Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold982
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: 32896
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Found at i:2119 original size:22 final size:22
Alignment explanation
Indices: 2074--2121 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2064 TTGACCCAAG
* *
2074 AGAATTGACCCAAATAAGATAA
1 AGAATTGACCCAAAGAAGACAA
2096 AGAATTGACCCAAGAGAA-ACAA
1 AGAATTGACCCAA-AGAAGACAA
2118 AGAA
1 AGAA
2122 ATAAATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (22 bp):
AGAATTGACCCAAAGAAGACAA
Found at i:15369 original size:47 final size:47
Alignment explanation
Indices: 15313--15595 Score: 444
Period size: 47 Copynumber: 6.0 Consensus size: 47
15303 ATGATGATAA
15313 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
15360 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
15409 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
15456 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
15503 CCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGACAGGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
* * * * * *
15551 CCGAGTGGCCAACGTGATGGATGTGAAA-TGTATAAATGTGATAAG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15596 TCCAAAGGGC
Statistics
Matches: 221, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
46 17 0.08
47 119 0.54
48 36 0.16
49 49 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
Found at i:15477 original size:96 final size:96
Alignment explanation
Indices: 15313--15595 Score: 443
Period size: 96 Copynumber: 3.0 Consensus size: 96
15303 ATGATGATAA
15313 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
15378 GAATGTGAAAGTGTATATATATGTGATAAGG
66 GAATGTGAAAGTGTATATATATGTGATAAGG
15409 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
15474 GAATGTGAAAGTG--TATATATGTGATAAGG
66 GAATGTGAAAGTGTATATATATGTGATAAGG
* * * * * *
15503 CCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
15567 ATGGATGTGAAA-TGTATA-A-ATGTGATAAG
64 ATGAATGTGAAAGTGTATATATATGTGATAAG
15596 TCCAAAGGGC
Statistics
Matches: 176, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
93 5 0.03
94 53 0.30
95 38 0.22
96 80 0.45
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATATGTGATAAGG
Found at i:15768 original size:37 final size:36
Alignment explanation
Indices: 15712--15789 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
15702 CCGAGCTCTA
* * * *
15712 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGT-CGGGT
*
15749 AAGACCCGATAACTTCGTGTGGAGATTATGTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCGGGT
15785 AAGAC
1 AAGAC
15790 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 10 0.28
37 26 0.72
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCGGGT
Found at i:17580 original size:43 final size:43
Alignment explanation
Indices: 17519--17620 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
17509 TCGGTTTTCA
17519 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
17562 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
17605 GCACTAA-TGTGCGGGC
1 GCACTAAGTGTGCGGGC
17621 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 9 0.15
43 50 0.85
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:17667 original size:27 final size:29
Alignment explanation
Indices: 17603--17673 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 29
17593 GTTGTGAGAT
*
17603 TGGCACTAA-TGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* *
17631 TTGCACTAAGTGTGCGAG-TTTAAAT-CA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
17658 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17674 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 17 0.45
28 14 0.37
29 7 0.18
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:18066 original size:36 final size:38
Alignment explanation
Indices: 17980--18119 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 38
17970 TCGAATGATG
* * * *
17980 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGC-GAGT-ACTAAA
*
18020 TCCGGACTAAGATCCGAAGGCATT-GTGCGAG-A-TAAA
1 TCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGTACTAAA
*
18056 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAG-TACTAAA
18095 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGT-CCGAAG-GCATT
18120 CATGCTAGTG
Statistics
Matches: 85, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
35 11 0.13
36 19 0.22
37 1 0.01
38 1 0.01
39 17 0.20
40 28 0.33
41 8 0.09
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTACTAAA
Found at i:18157 original size:36 final size:37
Alignment explanation
Indices: 18097--18203 Score: 144
Period size: 36 Copynumber: 2.8 Consensus size: 37
18087 TTACTAAATC
*
18097 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 CGGGCTAAGT-TCGAAGAGCATTCATGCTAGTGATGTA
*
18135 -GGGCTAAGTTCGAAGAGTATTCATGCTAGTGATGTA
1 CGGGCTAAGTTCGAAGAGCATTCATGCTAGTGATGTA
* *
18171 TCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 -CGGGCTAAGTT-CGAAGAGCATTCATGCTAGT
18204 ATATATCCGT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
36 25 0.41
37 9 0.15
38 9 0.15
39 18 0.30
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
CGGGCTAAGTTCGAAGAGCATTCATGCTAGTGATGTA
Found at i:21784 original size:46 final size:47
Alignment explanation
Indices: 21721--22005 Score: 415
Period size: 46 Copynumber: 6.1 Consensus size: 47
21711 ATATGAAATA
21721 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
21768 TGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATTATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA-TATATG
21817 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
21864 TGATAAGGCCTAATGGCCGATGTGAT-AATGTGAAAGTGTATATA-G
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
21909 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * * *
21955 TG-TGAA-GACGAGTGGCCAACGTGATGGATGTGAAA-TGTATA-ATG
1 TGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
21999 TGATAAG
1 TGATAAG
22006 TCCCGAAGGG
Statistics
Matches: 220, Mismatches: 8, Indels: 22
0.88 0.03 0.09
Matches are distributed among these distances:
44 27 0.12
45 31 0.14
46 73 0.33
47 41 0.19
48 4 0.02
49 14 0.06
50 30 0.14
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:21894 original size:96 final size:92
Alignment explanation
Indices: 21721--22005 Score: 409
Period size: 96 Copynumber: 3.1 Consensus size: 92
21711 ATATGAAATA
21721 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCG
21786 ATGTGATGAATGTGAAAGTGTATATTATATG
66 ATGTGATGAATGTGAAAGTG--TA-TATA-G
21817 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCC
21882 GATGTGAT-AATGTGAAAGTGTATATAG
65 GATGTGATGAATGTGAAAGTGTATATAG
* * * *
21909 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TGAAGACGAGTGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AAGGCTAATGGCC
* * *
21972 AACGTGATGGATGTGAAA-TGTATA-ATG
65 GATGTGATGAATGTGAAAGTGTATATA-G
21999 TGATAAG
1 TGATAAG
22006 TCCCGAAGGG
Statistics
Matches: 177, Mismatches: 7, Indels: 15
0.89 0.04 0.08
Matches are distributed among these distances:
89 1 0.01
90 25 0.14
91 56 0.32
92 5 0.03
93 4 0.02
94 2 0.01
96 67 0.38
97 17 0.10
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (92 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATAG
Found at i:22174 original size:37 final size:37
Alignment explanation
Indices: 22119--22196 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
22109 CCGAGCTCTA
* * *
22119 AAGA-CCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22155 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22192 AAGAC
1 AAGAC
22197 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:24117 original size:44 final size:44
Alignment explanation
Indices: 24031--24134 Score: 185
Period size: 44 Copynumber: 2.4 Consensus size: 44
24021 TCGGTTTTCA
24031 GCACTAA-TGTGCGGGCAATAAGTGTTCACGGTTGTGAAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAAGATTG
24074 GCACTAAGTGTGCGCGGCAATAAGTGTTCACGGTTGTG-AGATTG
1 GCACTAAGTGTGCG-GGCAATAAGTGTTCACGGTTGTGAAGATTG
24118 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
24135 TTGAATGCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
43 10 0.17
44 26 0.44
45 23 0.39
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (44 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAAGATTG
Found at i:24188 original size:29 final size:28
Alignment explanation
Indices: 24116--24188 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
24106 GTTGTGAGAT
* * *
24116 TGGCACTAAGTGTGCGGGCTTGAATGCA
1 TGGCACTAAGTGTGCGAGCTTAAATACA
* *
24144 TAGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTAAA-TACA
24173 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24189 TGGTGATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 20 0.53
29 18 0.47
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATACA
Found at i:24587 original size:39 final size:40
Alignment explanation
Indices: 24492--24634 Score: 161
Period size: 39 Copynumber: 3.6 Consensus size: 40
24482 TCGAATGATG
* *
24492 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-ATTAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
24530 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
24571 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24610 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
24635 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
39 53 0.59
40 29 0.32
41 8 0.09
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24669 original size:41 final size:39
Alignment explanation
Indices: 24609--24821 Score: 185
Period size: 41 Copynumber: 5.2 Consensus size: 39
24599 GAGTTACTAA
*
24609 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGT-TCGAAGAGCATTCATGCTAGTGATGT
*
24649 CATACCGGGCTAAGTTCGAAGAGTATTCATGCTAGTGATGT
1 -AT-CCGGGCTAAGTTCGAAGAGCATTCATGCTAGTGATGT
* *
24690 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAATAT
1 ATCCGGGCTAAGTT-CGAAGAGCATTCATGCTAGTG-ATGT
* *** * * * *
24731 ATCCGTGCTAAACCCCAGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCT-AAGTTC-GAAGAGCATTCATGCTAGTGATGT
* * *
24772 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCT-GTGACGTGT
1 ATCCGGGCTAAGT-TCGAAGAGCATTCATGCTAGTGA--TGT
*
24813 ATTCGGGCT
1 ATCCGGGCT
24822 TCGTGCCTAG
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
39 15 0.10
40 36 0.25
41 61 0.42
42 32 0.22
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGTTCGAAGAGCATTCATGCTAGTGATGT
Found at i:24694 original size:81 final size:82
Alignment explanation
Indices: 24609--24807 Score: 226
Period size: 82 Copynumber: 2.5 Consensus size: 82
24599 GAGTTACTAA
* ***
24609 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG-ATGTCATACCGGGCT-AAGTTC-GAAGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAATAT-AT-CCGGGCTAAACCCCAGAAGA
* *
24671 GTATTCATGCTAGTGATGT
64 GCATTCATGCTAGTGATAT
* * *
24690 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAATATATCCGTGCTAAACCCCAGAAGAGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAATATATCCGGGCTAAACCCCAGAAGAGC
* * *
24755 ATTCGTGCTGGTGTTAT
66 ATTCATGCTAGTGATAT
* *
24772 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCT-GTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
24808 CGTGTATTCG
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 6 0.06
81 43 0.43
82 50 0.51
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (82 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAATATATCCGGGCTAAACCCCAGAAGAGC
ATTCATGCTAGTGATAT
Found at i:24790 original size:82 final size:81
Alignment explanation
Indices: 24572--24807 Score: 228
Period size: 81 Copynumber: 2.9 Consensus size: 81
24562 GATACTAATT
* ** * * *
24572 CCGGGCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTC
1 CCGGGCTAACCCCGAAGAGCATTCATGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTC
*
24636 ATGCTAGTGATGTCATA
65 ATGCTAGTGATATCATA
*** * * * *
24653 CCGGGCTAAGTTCGAAGAGTATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCG
1 CCGGGCTAACCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
24718 TGCTAGTGA-AT-ATA
66 TGCTAGTGATATCATA
* * * * * *
24732 TCCGTGCTAAACCCCAGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAA
1 -CCGGGCT-AACCCC-GAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAT
24797 TCATGCT-GTGA
63 TCATGCTAGTGA
24808 CGTGTATTCG
Statistics
Matches: 126, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
79 3 0.02
80 7 0.06
81 58 0.46
82 58 0.46
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAACCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
TGCTAGTGATATCATA
Found at i:28405 original size:46 final size:47
Alignment explanation
Indices: 28347--28640 Score: 373
Period size: 46 Copynumber: 6.1 Consensus size: 47
28337 ATGATATGAT
*
28347 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
28393 TGATAAGGCCTAATGGCCGATGTGATGAACTGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAA-TGTGAAAGTG--TATATATG
*
28443 TGATAAGGCCAAATGG-CGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
28491 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
28538 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGGAA-TGTATATAGTG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TG
* * * * * * *
28584 CAGGATATGTCCGAGAGTGGCC-AAGTGATGGATGTGAAAGTGTATAAATG
1 --TGATAAGGCCTA-A-TGGCCGATGTGATGAATGTGAAAGTGTATATATG
28634 TGATAAG
1 TGATAAG
28641 TCCCGAAGGG
Statistics
Matches: 222, Mismatches: 14, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
45 8 0.04
46 60 0.27
47 22 0.10
48 43 0.19
49 38 0.17
50 39 0.18
51 12 0.05
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:28558 original size:95 final size:98
Alignment explanation
Indices: 28347--28580 Score: 376
Period size: 95 Copynumber: 2.5 Consensus size: 98
28337 ATGATATGAT
*
28347 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG---ATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
28409 CCGATGTGATGAACTGTGAAAGTGTATATATATG
66 CCGATGTGATGAACTGTGAAAGTG-ATATATATG
*
28443 TGATAAGGCCAAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
28507 CCGATGTGATGAA-TGTGAAAGTG-TATATATG
66 CCGATGTGATGAACTGTGAAAGTGATATATATG
*
28538 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGGAA-TGTATATA
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28581 GTGCAGGATA
Statistics
Matches: 130, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
94 18 0.14
95 51 0.39
96 15 0.12
97 10 0.08
98 36 0.28
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (98 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAACTGTGAAAGTGATATATATG
Done.