Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3310
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: 97120
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Found at i:3469 original size:48 final size:47
Alignment explanation
Indices: 3248--3511 Score: 197
Period size: 46 Copynumber: 5.6 Consensus size: 47
3238 ACATCGACGC
* * * * ** * *
3248 CATGTCCCAGACATGGTCTTACACAAGTTCTAGTATATCTGTACCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCAATGCCGATG
* * * * *
3297 CCATGTCCCAAATATGGTCTTACACT-G-ACACATCTC-ATAGCAGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT-GCCGATG
* * *
3343 CATGTCCCAGACA-CGTCTTATACTAGCT-TACATCTCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAATGCCGATG
* *
3389 CATGTCCCAGACAT-GTCTTACACTAGCGCTCATCTCAATGCCGGTG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATG
*
3435 CCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATGTGGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA--T-GCCGATG
*
3483 CATATCCCAGACAT-GTCTTACACTAGCTC
1 CATGTCCCAGACATGGTCTTACACTAGCTC
3512 ATAATAACCC
Statistics
Matches: 175, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
44 9 0.05
45 15 0.09
46 75 0.43
47 30 0.17
48 23 0.13
49 1 0.01
50 22 0.13
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATG
Found at i:6678 original size:68 final size:66
Alignment explanation
Indices: 6606--6776 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
6596 CATCATGTGT
* * * *
6606 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
6669 TGTAG
62 TGTAG
** * *
6674 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
6739 G
66 G
* * * *
6740 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
6777 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
64 24 0.27
65 18 0.20
66 34 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:6711 original size:64 final size:64
Alignment explanation
Indices: 6630--6812 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 64
6620 AGACATTATG
* * *
6630 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
6694 ATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
6759 A
64 A
* * *
6760 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
6813 GAACTATATG
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 21 0.21
66 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13101 original size:14 final size:14
Alignment explanation
Indices: 13082--13110 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13072 CGAATAGACT
13082 ATGAAAACATCCAA
1 ATGAAAACATCCAA
13096 ATGAAAACATCCAA
1 ATGAAAACATCCAA
13110 A
1 A
13111 AACATCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
ATGAAAACATCCAA
Found at i:18930 original size:47 final size:47
Alignment explanation
Indices: 18877--18976 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
18867 AGACAATGAT
*
18877 ACCATGTTTGGAACATGGCATTTGGTAAGACAATGATACCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
* *
18924 ACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
18971 ACCATG
1 ACCATG
18977 CCAAGGCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
Found at i:19084 original size:55 final size:54
Alignment explanation
Indices: 18955--19151 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
18945 TTGGTAAGAT
* * * *
18955 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* * * *
19009 AAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * *
19065 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
19117 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
19152 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.34
55 41 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:19181 original size:108 final size:109
Alignment explanation
Indices: 18963--19181 Score: 309
Period size: 108 Copynumber: 2.0 Consensus size: 109
18953 ATAAGGATAT
* * *
18963 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * *
19028 ATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGGAATTGATAAGTTACAAAAAGGAAAAGGTCC
* * *
19072 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
19136 ATGTCAAGACATGGCAA-TGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGG-AATTGATAAGTTACAAAAAGGAAAAGG-TCC
19180 CA
1 CA
19182 AATAATCCAA
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
107 12 0.12
108 48 0.49
109 38 0.39
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGAATTGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:24747 original size:30 final size:30
Alignment explanation
Indices: 24699--24760 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
24689 TTTTTGAGCC
*
24699 TAGGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAGGGCCAAAATCATAATTCTGCCAAA-GTT
** *
24729 TAGGGCCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGCCAAAATCATAATTCTGCCAAAGTT
24759 TA
1 TA
24761 AGTTAGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (30 bp):
TAGGGCCAAAATCATAATTCTGCCAAAGTT
Found at i:25585 original size:47 final size:47
Alignment explanation
Indices: 25532--25631 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
25522 AGACAAGGAT
*
25532 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAAGATACCATGTAAG
* *
25579 ACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAAGATACCATGTAAG
25626 ACCATG
1 ACCATG
25632 CCAAGGCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGGTAAGACAAAGATACCATGTAAG
Found at i:25739 original size:55 final size:54
Alignment explanation
Indices: 25618--25806 Score: 229
Period size: 55 Copynumber: 3.5 Consensus size: 54
25608 ATAAAGATAT
* * *
25618 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGAAAC
* * * **
25672 CATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-CAAGGAAAC
* * *
25727 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGAGAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGAAAC
* *
25780 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
25807 ATGGTAAGTT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.04
53 31 0.27
54 34 0.30
55 41 0.36
56 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGAAAC
Found at i:25818 original size:53 final size:54
Alignment explanation
Indices: 25618--25817 Score: 208
Period size: 53 Copynumber: 3.7 Consensus size: 54
25608 ATAAAGATAT
* * *
25618 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAGGAAAC
* * * **
25672 CATGTAAGACCATGTCAAGACATGG-AATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCAA-TGATAAGTT-CTATAAGG-CAAGGAAAC
* * * * *
25727 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGAGAC
1 CATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAGGAAAC
* * *
25780 CACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 CATGTAAGACCATGCCAAGACATGGCAATGATAAGTTC
25818 AAAAACGAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.03
53 41 0.34
54 32 0.26
55 39 0.32
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAGGAAAC
Found at i:25836 original size:108 final size:109
Alignment explanation
Indices: 25618--25841 Score: 310
Period size: 108 Copynumber: 2.1 Consensus size: 109
25608 ATAAAGATAT
* *
25618 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * *
25683 ATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGGAATTGATAAGTTACAAAAACGAAAAGGTCC
* * *
25727 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGAGACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
25791 ATGTCAAGACATGGCAA-TGGTAAGTT-CAAAAACGAAAAGGTTCC
66 ATGTCAAGACATGG-AATTGATAAGTTACAAAAACGAAAAGG-TCC
*
25835 CAAGTAA
1 CATGTAA
25842 TCCAAAGACT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
107 11 0.11
108 53 0.52
109 38 0.37
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGAATTGATAAGTTACAAAAACGAAAAGGTCC
Found at i:34445 original size:49 final size:49
Alignment explanation
Indices: 34390--34727 Score: 541
Period size: 47 Copynumber: 7.1 Consensus size: 49
34380 ATGTACAAGA
34390 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
34439 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
34486 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAAGGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
34533 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
34582 TATGTATATGTGATCAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
34631 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
34676 TATATATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTG
34725 TAT
1 TAT
34728 AACTGTGATA
Statistics
Matches: 272, Mismatches: 10, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
45 4 0.01
47 164 0.60
48 3 0.01
49 101 0.37
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:34447 original size:25 final size:25
Alignment explanation
Indices: 34419--34497 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
34409 CGAATGGCCA
34419 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * * *
34444 ATGTGAT-AAGGCCGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
34466 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
34491 ATGTGAT
1 ATGTGAT
34498 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 4 0.10
25 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:34568 original size:96 final size:94
Alignment explanation
Indices: 34396--34727 Score: 540
Period size: 96 Copynumber: 3.5 Consensus size: 94
34386 AAGATATGTA
34396 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
34461 GGCCAATGTGATGAATGTGAAAGTGTATG
66 GGCCAATGTGATGAATGTGAAAGTGTATG
* *
34490 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAAGGTGTATGTATATGTGATAAGGCCGA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGA
34555 ATGGCCAATGTGATGAATGTGAAAGTGTATG
64 ATGGCCAATGTGATGAATGTGAAAGTGTATG
*
34586 TATATGTGATCAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
* *
34651 ATGGCCAATGTGATGAATGTGAAAGTATATA
64 ATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
34682 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
34728 AACTGTGATA
Statistics
Matches: 222, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
94 83 0.37
95 3 0.01
96 92 0.41
98 44 0.20
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (94 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:36705 original size:38 final size:38
Alignment explanation
Indices: 36660--36753 Score: 125
Period size: 38 Copynumber: 2.5 Consensus size: 38
36650 AATCCGGGCT
* *
36660 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGACCCGATGACTATAAGTAGAGATTATGCCCGGG
* * *
36698 TAAAGACCCAATGACTATATGTGGAGATTATGCCCGGG
1 TAAAGACCCGATGACTATAAGTAGAGATTATGCCCGGG
* *
36736 TAAAGATCCGATGGCTAT
1 TAAAGACCCGATGACTAT
36754 GTAAAGAGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATAAGTAGAGATTATGCCCGGG
Found at i:36888 original size:40 final size:39
Alignment explanation
Indices: 36830--36980 Score: 212
Period size: 40 Copynumber: 3.8 Consensus size: 39
36820 CTCAACGATG
* *
36830 ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGTTGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-GTGTTAC
*
36870 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGATGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTG-TGTTAC
*
36910 ATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-GTGTTAC
** *
36950 ATCCGGGCTAAGTCCTAAAGGGCATTCGTGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
36981 CGATGATGTG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGTGTTAC
Found at i:36930 original size:80 final size:80
Alignment explanation
Indices: 36838--36985 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 80
36828 TGATCCGGGT
* * *
36838 TAAGTCCCGAAGAGCATTCGTGCTAGTGTTGCATCCGGGCTAAGTTCC-GAAGAGCATTCGTGCT
1 TAAGTCCCGAAGAGCATTCGTGCTAGTGTTACATCCGGGCTAAG-TCCTAAAGAGCATTCGTGCC
36902 GATGTTACATCCGAGC
65 GATGTTACATCCGAGC
* *
36918 TAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCGGGCTAAGTCCTAAAGGGCATTCGTGCCG
1 TAAGTCCCGAAGAGCATTCGTGCTAGTGTTACATCCGGGCTAAGTCCTAAAGAGCATTCGTGCCG
36983 ATG
66 ATG
36986 ATGTGTAATC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
TAAGTCCCGAAGAGCATTCGTGCTAGTGTTACATCCGGGCTAAGTCCTAAAGAGCATTCGTGCCG
ATGTTACATCCGAGC
Found at i:37191 original size:25 final size:25
Alignment explanation
Indices: 37149--37203 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
37139 TGTGTAATAA
*
37149 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGACACTATGTGTG
*
37174 CGAATGAAT-TGAGACACTGTGTGTG
1 CGAATGAATAT-AGACACTATGTGTG
37199 CGAAT
1 CGAAT
37204 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGACACTATGTGTG
Found at i:37579 original size:15 final size:16
Alignment explanation
Indices: 37555--37593 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
37545 TTATACATGA
*
37555 ATGAAAATGTGGGTT-
1 ATGAATATGTGGGTTG
37570 ATGAATATGTGGGTTG
1 ATGAATATGTGGGTTG
37586 ATG-ATATG
1 ATGAATATG
37594 AATTATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (16 bp):
ATGAATATGTGGGTTG
Found at i:41012 original size:16 final size:15
Alignment explanation
Indices: 40983--41241 Score: 68
Period size: 16 Copynumber: 16.3 Consensus size: 15
40973 CCGAATGGCC
40983 AAAGTGATGAATGTG
1 AAAGTGATGAATGTG
*
40998 AAAGTGTATGTATGTG
1 AAAGTG-ATGAATGTG
**
41014 ATAAG-GCCGAATG-G
1 A-AAGTGATGAATGTG
*
41028 CCAATGTGATGAATGTG
1 --AAAGTGATGAATGTG
*
41045 AAAGTGTATGTATGTG
1 AAAGTG-ATGAATGTG
*
41061 ATAAG-GCTGAATG-G
1 A-AAGTGATGAATGTG
*
41075 CCAATGTGATGAATGTG
1 --AAAGTGATGAATGTG
*
41092 AAGGTGTATGTATATGTG
1 AAAGTG-ATG-A-ATGTG
**
41110 ATAAG-GCCGAATG-G
1 A-AAGTGATGAATGTG
*
41124 CCAATGTGATGAATGTG
1 --AAAGTGATGAATGTG
41141 AAAGTGTATGTATATGTG
1 AAAGTG-ATG-A-ATGTG
** **
41159 ATAAG-GCCGAATGACC
1 A-AAGTGATGAATG-TG
* *
41175 AATGTGATGAATGGG
1 AAAGTGATGAATGTG
*
41190 AAAGTGTATGTATGTG
1 AAAGTG-ATGAATGTG
*
41206 ATAAG-GCTGAATG-G
1 A-AAGTGATGAATGTG
*
41220 CCAATGTGATGAATGTG
1 --AAAGTGATGAATGTG
41237 AAAGT
1 AAAGT
41242 ATATATATAT
Statistics
Matches: 174, Mismatches: 38, Indels: 64
0.63 0.14 0.23
Matches are distributed among these distances:
14 4 0.02
15 60 0.34
16 74 0.43
17 17 0.10
18 14 0.08
19 5 0.03
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.28
Consensus pattern (15 bp):
AAAGTGATGAATGTG
Found at i:41014 original size:47 final size:47
Alignment explanation
Indices: 40961--41292 Score: 504
Period size: 47 Copynumber: 7.0 Consensus size: 47
40951 AAGATATGTA
*
40961 TATGTGATAAGGCCGAATGGCCAAAGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
41008 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
41055 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
41102 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
41151 TATATGTGATAAGGCCGAATGACCAATGTGATGAATGGGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
41200 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * * *
41247 TATATGATAAGGCCGAATGGTCAATGTCATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
41293 AACTGTGATA
Statistics
Matches: 264, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 169 0.64
48 3 0.01
49 92 0.35
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:41071 original size:25 final size:25
Alignment explanation
Indices: 40996--41071 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
40986 GTGATGAATG
40996 TGAAAGTGTATGTATGTGATAAGGC
1 TGAAAGTGTATGTATGTGATAAGGC
* * * *
41021 CGAATG-GCCA---ATGTGATGAATG-
1 TGAAAGTG-TATGTATGTGAT-AAGGC
41043 TGAAAGTGTATGTATGTGATAAGGC
1 TGAAAGTGTATGTATGTGATAAGGC
41068 TGAA
1 TGAA
41072 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 12 0.33
23 4 0.11
24 4 0.11
25 16 0.44
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.29
Consensus pattern (25 bp):
TGAAAGTGTATGTATGTGATAAGGC
Found at i:41132 original size:40 final size:42
Alignment explanation
Indices: 41086--41181 Score: 106
Period size: 49 Copynumber: 2.2 Consensus size: 42
41076 CAATGTGATG
*
41086 AATGTGAA-G-GTGTATGTATATGTGATAAGGCCGAATGGCC
1 AATGTGAATGAGTGTATGTATATGTGATAAGGCCGAATGACC
41126 AATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGACC
1 AA--TG-TGAA--TG--AGTGTATGTATATGTGATAAGGCCGAATGACC
41175 AATGTGA
1 AATGTGA
41182 TGAATGGGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
40 2 0.04
42 2 0.04
43 4 0.09
46 4 0.09
47 2 0.04
49 32 0.70
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (42 bp):
AATGTGAATGAGTGTATGTATATGTGATAAGGCCGAATGACC
Found at i:41133 original size:96 final size:94
Alignment explanation
Indices: 40961--41292 Score: 504
Period size: 96 Copynumber: 3.5 Consensus size: 94
40951 AAGATATGTA
*
40961 TATGTGATAAGGCCGAATGGCCAAAGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
41026 GGCCAATGTGATGAATGTGAAAGTGTATG
66 GGCCAATGTGATGAATGTGAAAGTGTATG
* *
41055 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCCGA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGA
41120 ATGGCCAATGTGATGAATGTGAAAGTGTATG
64 ATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
41151 TATATGTGATAAGGCCGAATGACCAATGTGATGAATGGGAAAGTGTATGTATGTGATAAGGCTGA
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
* *
41216 ATGGCCAATGTGATGAATGTGAAAGTATATA
64 ATGGCCAATGTGATGAATGTGAAAGTGTATG
* * * *
41247 TATATGATAAGGCCGAATGGTCAATGTCATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
41293 AACTGTGATA
Statistics
Matches: 217, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
94 80 0.37
95 3 0.01
96 91 0.42
98 43 0.20
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (94 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:42689 original size:50 final size:51
Alignment explanation
Indices: 42607--42739 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
42597 TGTTACAACG
** * * *
42607 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGAT-GGAT-AGGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCATCA-ATCACA
* * *
42657 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCACA
1 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCATCAATCACA
* *
42708 TGTGTGGTACTAAGTGTAGGCCACTATGTGTA
1 TGTGTAGTACTAAGTGTAGGCTACTATGTGTA
42740 AGAGATGGTT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 34 0.49
51 35 0.50
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCATCAATCACA
Found at i:42757 original size:51 final size:51
Alignment explanation
Indices: 42655--42801 Score: 143
Period size: 51 Copynumber: 2.9 Consensus size: 51
42645 GGATAGGTCG
* * * ***
42655 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCA
1 CATGTGTGGTACTAAGTGAAGGCCACTATGTGTAAGAGATAGCTTCAATCA
* * * **
42706 CATGTGTGGTACTAAGTGTAGGCCACTATGTGTAAGAGATGGTTTTGATCA
1 CATGTGTGGTACTAAGTGAAGGCCACTATGTGTAAGAGATAGCTTCAATCA
* * * *
42757 CAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTT
1 CATGTGTGGTACTAAGTGAAGGCCACTATGTGTAAG-AGATAGCTT
42802 TGCTGAGTAT
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 3 0.04
51 75 0.96
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGAAGGCCACTATGTGTAAGAGATAGCTTCAATCA
Found at i:47635 original size:25 final size:26
Alignment explanation
Indices: 47575--47645 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
47565 AGGAAGTGCA
47575 AAAAGGGCTTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTTGCCCTAGTTTACCG
*
47601 AAAAGGGCTTTTG-CCTCAGTTTATC-
1 AAAAGGGCTTTTGCCCT-AGTTTACCG
47626 AAAAGGGC-TTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCTAGTT
47646 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
24 8 0.19
25 14 0.33
26 20 0.48
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCTAGTTTACCG
Found at i:51625 original size:92 final size:92
Alignment explanation
Indices: 51468--51654 Score: 365
Period size: 92 Copynumber: 2.0 Consensus size: 92
51458 AAGATTTGTG
51468 GAAGGATTTTCTATGTTGGCAGCACCGTTAACGAAACTTATATGGAAGGGAGCACCTTTTGTTTG
1 GAAGGATTTTCTATGTTGGCAGCACCGTTAACGAAACTTATATGGAAGGGAGCACCTTTTGTTTG
*
51533 GACGAATAAGCAGCAAGAGGCTTTTGA
66 GACGAATAAGCAGCAAGAGGCTTTTAA
51560 GAAGGATTTTCTATGTTGGCAGCACCGTTAACGAAACTTATATGGAAGGGAGCACCTTTTGTTTG
1 GAAGGATTTTCTATGTTGGCAGCACCGTTAACGAAACTTATATGGAAGGGAGCACCTTTTGTTTG
51625 GACGAATAAGCAGCAAGAGGCTTTTAA
66 GACGAATAAGCAGCAAGAGGCTTTTAA
51652 GAA
1 GAA
51655 ACTGAAGAGG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (92 bp):
GAAGGATTTTCTATGTTGGCAGCACCGTTAACGAAACTTATATGGAAGGGAGCACCTTTTGTTTG
GACGAATAAGCAGCAAGAGGCTTTTAA
Found at i:56346 original size:20 final size:20
Alignment explanation
Indices: 56321--56387 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
56311 ATTCTGATAT
56321 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56341 ACATGAT-TAGTGTGATATGC
1 ACATGATAT-GTATGATATGC
56361 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56381 ACATGAT
1 ACATGAT
56388 GTATTCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56495 original size:25 final size:26
Alignment explanation
Indices: 56435--56502 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
56425 AGGAAGTGCA
56435 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
56461 AAAAGGGCTTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTTGCCCCAGTTTACCG
56486 AAAAGGGC-TTTGCCCCA
1 AAAAGGGCTTTTGCCCCA
56503 ATTATTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 9 0.22
25 8 0.20
26 24 0.59
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:56518 original size:24 final size:24
Alignment explanation
Indices: 56435--56518 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 24
56425 AGGAAGTGCA
* *
56435 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGC-TTTGCCCCAGATTATC
*
56460 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGATTATC
*
56486 AAAAGGGCTTTGCCCCA-ATTATT
1 AAAAGGGCTTTGCCCCAGATTATC
56509 AAAAGAGGCT
1 AAAAG-GGCT
56519 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
23 9 0.17
24 13 0.24
25 8 0.15
26 24 0.44
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:56761 original size:31 final size:31
Alignment explanation
Indices: 56726--56789 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
56716 CGTTTACAGT
56726 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* * **
56757 AAAGGGTTCGTCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56788 AA
1 AA
56790 TATGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58764 original size:14 final size:14
Alignment explanation
Indices: 58745--58772 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58735 CTTCGATGAG
58745 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
58759 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
58773 GAGTGAGATG
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:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TTAGAAGAAACTAT
Found at i:60064 original size:50 final size:51
Alignment explanation
Indices: 59989--60120 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
59979 TATGGATGAA
* *
59989 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAGC
* * * * *
60039 TTAGGTCATATGTGTATTACTAAGTGCAGGCTACTATGTGTACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAGC
* * *
60090 TTCGATCACATGTGTGGTACTAAGTGCAGGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGC
60121 CACTGTGTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAGC
Found at i:60130 original size:51 final size:50
Alignment explanation
Indices: 59989--60180 Score: 168
Period size: 51 Copynumber: 3.8 Consensus size: 50
59979 TATGGATGAA
* * * * *
59989 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGC
* * * *
60039 TTAGGTCATATGTGTATTACTAAGTGCAGGCTACTATGTGTACCCGATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GC
* * * * ** *
60090 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTGTGTGTAAGAGATGGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GC
* * * * * *
60141 TTTGATCACAAGTGTAGTACTATGTGAAGGCCACTTTGTG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTG
60181 AAGAAGGTAG
Statistics
Matches: 116, Mismatches: 25, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
50 42 0.36
51 74 0.64
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGC
Found at i:60196 original size:51 final size:51
Alignment explanation
Indices: 60056--60225 Score: 155
Period size: 51 Copynumber: 3.3 Consensus size: 51
60046 ATATGTGTAT
* * * *** * *
60056 TACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGATCACATGTGTGG
1 TACTATGTGCAGGCCACTGTGTGTAAGAGATAGCTTTGATCACAAGTGTGG
* * * *
60107 TACTAAGTGCAGGCCACTGTGTGTAAGAGATGGTTTTGATCACAAGTGTAG
1 TACTATGTGCAGGCCACTGTGTGTAAGAGATAGCTTTGATCACAAGTGTGG
* * * *
60158 TACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA-CTACAAGGGTGG
1 TACTATGTGCAGGCCACTGTGTGTAAG-AGATAGCTTTGATC-ACAAGTGTGG
*
60209 TACCATGTGCAGGCCAC
1 TACTATGTGCAGGCCAC
60226 CGAGTATCTG
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
50 4 0.04
51 93 0.96
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (51 bp):
TACTATGTGCAGGCCACTGTGTGTAAGAGATAGCTTTGATCACAAGTGTGG
Found at i:71557 original size:55 final size:54
Alignment explanation
Indices: 71433--71681 Score: 306
Period size: 54 Copynumber: 4.6 Consensus size: 54
71423 CTTACCATTT
* *
71433 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* *
71486 TCATGCCTTGGCATGGTCTTACATTGG-A-CCTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGGCATGGTCTTACA-TGGTATCC-TTGCCTTATAG-AACTCATCAATG
* * * * * * *
71541 TCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTATCGATG
1 CCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * *
71595 CCATGTATTGGCATGGTCTTACATGGTTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* *
71649 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGGCATGGTCTTACATGGTATCCTT
71682 ATCTTACCAA
Statistics
Matches: 169, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
52 2 0.01
53 30 0.18
54 93 0.55
55 42 0.25
56 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
CCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
Found at i:71718 original size:47 final size:47
Alignment explanation
Indices: 71660--71781 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
71650 CATGCCTTGG
71660 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
71707 CATGGTTTTACATGGTATCCTTTTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
71754 CATGGTCTTACATGATATACTTGTCTTA
1 CATGGTCTTACATGATATCCTTATCTTA
71782 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:71870 original size:47 final size:46
Alignment explanation
Indices: 71785--71917 Score: 117
Period size: 45 Copynumber: 2.9 Consensus size: 46
71775 TGTCTTAGTG
** ** * * *
71785 CCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATCAATG
1 CCAATGCCATGTCTTGACATGGTCTTACAGGGA-TCCTTAAGCAATA
* **
71832 GCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTT--GCCTTA
1 CCAATGCCATGTCTTGACATGGTCTTACA-GGGATCCTTAAGCAATA
* *
71877 CCAATGCCATGTCTTGACATGGTTTTACATGGTATCCTTAA
1 CCAATGCCATGTCTTGACATGGTCTTACA-GGGATCCTTAA
71918 CCGTCAATTC
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
45 37 0.54
47 29 0.42
48 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (46 bp):
CCAATGCCATGTCTTGACATGGTCTTACAGGGATCCTTAAGCAATA
Found at i:74346 original size:54 final size:54
Alignment explanation
Indices: 74160--74459 Score: 329
Period size: 55 Copynumber: 5.5 Consensus size: 54
74150 AACTTACCAT
* * * *
74160 TGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTCATCAA
* * *
74213 TGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATGTCC-TTGCCTTATAG-AACTCATCAA
* ** * *
74268 TGCCATGTCTTGACATTATCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTCATCAA
* * * *
74322 TGCCATGCCTTGGCATGGTATTACATG-GGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATGTCC-TTGCCTTATAG-AACTCATCAA
* * * *
74377 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTCATCAA
* *
74431 TGCTATGCCTT-AGCATGGACTTACATGAT
1 TGCCATGCCTTGA-CATGGTCTTACATGAT
74460 ATCATTATCT
Statistics
Matches: 203, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 36 0.18
54 75 0.37
55 86 0.42
56 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTCATCAA
Found at i:74350 original size:109 final size:109
Alignment explanation
Indices: 74160--74457 Score: 492
Period size: 109 Copynumber: 2.7 Consensus size: 109
74150 AACTTACCAT
* * * * *
74160 TGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
*
74224 GGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GGCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAA
*
74268 TGCCATGTCTTGACATTATCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
74333 GGCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GGCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAA
*
74377 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCTATGCCTT
1 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
*
74442 AGCATGG-ACTTACATG
66 GGCATGGTA-TTACATG
74458 ATATCATTAT
Statistics
Matches: 178, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
108 39 0.22
109 139 0.78
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (109 bp):
TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
GGCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:76733 original size:18 final size:18
Alignment explanation
Indices: 76695--76736 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
76685 CTTTATTATG
76695 TTTTTGTATTTCAGCATA
1 TTTTTGTATTTCAGCATA
76713 TTTTATGTATTT-AG-ATGA
1 TTTT-TGTATTTCAGCAT-A
76731 TTTTTG
1 TTTTTG
76737 AATCATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTTCAGCATA
Found at i:76973 original size:64 final size:64
Alignment explanation
Indices: 76898--77081 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
76888 AGACATTATG
* * * *
76898 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACTATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
76962 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
77027 AA
63 AA
* * * *
77029 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
77082 CAAAATTAGG
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 22 0.22
67 31 0.32
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:80783 original size:50 final size:48
Alignment explanation
Indices: 80660--80963 Score: 186
Period size: 46 Copynumber: 6.4 Consensus size: 48
80650 AGGGCATGAT
* * ** * **
80660 GCCGATGCCATGTTCCAGACATGGTCTTACACTGACTATTGAAATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTACATATCCAG
* * *
80709 GCCGACGCCACGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCT-ACATATCCAG
*
80759 GCCGATGCCATGTCCCAGACATGGTCTTACACTG----ACA-ATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTACATATC-CA-G
* * * **
80804 GCCAATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTACATATCCAG
* * * * * *
80850 GCCGATG-CATGTCCCAAACAT-ATCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTACATATCCAG
* * **
80896 ACCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTACAT-ATCCAG
*
80944 GTCGATG-CATGTCCCAGACA
1 GCCGATGCCATGTCCCAGACA
80964 CGTCTTAGAC
Statistics
Matches: 203, Mismatches: 39, Indels: 28
0.75 0.14 0.10
Matches are distributed among these distances:
43 13 0.06
44 19 0.09
45 6 0.03
46 43 0.21
47 28 0.14
48 23 0.11
49 35 0.17
50 36 0.18
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTACATATCCAG
Found at i:86500 original size:49 final size:50
Alignment explanation
Indices: 86286--86508 Score: 132
Period size: 49 Copynumber: 4.6 Consensus size: 50
86276 AGTTATTTGT
* * * * **
86286 GAGCCAGTGTAAGACAATGTCTGGGACATGGCATC-G-ACATTTA-GATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGCACAGATATG-TGA
* * *
86334 GAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCAGCTACTAG--ATGT--
1 GAGCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGC-AC-AGATATGTGA
* * *
86380 G-TC-AGTGTAAGACCATGTCTGGGACATGGCTTCGGCACAGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGCACAGATATGTGA
* * * *
86428 GAGCTAGTGTAGGACCACGTCTGGGACATAGCGTCGGC-CTCGAT-TTTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGCAC-AGATATGTGA
* * *
86477 TAG-TCGGTGTAAGACCATGTCTGGGACCTAGC
1 GAGCT-AGTGTAAGACCATGTCTGGGACATAGC
86509 ATCAACTTGA
Statistics
Matches: 140, Mismatches: 20, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 16 0.11
47 13 0.09
48 17 0.12
49 34 0.24
50 33 0.24
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGCACAGATATGTGA
Found at i:86890 original size:19 final size:19
Alignment explanation
Indices: 86868--86904 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
86858 TGTGATGACC
86868 TGGTGATTATAGGTCTACT
1 TGGTGATTATAGGTCTACT
86887 TGGTGATTATAGGTCTAC
1 TGGTGATTATAGGTCTAC
86905 ACTGATTTTG
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:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (19 bp):
TGGTGATTATAGGTCTACT
Done.