Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_734
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: 48725
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:2532 original size:87 final size:87
Alignment explanation
Indices: 2441--3086 Score: 590
Period size: 87 Copynumber: 7.4 Consensus size: 87
2431 AGACCTGATG
* *
2441 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
2506 CAGGGAGATAGGATTATATCTT
66 CAGGGAGATAGGATTATATCTT
* * * *** ** ** *
2528 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAAC
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATT-TT-AATCCGCTCCACTGTAAC
* * * * *
2593 CTCAGGGAGATAAGACCT-GA--TG
64 TTCAGGGAGATAGGA-TTATATCTT
* * *
2615 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
2680 CAGGGAGATAGGATTATATCTT
66 CAGGGAGATAGGATTATATCTT
* * * *** ** ** *
2702 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAAC
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATT-TT-AATCCGCTCCACTGTAAC
* * * * *
2767 CTCAGGGAGATAAGACCT-GA--TG
64 TTCAGGGAGATAGGA-TTATATCTT
* * *
2789 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
2854 CAGGGAGATAGGATTATATCTT
66 CAGGGAGATAGGATTATATCTT
* * * *** ** ** *
2876 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAAC
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATT-TT-AATCCGCTCCACTGTAAC
* * * * *
2941 CTCAGGGAGATAAGACCT-GA--TG
64 TTCAGGGAGATAGGA-TTATATCTT
* * *
2963 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
3028 CAGGGAGATAGGATTATATCTT
66 CAGGGAGATAGGATTATATCTT
* * *
3050 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCT
3087 GCAATTCTTC
Statistics
Matches: 422, Mismatches: 119, Indels: 36
0.73 0.21 0.06
Matches are distributed among these distances:
84 3 0.01
85 81 0.19
86 6 0.01
87 242 0.57
88 6 0.01
89 81 0.19
90 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATTATATCTT
Found at i:2573 original size:174 final size:174
Alignment explanation
Indices: 2360--3133 Score: 1476
Period size: 174 Copynumber: 4.4 Consensus size: 174
2350 GTTTTAATCC
* * * *
2360 GCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
*
2425 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATC
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
2490 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
2534 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
2599 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
2664 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
2708 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
2773 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
2838 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
2882 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
2947 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
3012 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
* * *
3056 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTATTCCACTGTAATCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
3121 GAGATAAGACCTG
66 GAGATAAGACCTG
3134 TATAATAAAC
Statistics
Matches: 592, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 592 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (174 bp):
GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
Found at i:11979 original size:2 final size:2
Alignment explanation
Indices: 11972--12006 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11962 ATATAAAAAG
* *
11972 TA TA TA TA TA GA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12007 GAGTCATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:14854 original size:36 final size:36
Alignment explanation
Indices: 14813--14885 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
14803 GGTTAATGTA
14813 AAAATAGTAGTGACGGTAAGATTAGATACTATAGCG
1 AAAATAGTAGTGACGGTAAGATTAGATACTATAGCG
14849 AAAATAGTAGTGACGGTAAGATTAGATACTATAGCG
1 AAAATAGTAGTGACGGTAAGATTAGATACTATAGCG
14885 A
1 A
14886 TATTGTAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (36 bp):
AAAATAGTAGTGACGGTAAGATTAGATACTATAGCG
Found at i:16066 original size:51 final size:51
Alignment explanation
Indices: 15998--16105 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
15988 CCCCTCAAAG
* * *
15998 TTTACACATTCTATCAATTCCGTCTTTGATTTAACAGATTTACCT-TCAACA
1 TTTACACATTCTATCAATTCAGTC-TTGATTTAACAAATTTACCTAGCAACA
* * * *
16049 TTTACACATTTTGTCAATTTAGTCTTGATTTAACAAATTTAGCTAGCAACA
1 TTTACACATTCTATCAATTCAGTCTTGATTTAACAAATTTACCTAGCAACA
16100 TTTACA
1 TTTACA
16106 AACTATACCA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
50 18 0.37
51 31 0.63
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.42
Consensus pattern (51 bp):
TTTACACATTCTATCAATTCAGTCTTGATTTAACAAATTTACCTAGCAACA
Found at i:17823 original size:22 final size:22
Alignment explanation
Indices: 17785--17833 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
17775 ATAAAAAATT
*
17785 TAAA-AATAATTTGTTAAATAA
1 TAAATAATAATTTGTTAAACAA
*
17806 TAAATAATAAATTT-TTAAACAG
1 TAAATAAT-AATTTGTTAAACAA
17828 TAAATA
1 TAAATA
17834 TTAACTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 15 0.62
23 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TAAATAATAATTTGTTAAACAA
Found at i:18022 original size:21 final size:21
Alignment explanation
Indices: 17997--18095 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 21
17987 AATTACTTCG
*
17997 TTAATATTTTAATAATTATTA
1 TTAATATTTTAATAATTTTTA
*
18018 TTAATAGTTTTAA-ATTTTTTA
1 TTAATA-TTTTAATAATTTTTA
* * *
18039 TT-ATTTTTTTATTATTTTTA
1 TTAATATTTTAATAATTTTTA
*
18059 -TAA-ATTTTAAATAATTTTATT
1 TTAATATTTT-AATAATTTT-TA
*
18080 TTAAATTTTTTAATAA
1 TT-AATATTTTAATAA
18096 ATTTCAATCA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
19 10 0.17
20 16 0.27
21 15 0.25
22 7 0.12
23 7 0.12
24 4 0.07
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (21 bp):
TTAATATTTTAATAATTTTTA
Found at i:18048 original size:11 final size:11
Alignment explanation
Indices: 18032--18057 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18022 TAGTTTTAAA
18032 TTTTTTATTAT
1 TTTTTTATTAT
18043 TTTTTTATTAT
1 TTTTTTATTAT
18054 TTTT
1 TTTT
18058 ATAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:20428 original size:12 final size:12
Alignment explanation
Indices: 20402--20441 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20392 AAATTGAGAA
20402 TTTTTCTGATTT
1 TTTTTCTGATTT
*
20414 TTTTTTTGCTATTT
1 TTTTTCTG--ATTT
20428 TTTTTCTGATTT
1 TTTTTCTGATTT
20440 TT
1 TT
20442 CCTGTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTCTGATTT
Found at i:21560 original size:20 final size:21
Alignment explanation
Indices: 21507--21560 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
21497 AAATATCGTC
21507 ATGTCTCGAGACAATGTTCCCT
1 ATGTCTCGAGACAATG-TCCCT
* *
21529 ATCTCTCAAGACAATG-CCACT
1 ATGTCTCGAGACAATGTCC-CT
21550 -TGTCTCGAGAC
1 ATGTCTCGAGAC
21561 CCTGGACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 11 0.41
21 2 0.07
22 14 0.52
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (21 bp):
ATGTCTCGAGACAATGTCCCT
Found at i:22765 original size:18 final size:18
Alignment explanation
Indices: 22742--22788 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
22732 TTTCTAATAG
22742 TTTTTATAAATTTTAATC
1 TTTTTATAAATTTTAATC
*
22760 TTTTTAT-AATTTTAATG
1 TTTTTATAAATTTTAATC
22777 TTTTT-TAAATTT
1 TTTTTATAAATTT
22789 ACTTTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 19 0.70
18 7 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTATAAATTTTAATC
Found at i:22770 original size:17 final size:17
Alignment explanation
Indices: 22742--22800 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
22732 TTTCTAATAG
22742 TTTTTATAAATTTTAATC
1 TTTTTAT-AATTTTAATC
*
22760 TTTTTATAATTTTAATG
1 TTTTTATAATTTTAATC
*
22777 TTTTT-TAAATTT-A-C
1 TTTTTATAATTTTAATC
22791 -TTTTATAATT
1 TTTTTATAATT
22801 CCAAATTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 1 0.03
16 6 0.17
17 14 0.39
18 7 0.19
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTATAATTTTAATC
Found at i:25075 original size:14 final size:15
Alignment explanation
Indices: 25056--25088 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25046 TTCCTTATGG
25056 TTTTCTGTTTC-TTC
1 TTTTCTGTTTCTTTC
*
25070 TTTTCTTTTTCTTTC
1 TTTTCTGTTTCTTTC
25085 TTTT
1 TTTT
25089 AATGTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCTGTTTCTTTC
Found at i:30682 original size:25 final size:26
Alignment explanation
Indices: 30630--30684 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
30620 TTTATTTTAT
* *
30630 ATTATATTAATAATTTTAAAAATTAA
1 ATTAAATTAATAATTTTAAAAATAAA
* *
30656 ATTAAATTAA-AATTTTATATATAAA
1 ATTAAATTAATAATTTTAAAAATAAA
30681 ATTA
1 ATTA
30685 TATGTTAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTAAATTAATAATTTTAAAAATAAA
Found at i:31067 original size:24 final size:24
Alignment explanation
Indices: 31035--31083 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
31025 AGTTAACATA
31035 ACTTTCAACTCTTGACCCGAACTT
1 ACTTTCAACTCTTGACCCGAACTT
31059 ACTTTCAACTCTTGACCCGAACTT
1 ACTTTCAACTCTTGACCCGAACTT
31083 A
1 A
31084 AGAAATTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.33
Consensus pattern (24 bp):
ACTTTCAACTCTTGACCCGAACTT
Found at i:33628 original size:17 final size:18
Alignment explanation
Indices: 33590--33630 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33580 TGTTGAAAAT
* *
33590 TTAAATTTATATATATTT
1 TTAAATTTATATAAATTA
33608 TTAAATTT-TATAAATTA
1 TTAAATTTATATAAATTA
33625 TTAAAT
1 TTAAAT
33631 CAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAATTTATATAAATTA
Found at i:40129 original size:31 final size:31
Alignment explanation
Indices: 40094--40165 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
40084 GTTAAAATGG
* *
40094 TCAAATAAAGATTTAA-TATTTTTAAAAGTAC
1 TCAAATAAAGACTCAACT-TTTTTAAAAGTAC
* * *
40125 TCAAATAATGGCTCAACTTTTTTAAAAGTGC
1 TCAAATAAAGACTCAACTTTTTTAAAAGTAC
40156 TCAAATAAAG
1 TCAAATAAAG
40166 GCTTTTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (31 bp):
TCAAATAAAGACTCAACTTTTTTAAAAGTAC
Found at i:42652 original size:3 final size:3
Alignment explanation
Indices: 42644--42683 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
42634 AACAAGTAAG
42644 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42684 AGTGGCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:43472 original size:4 final size:4
Alignment explanation
Indices: 43463--43497 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
43453 GTAGTCAAAA
43463 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
43498 AATGTAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:44245 original size:21 final size:21
Alignment explanation
Indices: 44221--44264 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
44211 AGATAGGATA
44221 GTGTCTTCGA-TTAGCTCCGCT
1 GTGTCTTCGACTT-GCTCCGCT
44242 GTGTCTTCGACTTGCTCCGCT
1 GTGTCTTCGACTTGCTCCGCT
44263 GT
1 GT
44265 AATCTTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.07, C:0.30, G:0.25, T:0.39
Consensus pattern (21 bp):
GTGTCTTCGACTTGCTCCGCT
Found at i:44471 original size:87 final size:87
Alignment explanation
Indices: 44380--44847 Score: 432
Period size: 87 Copynumber: 5.4 Consensus size: 87
44370 AGACCTAATG
*
44380 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
44444 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * ** ** * *
44467 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGT-CTGAAATTCTTTGGTCTGTTCCACTGTAA
1 CGATCTACTCCACTGTAATCTCAGAGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAA
* * * ** * *
44531 CCTCAGAGAGATAAGA-CCTG-ATG
63 CTTCAGGGAGATAGGATAGTGTCTT
*
44554 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
44618 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * ** ** * *
44641 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGT-CTGAAATTCTTTGGTCTGTTCCACTGTAA
1 CGATCTACTCCACTGTAATCTCAGAGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAA
* * * ** * *
44705 CCTCAGAGAGATAAGA-CCTG-ATG
63 CTTCAGGGAGATAGGATAGTGTCTT
*
44728 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
44792 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * *
44815 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
1 CGATCTACTCCACTGTAATCTCAGAGAGATAAG
44848 GTCTGAAATT
Statistics
Matches: 288, Mismatches: 76, Indels: 34
0.72 0.19 0.09
Matches are distributed among these distances:
85 58 0.20
86 12 0.04
87 147 0.51
88 13 0.05
89 58 0.20
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
CGATCTACTCCACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATAGTGTCTT
Found at i:44536 original size:46 final size:45
Alignment explanation
Indices: 44295--44893 Score: 298
Period size: 46 Copynumber: 13.7 Consensus size: 45
44285 TCTGACTTCA
* * *
44295 ATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTG-AATTCTTTG
* * * ** *
44341 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCT-AATGC---G
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAATTCTTTG
* * * * * ** *
44382 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-T-TTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGT-CTGAATTCTTTG
* * * * *
44426 ATCCGCTCCACTGTAACTTCAGGGAGAT-AGG-AT-AGTGTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAAT-TCTTTG
* *
44469 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTG-AATTCTTTG
* * * ** *
44515 GTCTGTTCCACTGTAACCTCAGAGAGATAAGACCTG-ATGC---G
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAATTCTTTG
* * * * * ** *
44556 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-T-TTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGT-CTGAATTCTTTG
* * * * *
44600 ATCCGCTCCACTGTAACTTCAGGGAGAT-AGG-AT-AGTGTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAAT-TCTTTG
* *
44643 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTG-AATTCTTTG
* * * ** *
44689 GTCTGTTCCACTGTAACCTCAGAGAGATAAGACCTG-ATGC---G
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAATTCTTTG
* * * * * ** *
44730 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-T-TTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGT-CTGAATTCTTTG
* * * * *
44774 ATCCGCTCCACTGTAACTTCAGGGAGAT-AGG-AT-AGTGTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAAT-TCTTTG
* *
44817 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTG-AATTCTTTG
* * *
44863 GTCTGTTCCACTGTAATCTCAGGGAGATAAG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAG
44894 ACCTGTATTA
Statistics
Matches: 416, Mismatches: 101, Indels: 72
0.71 0.17 0.12
Matches are distributed among these distances:
41 89 0.21
42 9 0.02
43 87 0.21
44 91 0.22
45 3 0.01
46 131 0.31
47 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGGTCTGAATTCTTTG
Found at i:44585 original size:174 final size:174
Alignment explanation
Indices: 44290--44898 Score: 1110
Period size: 174 Copynumber: 3.5 Consensus size: 174
44280 AGACCTCTGA
* * * * * * * **
44290 CTTCAATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
*
44355 AACCTCAGAGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
44420 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
44464 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
44529 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
44594 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
44638 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
44703 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
44768 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
44812 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
* *
44877 AATCTCAGGGAGATAAGACCTG
66 AACCTCAGAGAGATAAGACCTG
44899 TATTATGAAC
Statistics
Matches: 423, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 423 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (174 bp):
CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGGTCTGAAATTCTTTGGTCTGTTCCACTGT
AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
Found at i:46084 original size:1 final size:1
Alignment explanation
Indices: 46078--46110 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
46068 CTCTCCAAAG
46078 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46111 AGGAAGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.