACCTTTTGATCAAT
1 ACCTTTTGATCAAT
13344747 ACCTTTTGATCAAT
1 ACCTTTTGATCAAT
13344761 TGAACATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
ACCTTTTGATCAAT
Found at i:13346170 original size:54 final size:54
Alignment explanation
Indices: 13346088--13346246 Score: 273
Period size: 54 Copynumber: 2.9 Consensus size: 54
13346078 TCATTATGTG
* *
13346088 CATCTCACCAAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATTC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATTC
* *
13346142 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGACGGACATTG
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATTC
*
13346196 CATCTCACCCAGCTCATGTGCATCCCACCACATCATGCACATAGCCGGACA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
13346247 GTATCACCAT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.27, C:0.39, G:0.14, T:0.19
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATTC
Found at i:13346360 original size:2 final size:2
Alignment explanation
Indices: 13346348--13346380 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13346338 CATTTATGAC
13346348 AT AT A- 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
13346381 CAACATTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13350252 original size:181 final size:180
Alignment explanation
Indices: 13350015--13350343 Score: 496
Period size: 181 Copynumber: 1.8 Consensus size: 180
13350005 TCAATAACTT
* * * *
13350015 AAATCAGCTTGTTTGGCCATGAAAATTTCCAGAAATAATCCTTATTGAACATTTTAATAAATATA
1 AAATCAGCATATTTGACCATGAAAATTTCCAGAAATAATCCTTATTGAACATTTTAATAAAGATA
* * * * * *
13350080 ATTTTTCTGGAATTTTTTTAGAATTAATTTTCAAGAGTTTCTTGTCAATTAAAACTGAAATTGAT
66 ATTTTCCTGGAA-TTTTTCAAAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCAT
13350145 GCCAAAACAGTGAGCTGGACAAATTTATATTTGCACCAATTTTCTTGCTCA
130 GCCAAAACAGTGAGCTGGACAAATTTATATTTGCACCAATTTTCTTGCTCA
* *
13350196 AAATCAGCATATTTGACCATGATATTTTCCAGAAATAATCCTTATTGAACATTTTAATAAAGATA
1 AAATCAGCATATTTGACCATGAAAATTTCCAGAAATAATCCTTATTGAACATTTTAATAAAGATA
* *
13350261 ATTTTCCTGGAATTTTTCAAAATTAATTTCCAAGACTTTCTTGTTAATTAAAATTGAAATTCATG
66 ATTTTCCTGGAATTTTTCAAAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
* * *
13350326 TCATAACAGTGAGTTGGA
131 CCAAAACAGTGAGCTGGA
13350344 TTGCTTTCAG
Statistics
Matches: 131, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
180 61 0.47
181 70 0.53
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (180 bp):
AAATCAGCATATTTGACCATGAAAATTTCCAGAAATAATCCTTATTGAACATTTTAATAAAGATA
ATTTTCCTGGAATTTTTCAAAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
CCAAAACAGTGAGCTGGACAAATTTATATTTGCACCAATTTTCTTGCTCA
Found at i:13351526 original size:68 final size:68
Alignment explanation
Indices: 13351385--13351535 Score: 180
Period size: 68 Copynumber: 2.2 Consensus size: 68
13351375 GAAGTATATA
* * **
13351385 CCATATACTACATGAGATGATTGAGAAAGTGTGATGAATGCCATGTAATTAAGTATATGATGTAC
1 CCATATACTACATGAAATGATTAAGAAAGCATGATGAATGCCATGTAATTAAGTATATGATGTAC
13351450 ATT
66 ATT
* * *
13351453 CCATATATTACTTGAAATGATTAAGAAAGCATGATGAATG-CATG-AGATTATGTATATGATGTA
1 CCATATACTACATGAAATGATTAAGAAAGCATGATGAATGCCATGTA-ATTAAGTATATGATGTA
*
13351516 TATTT
65 CA-TT
* *
13351521 TCATATACTATATGA
1 CCATATACTACATGA
13351536 GATTAGTAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
66 1 0.01
67 21 0.30
68 47 0.68
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (68 bp):
CCATATACTACATGAAATGATTAAGAAAGCATGATGAATGCCATGTAATTAAGTATATGATGTAC
ATT
Found at i:13352685 original size:2 final size:2
Alignment explanation
Indices: 13352678--13352715 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13352668 GCACTTGTTA
13352678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13352716 TAGTTAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13352900 original size:2 final size:2
Alignment explanation
Indices: 13352893--13352930 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13352883 NNNNNNNNNN
13352893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13352931 GAAATTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13353013 original size:17 final size:16
Alignment explanation
Indices: 13352991--13353022 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13352981 TGAGTTTTAT
13352991 GAAATGTATGCATAATG
1 GAAATGTATG-ATAATG
13353008 GAAATGTATGATAAT
1 GAAATGTATGATAAT
13353023 AGATGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (16 bp):
GAAATGTATGATAATG
Found at i:13355836 original size:75 final size:71
Alignment explanation
Indices: 13355685--13356104 Score: 467
Period size: 75 Copynumber: 5.8 Consensus size: 71
13355675 TAACCGTGCG
* * * * *** * *
13355685 TGTGCGGTGTGGTAGTGCACATGACGGTGATGGTGGTGTGCAGTGTGGGAGTGCACATGACGATG
1 TGTGCGGTGTGGGAGTGCACATGATGATTAT-GCCATGTGCGGTGTGGGAGTGCACATGATGATG
*
13355750 ATGATG--G
65 -T-ATGCCA
* * *
13355757 TGTGCAGTGTGGGAGTGCACACGCTGATGATATATGCCCTGTGTGGTGTGGGAGTGCACATGATG
1 TGTGCGGTGTGGGAGTGCACA---TGATGAT-TATGCCATGTGCGGTGTGGGAGTGCACATGATG
13355822 ATGTATGCCA
62 ATGTATGCCA
13355832 TGTGCGGTGTGGGAGTGCACATGATGTATGTATGCCATGTGCGGTGTGGGAGTGCACATGATGAT
1 TGTGCGGTGTGGGAGTGCACATGATG-AT-TATGCCATGTGCGGTGTGGGAGTGCACATGATGAT
13355897 GTATGCCA
64 GTATGCCA
* *
13355905 TGTGCGGTGTGGGAGTGCACATGAT-ATT-TTCCATGTGCGGTGTGGGAGTGCACATGACGATG-
1 TGTGCGGTGTGGGAGTGCACATGATGATTATGCCATGTGCGGTGTGGGAGTGCACATGATGATGT
***
13355967 ATGGTGG
66 AT-GCCA
* *
13355974 TGTGCAGTGTGGGAGTGCACATGCTAATGATATATGCCATGTGTGGTGTGGGAGTGCACATGATG
1 TGTGCGGTGTGGGAGTGCACATG---ATGAT-TATGCCATGTGCGGTGTGGGAGTGCACATGATG
*
13356039 ATATATGCCA
62 ATGTATGCCA
*
13356049 TGTGCGGTGTGGGAGTGCACATGAT-ATT-TGCCATGTGCGGTGTGGGAGTGAACATG
1 TGTGCGGTGTGGGAGTGCACATGATGATTATGCCATGTGCGGTGTGGGAGTGCACATG
13356105 GAGGATATTA
Statistics
Matches: 301, Mismatches: 32, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
68 2 0.01
69 81 0.27
70 2 0.01
71 4 0.01
72 28 0.09
73 73 0.24
74 2 0.01
75 105 0.35
76 4 0.01
ACGTcount: A:0.20, C:0.13, G:0.39, T:0.28
Consensus pattern (71 bp):
TGTGCGGTGTGGGAGTGCACATGATGATTATGCCATGTGCGGTGTGGGAGTGCACATGATGATGT
ATGCCA
Found at i:13356073 original size:36 final size:36
Alignment explanation
Indices: 13355721--13356104 Score: 455
Period size: 36 Copynumber: 10.6 Consensus size: 36
13355711 GTGATGGTGG
* * *
13355721 TGTGCAGTGTGGGAGTGCACATGACGATGATGATG--G
1 TGTGCGGTGTGGGAGTGCACATGATGAT-AT-ATGCCA
* *
13355757 TGTGCAGTGTGGGAGTGCACACGCTGATGATATATGCCC
1 TGTGCGGTGTGGGAGTGCACA---TGATGATATATGCCA
* *
13355796 TGTGTGGTGTGGGAGTGCACATGATGATGTATGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
*
13355832 TGTGCGGTGTGGGAGTGCACATGATGTATGTATGCCA
1 TGTGCGGTGTGGGAGTGCACATGATG-ATATATGCCA
*
13355869 TGTGCGGTGTGGGAGTGCACATGATGATGTATGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
*
13355905 TGTGCGGTGTGGGAGTGCACATGAT-AT-T-TTCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
* * *
13355938 TGTGCGGTGTGGGAGTGCACATGACGATGATGGTG--G
1 TGTGCGGTGTGGGAGTGCACATGATGAT-AT-ATGCCA
*
13355974 TGTGCAGTGTGGGAGTGCACATGCTAATGATATATGCCA
1 TGTGCGGTGTGGGAGTGCACATG---ATGATATATGCCA
*
13356013 TGTGTGGTGTGGGAGTGCACATGATGATATATGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
13356049 TGTGCGGTGTGGGAGTGCACATGAT-AT-T-TGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
*
13356082 TGTGCGGTGTGGGAGTGAACATG
1 TGTGCGGTGTGGGAGTGCACATG
13356105 GAGGATATTA
Statistics
Matches: 313, Mismatches: 19, Indels: 35
0.85 0.05 0.10
Matches are distributed among these distances:
33 55 0.18
34 4 0.01
35 4 0.01
36 154 0.49
37 41 0.13
38 5 0.02
39 50 0.16
ACGTcount: A:0.20, C:0.14, G:0.38, T:0.28
Consensus pattern (36 bp):
TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
Found at i:13357243 original size:17 final size:18
Alignment explanation
Indices: 13357215--13357248 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13357205 TAAGTGGAGA
13357215 ATTTTAGAATAAAATAAC
1 ATTTTAGAATAAAATAAC
13357233 ATTTT-GAATAAAATAA
1 ATTTTAGAATAAAATAA
13357249 TATTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (18 bp):
ATTTTAGAATAAAATAAC
Found at i:13358445 original size:4 final size:4
Alignment explanation
Indices: 13358436--13358502 Score: 57
Period size: 4 Copynumber: 16.2 Consensus size: 4
13358426 CGGCGGTTGG
* *
13358436 AGAA AGAA AGAA AGGAGA AGAA AGAG AG-A A-AA AGAG AGAA AGGAAA
1 AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA A-G-AA
*
13358482 AGAA AGAA AGAA AGGA AGAA A
1 AGAA AGAA AGAA AGAA AGAA A
13358503 AAAATGGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.06
4 37 0.73
5 6 0.12
6 5 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:13358458 original size:14 final size:14
Alignment explanation
Indices: 13358438--13358491 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
13358428 GCGGTTGGAG
13358438 AAAGAAAGAAAGGA
1 AAAGAAAGAAAGGA
* * *
13358452 GAAGAAAGAGAGAA
1 AAAGAAAGAAAGGA
*
13358466 AAAGAGAGAAAGGA
1 AAAGAAAGAAAGGA
13358480 AAAGAAAGAAAG
1 AAAGAAAGAAAG
13358492 AAAGGAAGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGGA
Found at i:13358459 original size:18 final size:17
Alignment explanation
Indices: 13358436--13358502 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
13358426 CGGCGGTTGG
13358436 AGAAAGAAAGAAAGGAGA
1 AGAAAGAAAGAAA-GAGA
* *
13358454 AGAAAGAGAGAAAAAGA
1 AGAAAGAAAGAAAGAGA
13358471 GAGAAAGGAAAAGAAAGA-A
1 -AGAAA-G-AAAGAAAGAGA
*
13358490 AGAAAGGAAGAAA
1 AGAAAGAAAGAAA
13358503 AAAATGGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 6 0.15
17 4 0.10
18 22 0.54
19 2 0.05
20 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGAAAGAGA
Found at i:13358476 original size:28 final size:28
Alignment explanation
Indices: 13358438--13358494 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
13358428 GCGGTTGGAG
* *
13358438 AAAGAAAGAAAGGAGAAGAAAGAGAGAA
1 AAAGAAAGAAAGGAAAAGAAAGAAAGAA
*
13358466 AAAGAGAGAAAGGAAAAGAAAGAAAGAA
1 AAAGAAAGAAAGGAAAAGAAAGAAAGAA
13358494 A
1 A
13358495 GGAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (28 bp):
AAAGAAAGAAAGGAAAAGAAAGAAAGAA
Found at i:13358973 original size:35 final size:35
Alignment explanation
Indices: 13358912--13358982 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
13358902 TCCTACCAAG
* * *
13358912 CTTTTACAATGGCTTTTCACAAGATCAGCCACAAC
1 CTTTAACAATGGCTTTTCACAAGATCAACCAAAAC
* *
13358947 CTTTAACAATGG-TTTTTACCAGGATCAACCAAAAC
1 CTTTAACAATGGCTTTTCA-CAAGATCAACCAAAAC
13358982 C
1 C
13358983 CAAAGTGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (35 bp):
CTTTAACAATGGCTTTTCACAAGATCAACCAAAAC
Found at i:13359011 original size:67 final size:67
Alignment explanation
Indices: 13358921--13359052 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 67
13358911 GCTTTTACAA
* **
13358921 TGGCTTTTCACAAGATCAGCCACAACCTTTAACAATGG-TTTTTACCAGGATCAACCAAAACCCA
1 TGGCTTTTCACAAGATCAACCACAACCTACAACAATGGTTTTTTACCA-GATCAACCAAAACCCA
13358985 AAG
65 AAG
* * * * *
13358988 TGGCTTTTCA-AAGGCTCAACCACAACCTACAATAATGGTTTTTTACGAGATTAGCCAAAACCCA
1 TGGCTTTTCACAA-GATCAACCACAACCTACAACAATGGTTTTTTACCAGATCAACCAAAACCCA
13359052 A
65 A
13359053 CAATTAACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 2 0.04
67 45 0.82
68 8 0.15
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (67 bp):
TGGCTTTTCACAAGATCAACCACAACCTACAACAATGGTTTTTTACCAGATCAACCAAAACCCAA
AG
Found at i:13361240 original size:23 final size:23
Alignment explanation
Indices: 13361214--13361271 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
13361204 TCATTAGTCT
* *
13361214 TCAAGCATTATTCTCAATTATCA
1 TCAAGCATTATTATCAATCATCA
13361237 TCAAG---TATTATCAATCATCA
1 TCAAGCATTATTATCAATCATCA
13361257 TCAAGCATTCATTAT
1 TCAAGCATT-ATTAT
13361272 TTATTCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TCAAGCATTATTATCAATCATCA
Found at i:13370684 original size:35 final size:33
Alignment explanation
Indices: 13370607--13370684 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
13370597 AGAAAAAGAA
* * *
13370607 ATTAAAAAA-AAATATATAATATAAAAAATTAT
1 ATTAAAAAATAAAAATAAAATATAAAAAATTAC
*
13370639 ATTAAGAAATAAAAATAAAATATAAAAAATATGAC
1 ATTAAAAAATAAAAATAAAATATAAAAAAT-T-AC
13370674 ATTAAAAAATA
1 ATTAAAAAATA
13370685 TATTTAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 8 0.21
33 18 0.47
34 1 0.03
35 11 0.29
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (33 bp):
ATTAAAAAATAAAAATAAAATATAAAAAATTAC
Found at i:13381753 original size:38 final size:40
Alignment explanation
Indices: 13381664--13381764 Score: 134
Period size: 38 Copynumber: 2.6 Consensus size: 40
13381654 CACACCCGAC
* *
13381664 TCATGTACATCCCCCCACATCGTGCACATAGCCGGCGCCA
1 TCATGTACATCCCCCCACATCGTACACATAGCCAGCGCCA
* * *
13381704 TCATGTGCATCCCCCCACATCGTACACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCGTACACATAGCCAGCGCCA
*
13381742 TCGTGTACATCCCCCCACATCGT
1 TCATGTACATCCCCCCACATCGT
13381765 TTACACGGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 27 0.50
39 1 0.02
40 26 0.48
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.21
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTACACATAGCCAGCGCCA
Found at i:13388164 original size:19 final size:19
Alignment explanation
Indices: 13388140--13388238 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
13388130 TGCCCGTGTG
13388140 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
13388159 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
13388178 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
13388197 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
13388218 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
13388237 CA
1 CA
13388239 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 3 0.05
19 33 0.59
20 9 0.16
21 11 0.20
ACGTcount: A:0.20, C:0.17, G:0.41, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:13388178 original size:38 final size:40
Alignment explanation
Indices: 13388136--13388238 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 40
13388126 ATAGTGCCCG
*
13388136 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* *
13388174 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
13388214 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
13388239 TGAGCCGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 28 0.48
39 4 0.07
40 26 0.45
ACGTcount: A:0.19, C:0.17, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:13389274 original size:15 final size:15
Alignment explanation
Indices: 13389254--13389284 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13389244 TTTTAGAGGG
13389254 ATCTATCGATAGATC
1 ATCTATCGATAGATC
13389269 ATCTATCGATAGATC
1 ATCTATCGATAGATC
13389284 A
1 A
13389285 CCCTGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
ATCTATCGATAGATC
Found at i:13394653 original size:2 final size:2
Alignment explanation
Indices: 13394646--13394687 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13394636 GGGAAATCAT
13394646 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13394688 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13394982 original size:21 final size:21
Alignment explanation
Indices: 13394956--13394998 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13394946 AGGAAGAAAA
*
13394956 AGAAGAAGCTATTGAAAAATG
1 AGAAGAAGCTACTGAAAAATG
* *
13394977 AGAAGAAGTTGCTGAAAAATG
1 AGAAGAAGCTACTGAAAAATG
13394998 A
1 A
13394999 TATTTATAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.26, T:0.19
Consensus pattern (21 bp):
AGAAGAAGCTACTGAAAAATG
Found at i:13400871 original size:19 final size:19
Alignment explanation
Indices: 13400847--13400910 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
13400837 TGCCCGTGTG
13400847 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
13400866 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
13400885 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
13400904 CACGATG
1 CACGATG
13400911 GCGCCGGCTA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 3 0.09
19 26 0.81
20 3 0.09
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:13400886 original size:38 final size:40
Alignment explanation
Indices: 13400843--13400945 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
13400833 ATAGTGCCCG
* *
13400843 TGTGCACGATGTGGGGGGATGTACACGATGGC-ACTGAT-
1 TGTGCACGATGTGGGGGGATGCACACGATGGCGACGGATA
* *
13400881 TGTGCACGATGTGGGGGGATGCACACGATGGCGCCGGCTA
1 TGTGCACGATGTGGGGGGATGCACACGATGGCGACGGATA
* *
13400921 TGTGCACGATGTGGGAGGATCCACA
1 TGTGCACGATGTGGGGGGATGCACA
13400946 TGAGCTGGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 31 0.54
39 3 0.05
40 23 0.40
ACGTcount: A:0.20, C:0.19, G:0.40, T:0.20
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACGATGGCGACGGATA
Found at i:13405144 original size:20 final size:20
Alignment explanation
Indices: 13405119--13405158 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13405109 CTATAAATAT
13405119 CTCATTTCTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
*
13405139 CTCATTTTTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
13405159 TTGTTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.38, G:0.10, T:0.38
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:13422699 original size:23 final size:23
Alignment explanation
Indices: 13422673--13422722 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
13422663 TGATTTACTC
13422673 CTTAGATTACTTTACACTTTTGA
1 CTTAGATTACTTTACACTTTTGA
* *
13422696 CTTAGATTACTTTACATTTTTTA
1 CTTAGATTACTTTACACTTTTGA
13422719 CTTA
1 CTTA
13422723 TGCATTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (23 bp):
CTTAGATTACTTTACACTTTTGA
Found at i:13428491 original size:9 final size:8
Alignment explanation
Indices: 13428462--13428527 Score: 51
Period size: 8 Copynumber: 7.4 Consensus size: 8
13428452 ATTTGGATTT
13428462 AAATAATAA
1 AAATAA-AA
13428471 AAATTCAAAA
1 AAA-T-AAAA
13428481 AAATAAGAA
1 AAATAA-AA
13428490 AAATAAAA
1 AAATAAAA
*
13428498 AATCTAGAAAA
1 AA---ATAAAA
13428509 AAATAAAA
1 AAATAAAA
*
13428517 AAACAAAA
1 AAATAAAA
13428525 AAA
1 AAA
13428528 ATCTGGCAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
8 21 0.44
9 12 0.25
10 6 0.12
11 9 0.19
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:13428508 original size:25 final size:25
Alignment explanation
Indices: 13428466--13428526 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
13428456 GGATTTAAAT
* *
13428466 AATAAAAATTCAAAAAAATAAGAAA
1 AATAAAAAATCAAAAAAAAAAGAAA
13428491 AATAAAAAATCTAGAAAAAAATAA-AAA
1 AATAAAAAATC-A-AAAAAAA-AAGAAA
*
13428518 AACAAAAAA
1 AATAAAAAA
13428527 AATCTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.33
26 1 0.03
27 17 0.57
28 2 0.07
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (25 bp):
AATAAAAAATCAAAAAAAAAAGAAA
Found at i:13428527 original size:19 final size:19
Alignment explanation
Indices: 13428488--13428528 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13428478 AAAAAATAAG
* * *
13428488 AAAAATAAAAAATCTAGAA
1 AAAAATAAAAAAACAAAAA
13428507 AAAAATAAAAAAACAAAAA
1 AAAAATAAAAAAACAAAAA
13428526 AAA
1 AAA
13428529 TCTGGCAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (19 bp):
AAAAATAAAAAAACAAAAA
Found at i:13431641 original size:86 final size:86
Alignment explanation
Indices: 13431496--13431671 Score: 325
Period size: 86 Copynumber: 2.0 Consensus size: 86
13431486 GTTGGTTTAG
* *
13431496 TCTTGCTAGAAACATAGTGGCATCTCAATGGAAGAGCAGGGTAGGCTTAAATTTTTCAACATCAA
1 TCTTGCTAGAAACATAGTGGCATCTAAATGGAAGAGCAGAGTAGGCTTAAATTTTTCAACATCAA
13431561 TAGAATTATTTCTACAACAAA
66 TAGAATTATTTCTACAACAAA
*
13431582 TCTTGCTAGAAACATAGTGGCATCTAAATTGAAGAGCAGAGTAGGCTTAAATTTTTCAACATCAA
1 TCTTGCTAGAAACATAGTGGCATCTAAATGGAAGAGCAGAGTAGGCTTAAATTTTTCAACATCAA
13431647 TAGAATTATTTCTACAACAAA
66 TAGAATTATTTCTACAACAAA
13431668 TCTT
1 TCTT
13431672 CCCTGAAAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (86 bp):
TCTTGCTAGAAACATAGTGGCATCTAAATGGAAGAGCAGAGTAGGCTTAAATTTTTCAACATCAA
TAGAATTATTTCTACAACAAA
Found at i:13436039 original size:35 final size:34
Alignment explanation
Indices: 13435976--13436101 Score: 135
Period size: 35 Copynumber: 3.5 Consensus size: 34
13435966 TACGCAAGTA
*
13435976 ATTATTACAAAATAATTAGTTTTAATAGTTCTAGGC
1 ATTATTACAAAA-AA-AAGTTTTAATAGTTCTAGGC
*
13436012 ATTATTACAAAAACAAAGTTTTAATAGTTCTAAGC
1 ATTATTACAAAAA-AAAGTTTTAATAGTTCTAGGC
*
13436047 ATTATTACACAAAAAGAAAAATTTATAATAGTTCTAGGC
1 ATTATT--AC-AAAA-AAAAGTTT-TAATAGTTCTAGGC
* *
13436086 GTTCTTACAAAAAAAA
1 ATTATTACAAAAAAAA
13436102 TACAAATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
35 29 0.37
36 17 0.22
37 4 0.05
38 10 0.13
39 18 0.23
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (34 bp):
ATTATTACAAAAAAAAGTTTTAATAGTTCTAGGC
Found at i:13436082 original size:39 final size:37
Alignment explanation
Indices: 13435995--13436111 Score: 130
Period size: 39 Copynumber: 3.1 Consensus size: 37
13435985 AAATAATTAG
* *
13435995 TTTTAATAGTTCTAGGCATTATT--ACAAAAACAAAG
1 TTTTAATAGTTCTAGGCATTATTACACAAAAAAAAAA
*
13436030 TTTTAATAGTTCTAAGCATTATTACACAAAAAGAAAAA
1 TTTTAATAGTTCTAGGCATTATTACACAAAAA-AAAAA
* * *
13436068 TTTATAATAGTTCTAGGCGTTCTTACAAAAAAAATACAAA
1 TTT-TAATAGTTCTAGGCATTATTACACAAAAAA-A-AAA
13436108 TTTT
1 TTTT
13436112 TAGTAACTTC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
35 22 0.32
37 7 0.10
38 7 0.10
39 27 0.39
40 6 0.09
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (37 bp):
TTTTAATAGTTCTAGGCATTATTACACAAAAAAAAAA
Found at i:13441324 original size:47 final size:47
Alignment explanation
Indices: 13441255--13441507 Score: 330
Period size: 47 Copynumber: 5.4 Consensus size: 47
13441245 CACAGCTCAA
* *
13441255 AGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAG
1 AGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAG
* *
13441302 AGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCGTTCAA-
1 AGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTT-AAG
* *
13441349 AGTTGGTGAGACACCATGGAGGGAATCTGTGACACGCTAGAGTTAAG
1 AGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAG
* * * * * *
13441396 AGTTGGTGACACGACATGGAGAGAATTTGTGACACACTAGCGTTCAG
1 AGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAG
* * * *
13441443 AGTTGGTGAGACGCCATGGAGGGAAAT-TATGACACGCCAGAGTTCAG
1 AGTTGGTGACACGCCATGGAGGG-AATCTGTGACACGCTAGAGTTAAG
13441490 AGTTGGTGACACGCCATG
1 AGTTGGTGACACGCCATG
13441508 ATCATGGTTT
Statistics
Matches: 179, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
46 2 0.01
47 172 0.96
48 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (47 bp):
AGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAG
Found at i:13441355 original size:94 final size:94
Alignment explanation
Indices: 13441251--13441507 Score: 399
Period size: 94 Copynumber: 2.7 Consensus size: 94
13441241 ACGGCACAGC
*
13441251 TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGC
1 TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
* *
13441316 CATGGAGGGAATCTGTGACACGCCAGCGT
66 CATGGAGAGAATCTGTGACACACCAGCGT
* *
13441345 TCAAAGTTGGTGAGACACCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGA
1 TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
* *
13441410 CATGGAGAGAATTTGTGACACACTAGCGT
66 CATGGAGAGAATCTGTGACACACCAGCGT
* * * *
13441439 TCAGAGTTGGTGAGACGCCATGGAGGGAAAT-TATGACACGCCAGAGTTCAGAGTTGGTGACACG
1 TCAAAGTTGGTGAGACGCCATGGAGGG-AATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACG
13441503 CCATG
65 CCATG
13441508 ATCATGGTTT
Statistics
Matches: 149, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 146 0.98
95 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (94 bp):
TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
CATGGAGAGAATCTGTGACACACCAGCGT
Found at i:13441557 original size:51 final size:53
Alignment explanation
Indices: 13441498--13441634 Score: 224
Period size: 51 Copynumber: 2.6 Consensus size: 53
13441488 AGAGTTGGTG
*
13441498 ACACGCCATGATCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAAAAACT-
1 ACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAACTA
*
13441550 A-ACGCCATGATCATGGTTTAGAGTGTGTGACACGATATTGCTTGAAAAACTA
1 ACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAACTA
* *
13441602 ACACGCCATGGTCATGGTTTAGAATGTGTGACA
1 ACACGCCATGATCATGGTTTAGAGTGTGTGACA
13441635 TGCCAATGCT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
51 48 0.61
52 2 0.03
53 29 0.37
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (53 bp):
ACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAACTA
Found at i:13441666 original size:53 final size:53
Alignment explanation
Indices: 13441496--13441664 Score: 225
Period size: 53 Copynumber: 3.2 Consensus size: 53
13441486 TCAGAGTTGG
*
13441496 TGACACGCCATGATCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAAAAAC
1 TGACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAAC
*
13441549 T-A-ACGCCATGATCATGGTTTAGAGTGTGTGACACGATATTGCTTGAAAAAC
1 TGACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAAC
* * * * * * **
13441600 TAACACGCCATGGTCATGGTTTAGAATGTGTGACATGCCAATGCTTGAGCAAC
1 TGACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAAC
*
13441653 TGACACGTCATG
1 TGACACGCCATG
13441665 GTTTGAAATA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
51 48 0.47
52 2 0.02
53 52 0.51
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (53 bp):
TGACACGCCATGATCATGGTTTAGAGTGTGTGACACGACATTGCTTGAAAAAC
Found at i:13442210 original size:31 final size:31
Alignment explanation
Indices: 13442172--13442354 Score: 258
Period size: 31 Copynumber: 5.9 Consensus size: 31
13442162 ATGATTTGAT
* * *
13442172 TTGATATGCATGACGTGTGAGAACATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
*
13442203 TTGATATGCATGGCGTGTAACAACATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
13442234 TTGATATGCATGGCGTGTCACAACATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* *
13442265 TTGTTATGCATGGCGTGTCACAATATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * *
13442296 TTGTTATGCATGCCATGTCACAACATTTTGC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* *
13442327 TTGCTATGCATAGCGTGTCACAACATTT
1 TTGATATGCATGGCGTGTCACAACATTT
13442355 ATTCCTTATT
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 138 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (31 bp):
TTGATATGCATGGCGTGTCACAACATTTTAC
Found at i:13444109 original size:156 final size:156
Alignment explanation
Indices: 13443934--13444258 Score: 422
Period size: 156 Copynumber: 2.1 Consensus size: 156
13443924 CAGTAATTTT
* * * * * *
13443934 TGTAATTACAGTTTACGGAAGCGATGACAGGTCCTCAAGCACTAATCGGTCC-AGCTCAACCGCA
1 TGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACCAAGCGATCCGA-CTCAACCACA
13443998 AACAGCTAACAAGCCGGT-GG-TAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCAT
65 AACAGCTAACAAGCC-GTCGGTTAA-GATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCAT
13444061 ACATGATTATTGAATAACACAATTATATA
128 ACATGATTATTGAATAACACAATTATATA
* * * * * * *
13444090 TGTAATTGCAGTTTGCGGAAGCGACGACTGGTCTTCAAGCACCGAGCGATTCGACTCCACCACAG
1 TGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACCAAGCGATCCGACTCAACCACAA
* ** *
13444155 ACTGCTAATGAGCCGTCGGTTAAGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATATA
66 ACAGCTAACAAGCCGTCGGTTAAGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
* *
13444220 TGATTATTGAATAACATAGTTATATA
131 TGATTATTGAATAACACAATTATATA
*
13444246 TGTTATTGCAGTT
1 TGTAATTGCAGTT
13444259 GACCCAGTCG
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
155 2 0.01
156 140 0.96
157 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (156 bp):
TGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACCAAGCGATCCGACTCAACCACAA
ACAGCTAACAAGCCGTCGGTTAAGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
TGATTATTGAATAACACAATTATATA
Found at i:13444663 original size:31 final size:31
Alignment explanation
Indices: 13444618--13444971 Score: 339
Period size: 31 Copynumber: 11.4 Consensus size: 31
13444608 TTAGTGTGGG
* *
13444618 ACAACATTTGACTTGATATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
13444649 AGAACATTTAACTTGTTATTCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
** * * * *
13444680 AGGACGTTTGATTTGATATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* ** * * *
13444711 AAAACATTTTGGTTGTTATCCTTGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * *
13444742 ACAACAATTTGCTTGTTATGGATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * *
13444773 ACAACGTTTAACTTGTTATGTATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* ** * *
13444804 ACAACAATTTGGTTGTTATGGATGACGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* *
13444835 ACATCATTTTGCTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
13444866 ACAGCATTTTACTTGATATGCATAGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
*
13444897 ACAACATTTTACTTGATATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* ** **
13444928 ACAATATTTTACTTAATATGCGCGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
13444959 ACAACATTTTACT
1 ACAACATTTTACT
13444972 GTTTATGGTT
Statistics
Matches: 268, Mismatches: 55, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 268 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (31 bp):
ACAACATTTTACTTGTTATGCATGGCGTGTC
Found at i:13446523 original size:14 final size:14
Alignment explanation
Indices: 13446504--13446568 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
13446494 CCTTGTGTGC
*
13446504 ACAATTTTTTTTAT
1 ACAATTTATTTTAT
*
13446518 ACAATTAATTTTAT
1 ACAATTTATTTTAT
13446532 ACACATTT-TTTGTAT
1 ACA-ATTTATTT-TAT
13446547 ACACAATTTATTTTAT
1 --ACAATTTATTTTAT
*
13446563 AGAATT
1 ACAATT
13446569 CATTGTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 23 0.55
15 6 0.14
16 7 0.17
17 6 0.14
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.52
Consensus pattern (14 bp):
ACAATTTATTTTAT
Found at i:13446590 original size:30 final size:31
Alignment explanation
Indices: 13446518--13446590 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
13446508 TTTTTTTTAT
** *
13446518 ACAATTAATTTTATACACATTTTTTGTATAC
1 ACAATTAATTTTATACACATTCATTGTAAAC
* *
13446549 ACAATTTATTTTATAGA-ATTCATTGTAAAC
1 ACAATTAATTTTATACACATTCATTGTAAAC
*
13446579 AGAATTAATTTT
1 ACAATTAATTTT
13446591 TTTTGTATAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
30 20 0.57
31 15 0.43
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (31 bp):
ACAATTAATTTTATACACATTCATTGTAAAC
Found at i:13446598 original size:52 final size:50
Alignment explanation
Indices: 13446536--13446668 Score: 140
Period size: 52 Copynumber: 2.6 Consensus size: 50
13446526 TTTTATACAC
* *
13446536 ATTTTTTGTATACACAATTTATTTTATAGAATTCATTGTAAACAGAATTAA
1 ATTTTTTGTATACACAATTTATTTTATACAATT-ATTGTAAACACAATTAA
* * * * * *
13446587 TTTTTTTTGTATACATAATATACTTTATACAATTATTTTATACACAATTAA
1 -ATTTTTTGTATACACAATTTATTTTATACAATTATTGTAAACACAATTAA
* *
13446638 ATTTTTTGACTATACACAATTAATTTGATAC
1 ATTTTTTG--TATACACAATTTATTTTATAC
13446669 TATCGAATTT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
50 7 0.11
51 14 0.22
52 44 0.68
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (50 bp):
ATTTTTTGTATACACAATTTATTTTATACAATTATTGTAAACACAATTAA
Found at i:13447326 original size:32 final size:32
Alignment explanation
Indices: 13447281--13447524 Score: 169
Period size: 31 Copynumber: 7.8 Consensus size: 32
13447271 TGTCACAACG
* *
13447281 TTTAACTTCTTATGCATGGCGGGTCAGAACAAT
1 TTTAA-TTGTTATGCATGGCGTGTCAGAACAAT
* * *
13447314 TTTAATTGTTATGCATGGCGTGTTAAAAAAAT
1 TTTAATTGTTATGCATGGCGTGTCAGAACAAT
*
13447346 TTTAATTGTTATGCATGGCATGTCAGAACAA-
1 TTTAATTGTTATGCATGGCGTGTCAGAACAAT
* ** * * * * *
13447377 TGTGCTTGTTATGGAAGGTGTGTCACAAC--G
1 TTTAATTGTTATGCATGGCGTGTCAGAACAAT
* *
13447407 TTTAACTTCTTATGCATGGCGTGTCATAAC-AT
1 TTTAA-TTGTTATGCATGGCGTGTCAGAACAAT
** * *
13447439 TTTGCTTGTTATGCATGGCGTGTCACAA-TAT
1 TTTAATTGTTATGCATGGCGTGTCAGAACAAT
* * * * * *
13447470 TTTACTTGATATGCACGGTGTGTGACAAC-A-
1 TTTAATTGTTATGCATGGCGTGTCAGAACAAT
*
13447500 TTTAACTTGTTTTGCATGGCGTGTC
1 TTTAA-TTGTTATGCATGGCGTGTC
13447525 TCACATTTAT
Statistics
Matches: 164, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
30 6 0.04
31 101 0.62
32 52 0.32
33 5 0.03
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (32 bp):
TTTAATTGTTATGCATGGCGTGTCAGAACAAT
Found at i:13447448 original size:93 final size:93
Alignment explanation
Indices: 13447314--13447532 Score: 244
Period size: 93 Copynumber: 2.4 Consensus size: 93
13447304 TCAGAACAAT
* * * *
13447314 TTTAA-TTGTTATGCATGGCGTGTTAAAAAAATTTTAATTGTTATGCATGGCATGTCAGAACAAT
1 TTTAACTTGTTATGCATGGCGTG-TCATAACATTTTAATTGTTATGCATGGCATGTCACAACAAT
* * * *
13447378 GTGCTTGTTATGGAAGGTGTGTCACAACG
65 GTACTTGATATGCAAGGTGTGTCACAACA
* ** * * * *
13447407 TTTAACTTCTTATGCATGGCGTGTCATAACATTTTGCTTGTTATGCATGGCGTGTCACAATATTT
1 TTTAACTTGTTATGCATGGCGTGTCATAACATTTTAATTGTTATGCATGGCATGTCACAACAATG
* *
13447472 TACTTGATATGCACGGTGTGTGACAACA
66 TACTTGATATGCAAGGTGTGTCACAACA
* *
13447500 TTTAACTTGTTTTGCATGGCGTGTC-TCACATTT
1 TTTAACTTGTTATGCATGGCGTGTCATAACATTT
13447533 ATCCTTATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
92 7 0.07
93 82 0.78
94 16 0.15
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (93 bp):
TTTAACTTGTTATGCATGGCGTGTCATAACATTTTAATTGTTATGCATGGCATGTCACAACAATG
TACTTGATATGCAAGGTGTGTCACAACA
Found at i:13447483 original size:62 final size:62
Alignment explanation
Indices: 13447268--13447533 Score: 239
Period size: 62 Copynumber: 4.3 Consensus size: 62
13447258 GGTAACCGTT
* * *
13447268 GCGTGTCACAACGTTTAACTTCTTATGCATGGCGGGTCAGAACAATTTTAATTGTTATGCATG
1 GCGTGTCACAACATTTAACTTCTTATGCATGGCGTGTCAGAAC-ATTTTACTTGTTATGCATG
* * * * * * * * * *
13447331 GCGTGTTAAAAAAATTTTAA-TTGTTATGCATGGCATGTCAGAACAATGTGCTTGTTATGGAAG
1 GCGTG-TCACAACA-TTTAACTTCTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATG
* * * *
13447394 GTGTGTCACAACGTTTAACTTCTTATGCATGGCGTGTCATAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTAACTTCTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATG
* * ** * * * * * *
13447456 GCGTGTCACAATATTTTACTTGATATGCACGGTGTGTGACAACATTTAACTTGTTTTGCATG
1 GCGTGTCACAACATTTAACTTCTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATG
*
13447518 GCGTGTCTC-ACATTTA
1 GCGTGTCACAACATTTA
13447534 TCCTTATTTA
Statistics
Matches: 159, Mismatches: 41, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
61 10 0.06
62 97 0.61
63 22 0.14
64 25 0.16
65 5 0.03
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (62 bp):
GCGTGTCACAACATTTAACTTCTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATG
Found at i:13451642 original size:43 final size:43
Alignment explanation
Indices: 13451581--13451689 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
13451571 TTGACTAGGC
*
13451581 TTATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGACCCGG
1 TTATGTGCGAGTAGGGAGTGCGCATAACCCAAGGATGACCCGG
* * * *
13451624 TTATGTGGGAGTAGGGAGTGTGCATAACCCGATGATGACCCGG
1 TTATGTGCGAGTAGGGAGTGCGCATAACCCAAGGATGACCCGG
**
13451667 CCATGTGCGAGTAGGGAGTGCGC
1 TTATGTGCGAGTAGGGAGTGCGC
13451690 GTGAGCTGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.23, C:0.18, G:0.39, T:0.20
Consensus pattern (43 bp):
TTATGTGCGAGTAGGGAGTGCGCATAACCCAAGGATGACCCGG
Found at i:13451703 original size:43 final size:43
Alignment explanation
Indices: 13451583--13451704 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
13451573 GACTAGGCTT
* **
13451583 ATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAG-CAGGTGATGACCCGGCC
* * * * *
13451626 ATGTGGGAGTAGGGAGTGTGCATAACCCGATGATGACCCGGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGACCCGGCC
* * *
13451669 ATGTGCGAGTAGGGAGTGCGCGTGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGA
13451705 TGACGATGTG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGACCCGGCC
Found at i:13451735 original size:23 final size:23
Alignment explanation
Indices: 13451701--13451760 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
13451691 TGAGCTGGTG
* * * *
13451701 ATGATGACGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
13451724 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
13451747 ATGATAATGATGGG
1 ATGATGATGATGGG
13451761 TATACGTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.38, T:0.32
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:13454320 original size:31 final size:31
Alignment explanation
Indices: 13454276--13454357 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
13454266 TTGTCAGTCG
* *
13454276 TGTTGTTATACGCCATGCATAT-AACGTAAAA
1 TGTTGTAACACGCCATGCATATCAA-GTAAAA
*
13454307 TGTTGTAACACGCCATGCATATCAAGTCAAA
1 TGTTGTAACACGCCATGCATATCAAGTAAAA
* *
13454338 TGTCGTGACACGCCATGCAT
1 TGTTGTAACACGCCATGCAT
13454358 CAGTGTCGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCATATCAAGTAAAA
Found at i:13454368 original size:23 final size:23
Alignment explanation
Indices: 13454338--13454398 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
13454328 TCAAGTCAAA
13454338 TGTCGTGACACGCCATGCATCAG
1 TGTCGTGACACGCCATGCATCAG
*
13454361 TGTCGTGACACACCATGCATCAG
1 TGTCGTGACACGCCATGCATCAG
*
13454384 TATCGTGACACGCCA
1 TGTCGTGACACGCCA
13454399 ATCACTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (23 bp):
TGTCGTGACACGCCATGCATCAG
Found at i:13454483 original size:35 final size:35
Alignment explanation
Indices: 13454436--13454511 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
13454426 CAACAGCCGT
*
13454436 GACACGCTAAAAA-CTCAAAAAATCAGTTAACCCAC
1 GACACGCCAAAAATC-CAAAAAATCAGTTAACCCAC
* *
13454471 GACACGCCAAAAATCCATAAATTCAGTTAACCCAC
1 GACACGCCAAAAATCCAAAAAATCAGTTAACCCAC
13454506 GACACG
1 GACACG
13454512 TCAGGAACAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.14
Consensus pattern (35 bp):
GACACGCCAAAAATCCAAAAAATCAGTTAACCCAC
Found at i:13455596 original size:18 final size:18
Alignment explanation
Indices: 13455573--13455608 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13455563 TCTTAAAGTT
13455573 GAAGTTCAATTTTCTTCA
1 GAAGTTCAATTTTCTTCA
13455591 GAAGTTCAATTTTCTTCA
1 GAAGTTCAATTTTCTTCA
13455609 ATTTTCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
GAAGTTCAATTTTCTTCA
Found at i:13457452 original size:33 final size:33
Alignment explanation
Indices: 13457387--13457485 Score: 103
Period size: 33 Copynumber: 3.0 Consensus size: 33
13457377 ATGCCACATA
* *
13457387 GCACTGATATGATGACGTGACAAATGC-CATGTG
1 GCACTAATATGATGACATGAC-AATGCTCATGTG
* *
13457420 GCACTAATATGATGACATGGCAATGCTGATGTG
1 GCACTAATATGATGACATGACAATGCTCATGTG
* * * *
13457453 GTACTAACATGCTGACATGTCAATG-TCATGTG
1 GCACTAATATGATGACATGACAATGCTCATGTG
13457485 G
1 G
13457486 TAAATCAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
32 12 0.21
33 44 0.79
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
GCACTAATATGATGACATGACAATGCTCATGTG
Found at i:13458262 original size:28 final size:29
Alignment explanation
Indices: 13458221--13458280 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13458211 GTCTATGGGC
*
13458221 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
13458249 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
13458279 AA
1 AA
13458281 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:13467633 original size:20 final size:20
Alignment explanation
Indices: 13467610--13467648 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13467600 ATGACAACTA
13467610 ATGTGATCGCATGGCAGCTG
1 ATGTGATCGCATGGCAGCTG
*
13467630 ATGTGATCGCGTGGCAGCT
1 ATGTGATCGCATGGCAGCT
13467649 AACATGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.26
Consensus pattern (20 bp):
ATGTGATCGCATGGCAGCTG
Found at i:13474876 original size:34 final size:35
Alignment explanation
Indices: 13474809--13474881 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
13474799 TAATAAAGTG
*
13474809 AAAATAAAATAAAATAATTATTATTTTATTT-TATAT
1 AAAATAAAATAAAATAATTATTA-TTAATTTAT-TAT
*
13474845 AAAATAAGATAAGAATAATTATTA-TAATTTATTAT
1 AAAATAAAATAA-AATAATTATTATTAATTTATTAT
13474880 AA
1 AA
13474882 TATTTGATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 10 0.30
36 12 0.36
37 11 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (35 bp):
AAAATAAAATAAAATAATTATTATTAATTTATTAT
Found at i:13475049 original size:26 final size:26
Alignment explanation
Indices: 13475027--13475081 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 26
13475017 ATAATTTCCA
13475027 TATTAATATTTTATTTATAATTTAAT
1 TATTAATATTTTATTTATAATTTAAT
*
13475053 TATTAATATTTTA-TT-TAATTTAAA
1 TATTAATATTTTATTTATAATTTAAT
13475077 TATTA
1 TATTA
13475082 TTATGATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 13 0.46
25 2 0.07
26 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTAATATTTTATTTATAATTTAAT
Found at i:13475068 original size:19 final size:19
Alignment explanation
Indices: 13475041--13475085 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13475031 AATATTTTAT
* *
13475041 TTATAATTTAATTATTAATA
1 TTATTATTTAATT-TAAATA
13475061 TT-TTATTTAATTTAAATA
1 TTATTATTTAATTTAAATA
13475079 TTATTAT
1 TTATTAT
13475086 GATTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 13 0.59
20 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTATTTAATTTAAATA
Found at i:13475140 original size:27 final size:27
Alignment explanation
Indices: 13475108--13475188 Score: 153
Period size: 27 Copynumber: 3.0 Consensus size: 27
13475098 TATTTTCTTT
13475108 TTTAAAATATTAATAATTGATCATTTA
1 TTTAAAATATTAATAATTGATCATTTA
13475135 TTTAAAATATTAATAATTGATCATTTA
1 TTTAAAATATTAATAATTGATCATTTA
*
13475162 TTTAAAATATTAATAATTGATAATTTA
1 TTTAAAATATTAATAATTGATCATTTA
13475189 AATATTAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (27 bp):
TTTAAAATATTAATAATTGATCATTTA
Found at i:13475741 original size:12 final size:12
Alignment explanation
Indices: 13475680--13475751 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
13475670 TAAATAGGAA
13475680 TAATTTATAATT
1 TAATTTATAATT
*
13475692 TATTTTATTAA--
1 TAATTTA-TAATT
*
13475703 TAATTGATAATT
1 TAATTTATAATT
13475715 TAAATATTA-ATATT
1 T-AAT-TTATA-ATT
*
13475729 TTATTTATAATT
1 TAATTTATAATT
*
13475741 TAATTTTTAAT
1 TAATTTATAAT
13475752 ATTTTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
10 3 0.07
11 5 0.11
12 22 0.48
13 10 0.22
14 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (12 bp):
TAATTTATAATT
Found at i:13475779 original size:19 final size:19
Alignment explanation
Indices: 13475710--13475779 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
13475700 TAATAATTGA
*
13475710 TAATTTAAATATTAATATTT
1 TAATTAAAATATTAATA-TT
* * *
13475730 TATTTATAAT-TTAATTTT
1 TAATTAAAATATTAATATT
13475748 TAATATTTTAAAATATTAATATT
1 T-A-A--TTAAAATATTAATATT
13475771 TAATTAAAA
1 TAATTAAAA
13475780 GTTGAAATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
18 3 0.08
19 12 0.32
20 7 0.18
21 1 0.03
22 7 0.18
23 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATTAAAATATTAATATT
Found at i:13477954 original size:32 final size:32
Alignment explanation
Indices: 13477909--13477981 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
13477899 ACCCCCATCA
* *
13477909 ACCTTGGGTTGGCAATGTAAAATCCCCGTTGC
1 ACCTTGGGCTGGCAATGTAAAATCCCCATTGC
* * * *
13477941 TCCTTGGGCTGGCAATTTACAATCCCTATTGC
1 ACCTTGGGCTGGCAATGTAAAATCCCCATTGC
13477973 ACCTTGGGC
1 ACCTTGGGC
13477982 ATTTATGATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.30
Consensus pattern (32 bp):
ACCTTGGGCTGGCAATGTAAAATCCCCATTGC
Found at i:13482134 original size:2 final size:2
Alignment explanation
Indices: 13482127--13482158 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13482117 TTGAGATTAA
*
13482127 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13482159 GCCAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13483084 original size:20 final size:21
Alignment explanation
Indices: 13483039--13483085 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13483029 AGATGTCTAA
*
13483039 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
13483060 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
13483080 AATAAT
1 AATAAT
13483086 ATTCAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:13485274 original size:28 final size:28
Alignment explanation
Indices: 13485240--13485312 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
13485230 TCGGTGGTGT
* *
13485240 AAAATTACAATTTTGCCACTAGGGTGGC
1 AAAATTACCATTTTACCACTAGGGTGGC
13485268 AAAATTACCATTTTACCACTAGGGTGGC
1 AAAATTACCATTTTACCACTAGGGTGGC
13485296 AAAATTACCATTTTACC
1 AAAATTACCATTTTACC
13485313 CCTATGCTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (28 bp):
AAAATTACCATTTTACCACTAGGGTGGC
Found at i:13486427 original size:37 final size:37
Alignment explanation
Indices: 13486384--13486527 Score: 139
Period size: 37 Copynumber: 3.8 Consensus size: 37
13486374 TTCAACACAA
*
13486384 GTTCAAGCACAATCTTTACAAGTAATTGCCTTTCAAG
1 GTTCAAGCACAATCTTTACAAGCAATTGCCTTTCAAG
*
13486421 GTTCAAGCATAATCTTTACAAGCAATTGCCTTTCAAG
1 GTTCAAGCACAATCTTTACAAGCAATTGCCTTTCAAG
* * * ** *
13486458 GATT-AAGCACAACCTCTACAAAAGTCACTACCCTTTTAAG
1 G-TTCAAGCACAATCTTTAC--AAG-CAATTGCCTTTCAAG
* * *
13486498 ATT-AAGCACAACCTTTACAACCAATTGCCT
1 GTTCAAGCACAATCTTTACAAGCAATTGCCT
13486528 CTTAAAGATC
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
36 6 0.07
37 50 0.57
38 2 0.02
39 19 0.22
40 11 0.12
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (37 bp):
GTTCAAGCACAATCTTTACAAGCAATTGCCTTTCAAG
Found at i:13487140 original size:37 final size:36
Alignment explanation
Indices: 13487084--13487180 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 36
13487074 AGTCATTGTT
* * *
13487084 AGGATCAAGCATAACCTTTACAAGTCACTACCTTTTA
1 AGGATCAAGCACAA-CTTTACAAGCCACTACCTTTAA
13487121 AGGATCAAGCACAATCTTTACAAGCCACTACCTTTAA
1 AGGATCAAGCACAA-CTTTACAAGCCACTACCTTTAA
13487158 AGGATCAAGCACAACTTTTACAA
1 AGGATCAAGCACAAC-TTTACAA
13487181 CCAAATGTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 54 0.98
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (36 bp):
AGGATCAAGCACAACTTTACAAGCCACTACCTTTAA
Found at i:13487198 original size:37 final size:37
Alignment explanation
Indices: 13487084--13487199 Score: 128
Period size: 37 Copynumber: 3.1 Consensus size: 37
13487074 AGTCATTGTT
* * * *
13487084 AGGATCAAGCATAACCTTTACAAGTCACTACCTTTTA
1 AGGATCAAGCACAATCTTTACAAGCCAATACCTTTTA
* *
13487121 AGGATCAAGCACAATCTTTACAAGCCACTACCTTTAA
1 AGGATCAAGCACAATCTTTACAAGCCAATACCTTTTA
**
13487158 AGGATCAAGCACAA-CTTTTACAA-CCAAATGTCTTTTA
1 AGGATCAAGCACAATC-TTTACAAGCC-AATACCTTTTA
13487195 AGGAT
1 AGGAT
13487200 AAAAAATAGT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 3 0.04
37 66 0.96
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (37 bp):
AGGATCAAGCACAATCTTTACAAGCCAATACCTTTTA
Found at i:13487325 original size:31 final size:30
Alignment explanation
Indices: 13487256--13487329 Score: 98
Period size: 30 Copynumber: 2.4 Consensus size: 30
13487246 CCTTTTTCAG
*
13487256 AGGAGGTATAACCTTAGCATTACCTTTTGA
1 AGGAGGTATAACCTTAGCACTACCTTTTGA
13487286 AGGAGGTATAACCTTTA-CACTACCTTTT-A
1 AGGAGGTATAACC-TTAGCACTACCTTTTGA
13487315 CATGGAGGTATAACC
1 -A-GGAGGTATAACC
13487330 AACAATAGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 1 0.03
30 24 0.60
31 15 0.38
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (30 bp):
AGGAGGTATAACCTTAGCACTACCTTTTGA
Found at i:13488753 original size:11 final size:11
Alignment explanation
Indices: 13488717--13488759 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
13488707 CCTTTTTGTT
13488717 ATATAAAAAAGGA
1 ATATAAAAAA--A
*
13488730 ATAGAAAACAAA
1 ATATAAAA-AAA
13488742 ATATAAAAAAA
1 ATATAAAAAAA
13488753 ATATAAA
1 ATATAAA
13488760 TCTCACAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
12 8 0.30
13 7 0.26
14 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (11 bp):
ATATAAAAAAA
Found at i:13491600 original size:17 final size:17
Alignment explanation
Indices: 13491578--13491610 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13491568 AAAATCATAG
13491578 AAAAGAACACA-AAAAAA
1 AAAAGAA-ACAGAAAAAA
13491595 AAAAGAAACAGAAAAA
1 AAAAGAAACAGAAAAA
13491611 CCTAGAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAGAAACAGAAAAAA
Found at i:13496437 original size:17 final size:17
Alignment explanation
Indices: 13496389--13496437 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
13496379 AGTACTACAC
*
13496389 TAAAAAAATAAAAACAA
1 TAAAAAAATAAAAAGAA
*
13496406 GAACAAAAA-AAAAAGAA
1 TAA-AAAAATAAAAAGAA
*
13496423 TAAAAAAATATAAAG
1 TAAAAAAATAAAAAG
13496438 CAAAAAAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.19
17 16 0.62
18 5 0.19
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (17 bp):
TAAAAAAATAAAAAGAA
Found at i:13496444 original size:17 final size:17
Alignment explanation
Indices: 13496390--13496444 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
13496380 GTACTACACT
*
13496390 AAAAAAATAAAAACAAG
1 AAAAAAATAAAAGCAAG
* *
13496407 AACAAAAAAAAAAG-AAT
1 AA-AAAAATAAAAGCAAG
13496424 AAAAAAATATAAAGCAA-
1 AAAAAAATA-AAAGCAAG
13496441 AAAA
1 AAAA
13496445 GAGAGGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 6 0.19
17 14 0.45
18 11 0.35
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAAAGCAAG
Found at i:13497482 original size:60 final size:60
Alignment explanation
Indices: 13497414--13497779 Score: 482
Period size: 60 Copynumber: 6.1 Consensus size: 60
13497404 TTGGCATTAA
* * * *
13497414 AATTTTTAAAATCGAACCTGTCGTGAGATAGGTCAAGCCTAGATTAAGTATAGGAATTTC
1 AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
* * *
13497474 AATTTTTAAAATCAAACCTGTTGTGAGATAAGTCGAGCCTAGATCAAGTCTAGAAATTTC
1 AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
* * * * *
13497534 AATTTTCAAAATTGAACCTGTTGTGAGATAGGTCGAGCTTAGATCCAGTCTAGGAATTTT
1 AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
* * * *
13497594 ATTTTTTAAAATTGAACCTGTTGTGAGATAGGTTGAGCTTAGATCAAGTCTAGGAATTTC
1 AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
* * * *
13497654 AATTTTTAAAATCAAACCTATTGTGAGATAGGTCAAGCCTAGATCAAGTCCAGGAATTTC
1 AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
* ** * * * *
13497714 -ATTTTTAAAATCGAACTTGTTGTGAGATAGGTCGAGTTTAGGTCCAGTCTAAGAGTTTC
1 AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
13497773 AATTTTT
1 AATTTTT
13497780 TAATTTGAAC
Statistics
Matches: 266, Mismatches: 39, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
59 48 0.18
60 218 0.82
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (60 bp):
AATTTTTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTC
Found at i:13497780 original size:180 final size:180
Alignment explanation
Indices: 13497416--13497782 Score: 538
Period size: 180 Copynumber: 2.0 Consensus size: 180
13497406 GGCATTAAAA
*
13497416 TTTTTAAAATCGAACCTGTCGTGAGATAGGTCAAGCCTAGATTAAGTATAGGAATTTCAATTTTT
1 TTTTTAAAATCGAACCTGTCGTGAGATAGGTCAAGCCTAGATCAAGTATAGGAATTTCAATTTTT
* * *
13497481 AAAATCAAACCTGTTGTGAGATAAGTCGAGCCTAGATCAAGTCTAGAAATTTCAATTTTCAAAAT
66 AAAATCAAACCTATTGTGAGATAAGTCAAGCCTAGATCAAGTCCAGAAATTTCAATTTTCAAAAT
* * *
13497546 TGAACCTGTTGTGAGATAGGTCGAGCTTAGATCCAGTCTAGGAATTTTAT
131 CGAACCTGTTGTGAGATAGGTCGAGCTTAGATCCAGTCTAAGAATTTAAT
* * ** * *
13497596 TTTTTAAAATTGAACCTGTTGTGAGATAGGTTGAGCTTAGATCAAGTCTAGGAATTTCAATTTTT
1 TTTTTAAAATCGAACCTGTCGTGAGATAGGTCAAGCCTAGATCAAGTATAGGAATTTCAATTTTT
* * *
13497661 AAAATCAAACCTATTGTGAGATAGGTCAAGCCTAGATCAAGTCCAGGAATTTC-ATTTTTAAAAT
66 AAAATCAAACCTATTGTGAGATAAGTCAAGCCTAGATCAAGTCCAGAAATTTCAATTTTCAAAAT
* * * *
13497725 CGAACTTGTTGTGAGATAGGTCGAGTTTAGGTCCAGTCTAAGAGTTTCAAT
131 CGAACCTGTTGTGAGATAGGTCGAGCTTAGATCCAGTCTAAGAATTT-AAT
13497776 TTTTTAA
1 TTTTTAA
13497783 TTTGAACTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
179 51 0.31
180 115 0.69
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (180 bp):
TTTTTAAAATCGAACCTGTCGTGAGATAGGTCAAGCCTAGATCAAGTATAGGAATTTCAATTTTT
AAAATCAAACCTATTGTGAGATAAGTCAAGCCTAGATCAAGTCCAGAAATTTCAATTTTCAAAAT
CGAACCTGTTGTGAGATAGGTCGAGCTTAGATCCAGTCTAAGAATTTAAT
Found at i:13497964 original size:15 final size:14
Alignment explanation
Indices: 13497944--13497991 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
13497934 CACAATTATT
13497944 TTTTATTTATTTTTA
1 TTTTATTTA-TTTTA
* *
13497959 TTTTATCTATGTTA
1 TTTTATTTATTTTA
*
13497973 TGTTATGTTATTTTA
1 TTTTAT-TTATTTTA
13497988 TTTT
1 TTTT
13497992 GTTGGGTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:13498502 original size:20 final size:20
Alignment explanation
Indices: 13498477--13498535 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
13498467 CCCACAAAAA
13498477 AAAAATCATAGAATAGAACC
1 AAAAATCATAGAATAGAACC
*
13498497 AAAAAT-A-A-CA-A-AA--
1 AAAAATCATAGAATAGAACC
13498510 AAAAATCATAGAATAGAACC
1 AAAAATCATAGAATAGAACC
13498530 AAAAAT
1 AAAAAT
13498536 AACAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 6 0.20
14 1 0.03
15 3 0.10
16 2 0.07
17 2 0.07
18 3 0.10
19 1 0.03
20 12 0.40
ACGTcount: A:0.68, C:0.12, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAAATCATAGAATAGAACC
Found at i:13498515 original size:33 final size:33
Alignment explanation
Indices: 13498473--13498548 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
13498463 TATACCCACA
13498473 AAAAAAAAATCATAGAATAGAACCAAAAATAAC
1 AAAAAAAAATCATAGAATAGAACCAAAAATAAC
13498506 AAAAAAAAATCATAGAATAGAACCAAAAATAAC
1 AAAAAAAAATCATAGAATAGAACCAAAAATAAC
13498539 AAAAAAAAAT
1 AAAAAAAAAT
13498549 AGAAATCGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.72, C:0.11, G:0.05, T:0.12
Consensus pattern (33 bp):
AAAAAAAAATCATAGAATAGAACCAAAAATAAC
Found at i:13501007 original size:5 final size:5
Alignment explanation
Indices: 13500997--13501021 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13500987 GTATGTGTAT
13500997 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
13501022 TTATAGGACC
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:13501445 original size:34 final size:34
Alignment explanation
Indices: 13501399--13501481 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
13501389 TTCAAGAAGG
13501399 GAAAGAGAGCCATTTAAGGGCTGGTTTTGGAGGCT
1 GAAA-AGAGCCATTTAAGGGCTGGTTTTGGAGGCT
****
13501434 GAAAAGAGCCATTTTTTTGCTGGTTTTGGAGGCT
1 GAAAAGAGCCATTTAAGGGCTGGTTTTGGAGGCT
* *
13501468 GGAAAGTGCCATTT
1 GAAAAGAGCCATTT
13501482 TTTTGCTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.24, C:0.12, G:0.33, T:0.31
Consensus pattern (34 bp):
GAAAAGAGCCATTTAAGGGCTGGTTTTGGAGGCT
Found at i:13501508 original size:34 final size:34
Alignment explanation
Indices: 13501418--13501510 Score: 141
Period size: 34 Copynumber: 2.7 Consensus size: 34
13501408 CCATTTAAGG
*
13501418 GCTGGTTTTGGAGGCTGAAAAGAGCCATTTTTTT
1 GCTGGTTTTGGAGGCTGAAAAGTGCCATTTTTTT
*
13501452 GCTGGTTTTGGAGGCTGGAAAGTGCCATTTTTTT
1 GCTGGTTTTGGAGGCTGAAAAGTGCCATTTTTTT
* **
13501486 GCTGATTTTGGAGGCCAAAAAGTGC
1 GCTGGTTTTGGAGGCTGAAAAGTGC
13501511 AAAATTTTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.20, C:0.13, G:0.31, T:0.35
Consensus pattern (34 bp):
GCTGGTTTTGGAGGCTGAAAAGTGCCATTTTTTT
Found at i:13505071 original size:25 final size:25
Alignment explanation
Indices: 13505034--13505082 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13505024 CCCAACAAGC
*
13505034 AAGGAAAATTGGACATGATCCAATA
1 AAGGAAAATTGGACATGACCCAATA
13505059 AAGGAAGAA-TGGACATGACCCAAT
1 AAGGAA-AATTGGACATGACCCAAT
13505083 TAAAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.16
Consensus pattern (25 bp):
AAGGAAAATTGGACATGACCCAATA
Found at i:13505095 original size:25 final size:24
Alignment explanation
Indices: 13505043--13505091 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
13505033 CAAGGAAAAT
*
13505043 TGGACATGATCCAATAAAGGAAGAA
1 TGGACATGACCCAATAAA-GAAGAA
13505068 TGGACATGACCCAATTAAA-AAGAA
1 TGGACATGACCCAA-TAAAGAAGAA
13505092 ATGGGAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 13 0.59
26 4 0.18
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.16
Consensus pattern (24 bp):
TGGACATGACCCAATAAAGAAGAA
Found at i:13507091 original size:13 final size:13
Alignment explanation
Indices: 13507073--13507097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13507063 TTGCAGAAAA
13507073 TTTATAAAATCAT
1 TTTATAAAATCAT
13507086 TTTATAAAATCA
1 TTTATAAAATCA
13507098 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13520016 original size:21 final size:21
Alignment explanation
Indices: 13519992--13520032 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13519982 TTACATGCAC
*
13519992 CTTGTCTAAATTAAGACAACT
1 CTTGCCTAAATTAAGACAACT
*
13520013 CTTGCCTTAATTAAGACAAC
1 CTTGCCTAAATTAAGACAAC
13520033 ACTCAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (21 bp):
CTTGCCTAAATTAAGACAACT
Found at i:13524127 original size:19 final size:19
Alignment explanation
Indices: 13524103--13524140 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13524093 ACTTCTAAAC
13524103 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13524122 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13524141 AGTCAAATGG
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:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13525197 original size:14 final size:15
Alignment explanation
Indices: 13525171--13525200 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13525161 TTCATTTTTA
13525171 TGTGATTATTTGTTT
1 TGTGATTATTTGTTT
13525186 TGTGATTA-TTGTTT
1 TGTGATTATTTGTTT
13525200 T
1 T
13525201 TTTAGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (15 bp):
TGTGATTATTTGTTT
Found at i:13527231 original size:53 final size:52
Alignment explanation
Indices: 13527090--13527431 Score: 245
Period size: 53 Copynumber: 6.2 Consensus size: 52
13527080 ATTTAAAAAA
* * *
13527090 TTGAAATTCCTAGAGTTGATCTAGGCTCAACCTATCTCACAGTAGGTTCGAT
1 TTGAAATTCCTAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGAT
* * *
13527142 TTGAAATTTCTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGACT
1 TTGAAATTCCTAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGA-T
* * * * * * *
13527195 TTGAAATTCCTAAACTTCATCTGGGCTCTACTTATCTCAGAATAGGTTTGAT
1 TTGAAATTCCTAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGAT
** * *
13527247 TAAAAAAAAATTTAAACTCTTAGACTTGATCTAGGCTCAACCTATCTCAAAACAAGTTCGACT
1 T----TGAAA-TT---C-C-TAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGA-T
* * * * * *
13527310 TTGAAATTCCTAAACTTGATTTGGGCTCTACCTATCTCAGAATAGGTTTGAT
1 TTGAAATTCCTAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGAT
** *
13527362 TAAAAAAAATTTAAACTCTTAGACTTGATCTAGGCTCAACCTATCTCAAAACAGGTTCGACT
1 T---TGAAA-TT---C-C-TAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGA-T
13527424 TT-AAATTC
1 TTGAAATTC
13527432 TTTAATGCCA
Statistics
Matches: 222, Mismatches: 46, Indels: 42
0.72 0.15 0.14
Matches are distributed among these distances:
52 49 0.22
53 76 0.34
54 2 0.01
55 4 0.02
56 5 0.02
57 4 0.02
58 5 0.02
59 4 0.02
60 2 0.01
61 35 0.16
62 34 0.15
63 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (52 bp):
TTGAAATTCCTAGACTTGATCTAGGCTCAACCTATCTCAAAATAGGTTCGAT
Found at i:13527291 original size:115 final size:114
Alignment explanation
Indices: 13527152--13527431 Score: 499
Period size: 115 Copynumber: 2.5 Consensus size: 114
13527142 TTGAAATTTC
*
13527152 TAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGACTTTGAAATTCCTAAACTTCATCT
1 TAGACTTGATCTAGGCTCAACCTATCTCAAAACAGGTTCGACTTTGAAATTCCTAAACTTCATCT
*
13527217 GGGCTCTACTTATCTCAGAATAGGTTTGATTAAAAAAAAATTTAAACTCT
66 GGGCTCTACCTATCTCAGAATAGGTTTGATT-AAAAAAAATTTAAACTCT
* * *
13527267 TAGACTTGATCTAGGCTCAACCTATCTCAAAACAAGTTCGACTTTGAAATTCCTAAACTTGATTT
1 TAGACTTGATCTAGGCTCAACCTATCTCAAAACAGGTTCGACTTTGAAATTCCTAAACTTCATCT
13527332 GGGCTCTACCTATCTCAGAATAGGTTTGATTAAAAAAAATTTAAACTCT
66 GGGCTCTACCTATCTCAGAATAGGTTTGATTAAAAAAAATTTAAACTCT
13527381 TAGACTTGATCTAGGCTCAACCTATCTCAAAACAGGTTCGACTTT-AAATTC
1 TAGACTTGATCTAGGCTCAACCTATCTCAAAACAGGTTCGACTTTGAAATTC
13527432 TTTAATGCCA
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
113 6 0.04
114 62 0.39
115 91 0.57
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (114 bp):
TAGACTTGATCTAGGCTCAACCTATCTCAAAACAGGTTCGACTTTGAAATTCCTAAACTTCATCT
GGGCTCTACCTATCTCAGAATAGGTTTGATTAAAAAAAATTTAAACTCT
Done.