Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2226
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: 38869
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Found at i:713 original size:27 final size:26
Alignment explanation
Indices: 665--724 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
655 GCGAGGCTGC
*
665 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
692 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
718 CAGATAT
1 CAGATAT
725 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:808 original size:25 final size:26
Alignment explanation
Indices: 762--811 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
752 GCGAGGCTGC
*
762 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
788 CAGATA-TGTGGCGAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
812 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.34, C:0.22, G:0.28, T:0.16
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:8156 original size:32 final size:32
Alignment explanation
Indices: 8111--8173 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
8101 ACGAAGTCAC
* * *
8111 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTATGGCGAAGCCACCAGAA
* *
8143 CAGATATATATATTATGGCGAAGCCACCAGA
1 CAGATACAGATATTATGGCGAAGCCACCAGA
8174 TTGCAACGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (32 bp):
CAGATACAGATATTATGGCGAAGCCACCAGAA
Found at i:8237 original size:27 final size:26
Alignment explanation
Indices: 8189--8240 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
8179 ACGAGGCTGC
*
8189 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
8215 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
8241 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:8956 original size:54 final size:54
Alignment explanation
Indices: 8893--9007 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
8883 GGTGAAAAAT
8893 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
* * * * * *
8947 GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
9001 GGTAATT
1 GGTAATT
9008 CTACAACTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (54 bp):
GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:9008 original size:27 final size:27
Alignment explanation
Indices: 8893--9011 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
8883 GGTGAAAAAT
* * * *
8893 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
8920 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
8947 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
8974 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
9001 GGTAATTCTAC
1 GGTAATTCTAC
9012 AACTTATCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:15487 original size:30 final size:30
Alignment explanation
Indices: 15453--15512 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15443 ATTTAATATG
*
15453 AACTTTGGCA-AGATTACATTTTTGCCCCTA
1 AACTTTGGCATA-ATTACACTTTTGCCCCTA
*
15483 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCATAATTACACTTTTGCCCCTA
15513 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTTGGCATAATTACACTTTTGCCCCTA
Found at i:20541 original size:39 final size:39
Alignment explanation
Indices: 20483--20614 Score: 171
Period size: 39 Copynumber: 3.4 Consensus size: 39
20473 TGTTTTTGAG
*
20483 TATTGTGATATATGATTGAATGTTATGTGATTATATGAC
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAC
*
20522 TATTGTGATATATGCTTGAATGTTATGTGGTTATAT-AC
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAC
* * **
20560 ACATTGTGATATATGCTTAAATGTTATGT-A-TATATGTG
1 -TATTGTGATATATGCTTGAATGTTATGTGATTATATGAC
*
20598 TAATGTGATATATGCTT
1 TATTGTGATATATGCTT
20615 AAAAGTGAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
37 20 0.24
38 2 0.02
39 60 0.73
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (39 bp):
TATTGTGATATATGCTTGAATGTTATGTGATTATATGAC
Found at i:22933 original size:10 final size:10
Alignment explanation
Indices: 22920--22954 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
22910 AAAAAAAAAC
22920 TAAAAATATA
1 TAAAAATATA
22930 TAAAAATAT-
1 TAAAAATATA
22939 TAAAAATATTA
1 TAAAAATA-TA
22950 TAAAA
1 TAAAA
22955 TTAAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 10 0.43
11 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAAAATATA
Found at i:22970 original size:10 final size:9
Alignment explanation
Indices: 22920--22971 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
22910 AAAAAAAAAC
22920 TAAAAATAT
1 TAAAAATAT
22929 ATAAAAATAT
1 -TAAAAATAT
22939 TAAAAATAT
1 TAAAAATAT
*
22948 TATAAA-AT
1 TAAAAATAT
22956 T-AAAATAT
1 TAAAAATAT
22964 GTAAAAAT
1 -TAAAAAT
22972 TCAAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 3 0.08
8 5 0.14
9 15 0.41
10 14 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:22979 original size:25 final size:25
Alignment explanation
Indices: 22932--22979 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22922 AAAATATATA
* *
22932 AAAATATTAAAAATATTATAAAATT
1 AAAATATTAAAAATATCAAAAAATT
22957 AAAATATGTAAAAAT-TCAAAAAA
1 AAAATAT-TAAAAATATCAAAAAA
22980 ATTGTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAATATTAAAAATATCAAAAAATT
Found at i:25036 original size:22 final size:22
Alignment explanation
Indices: 25009--25050 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24999 AATTTAAAAC
*
25009 TAAAATTATTAATGAAATATTT
1 TAAAATGATTAATGAAATATTT
* *
25031 TAAAATGATTTATTAAATAT
1 TAAAATGATTAATGAAATAT
25051 AATTTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (22 bp):
TAAAATGATTAATGAAATATTT
Found at i:29634 original size:17 final size:18
Alignment explanation
Indices: 29612--29645 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29602 ATCTAGGTTT
29612 TGTGGG-CCACACGGGCG
1 TGTGGGACCACACGGGCG
*
29629 TGTGGGACCACATGGGC
1 TGTGGGACCACACGGGC
29646 CCGTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (18 bp):
TGTGGGACCACACGGGCG
Found at i:29791 original size:27 final size:27
Alignment explanation
Indices: 29761--29975 Score: 254
Period size: 27 Copynumber: 8.0 Consensus size: 27
29751 CCCCTAATCT
* *
29761 GTAAAATGACTGATTTGCCCATGTGTG
1 GTAAAATGACTGATTTGCCCTTATGTG
* * *
29788 GTAAAATGACAGTTTTGCCCATATGTG
1 GTAAAATGACTGATTTGCCCTTATGTG
* * *
29815 GTAAAATGACTGTTTTACCCATATGTG
1 GTAAAATGACTGATTTGCCCTTATGTG
*
29842 GTAAAATGACTGATTTTCCCTTATGTG
1 GTAAAATGACTGATTTGCCCTTATGTG
*
29869 GTAAAATGACT-ATTTTGCCTTTATGTG
1 GTAAAATGACTGA-TTTGCCCTTATGTG
* * * *
29896 GTAAAATGGCTGTTTTCCCCTTATGAG
1 GTAAAATGACTGATTTGCCCTTATGTG
*
29923 GTAAAATGACTG-TTTGCCCTTATATG
1 GTAAAATGACTGATTTGCCCTTATGTG
* *
29949 GTAAGATGACTGATATGCCCTTATGTG
1 GTAAAATGACTGATTTGCCCTTATGTG
29976 ATGTATGTTT
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.14
27 140 0.86
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (27 bp):
GTAAAATGACTGATTTGCCCTTATGTG
Found at i:32880 original size:42 final size:43
Alignment explanation
Indices: 32790--32972 Score: 269
Period size: 43 Copynumber: 4.3 Consensus size: 43
32780 TTAAAAAAAT
* *
32790 GCCGCTAAAGGTCACGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
32833 ACCGCTAGAGGTCAAGACCTTTAGCGACGC-TTTCCCACAAAC
1 GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
32875 GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
*** *
32918 GCCGCTAGAGGTCTTTACCTTTAGCGGCGGTTTTCCCACAAAC
1 GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
32961 GCTGCTAAAGGT
1 GCCGCTAGAGGT
32973 AATGAAATTT
Statistics
Matches: 127, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 40 0.31
43 87 0.69
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.22
Consensus pattern (43 bp):
GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:32938 original size:85 final size:86
Alignment explanation
Indices: 32790--32972 Score: 278
Period size: 85 Copynumber: 2.1 Consensus size: 86
32780 TTAAAAAAAT
*
32790 GCCGCTAAAGGTCACGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAGAGGTCAAGACCTTT
1 GCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAGAGGTCAAGACCTTT
32855 AGCGAC-GCTTTCCCACAAAC
66 AGCGACGGCTTTCCCACAAAC
* * ***
32875 GCCGCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAGAGGTCTTTACCTTT
1 GCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAGAGGTCAAGACCTTT
* *
32940 AGCGGCGGTTTTCCCACAAAC
66 AGCGACGGCTTTCCCACAAAC
*
32961 GCTGCTAAAGGT
1 GCCGCTAAAGGT
32973 AATGAAATTT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 64 0.74
86 23 0.26
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.22
Consensus pattern (86 bp):
GCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAGAGGTCAAGACCTTT
AGCGACGGCTTTCCCACAAAC
Found at i:34178 original size:138 final size:138
Alignment explanation
Indices: 34009--34280 Score: 465
Period size: 138 Copynumber: 2.0 Consensus size: 138
33999 TTTTAAAATT
34009 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
34074 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
34138 ATCCAGACG
130 ATCCAGACG
*
34147 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
34212 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAATAGGGACTCCACAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
34277 TCCA
131 TCCA
34281 TACATTATTA
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
137 1 0.01
138 125 0.99
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCCAGACG
Found at i:35918 original size:15 final size:15
Alignment explanation
Indices: 35899--35941 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
35889 TTAAATATTA
35899 AATTTTTAAGTTTTTT
1 AATTTTTAA-TTTTTT
*
35915 -ATTTTTTATTTTTT
1 AATTTTTAATTTTTT
35929 AATTTTTAATTTT
1 AATTTTTAATTTT
35942 AAAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:35943 original size:6 final size:7
Alignment explanation
Indices: 35899--35941 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
35889 TTAAATATTA
35899 AATTTTT
1 AATTTTT
35906 AAGTTTTTT
1 AA--TTTTT
*
35915 ATTTTTT
1 AATTTTT
*
35922 ATTTTTT
1 AATTTTT
35929 AATTTTT
1 AATTTTT
35936 AATTTT
1 AATTTT
35942 AAAATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 26 0.81
9 6 0.19
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
AATTTTT
Found at i:36564 original size:14 final size:15
Alignment explanation
Indices: 36532--36573 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
36522 ATTACTCTTA
*
36532 CATAA-CCATAAA-T
1 CATAATCCATAAACC
36545 CATAATCC-TAAACC
1 CATAATCCATAAACC
36559 CATAATCCATAAACC
1 CATAATCCATAAACC
36574 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 9 0.36
14 10 0.40
15 6 0.24
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:36610 original size:7 final size:7
Alignment explanation
Indices: 36598--36623 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36588 TCATACACTT
36598 TAAACCC
1 TAAACCC
36605 TAAACCC
1 TAAACCC
36612 TAAACCC
1 TAAACCC
36619 TAAAC
1 TAAAC
36624 TATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:36800 original size:14 final size:14
Alignment explanation
Indices: 36776--36816 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
36766 AGGCCCTGAA
*
36776 CCATGAACCCCTCAC
1 CCAT-AACCCCTAAC
*
36791 CCTTAACCCCTAAC
1 CCATAACCCCTAAC
36805 CCATAACCCCTA
1 CCATAACCCCTA
36817 TGTAACACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.29, C:0.51, G:0.02, T:0.17
Consensus pattern (14 bp):
CCATAACCCCTAAC
Found at i:38487 original size:170 final size:168
Alignment explanation
Indices: 38186--38503 Score: 448
Period size: 170 Copynumber: 1.9 Consensus size: 168
38176 AACTCAAGGT
* *
38186 ACTTACCTTTCCGCTGTCCAAATTGACTCGGTAAAGTCGCACCCTTCATGAAATAATTTATAGAA
1 ACTTACCTTTCCGCTGTCCAAATCGACTCGGTAAAGTCGCACCCTTAATGAAATAATTTATAGAA
* *
38251 ATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCAGCACAACTTAGTGCCAGCACTTTA
66 ATATATACTGGGTTGCACACATAATGCTTAATAATCAACCAGCACAACTTAGTGCCAGCACTTTA
38316 AACTCACACAC-TAGTGCCATGCATTTCAAGTTCGCAC
131 AACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
38353 ACTTACCTTTTCGCTGTCCAAAATCGACTCGGTAAAGTCGCA-CCTTAATGTAAATAATTTATAG
1 ACTTACCTTTCCGCTGTCC-AAATCGACTCGGTAAAGTCGCACCCTTAATG-AAATAATTTATAG
* * *
38417 AAAATAATATA-TTGGTTCGCACACATAGTGCTTAATAATCAACC-GCGCACACTTAGTG-CATG
64 -AAAT-ATATACTGGGTT-GCACACATAATGCTTAATAATCAACCAGCACA-ACTTAGTGCCA-G
* *
38479 TACTTTAAACTCGCACACTTAGTGC
124 CACTTTAAACTCACACACTTAGTGC
38504 TGTACAATTT
Statistics
Matches: 133, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
167 25 0.19
168 34 0.26
169 15 0.11
170 53 0.40
171 6 0.05
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (168 bp):
ACTTACCTTTCCGCTGTCCAAATCGACTCGGTAAAGTCGCACCCTTAATGAAATAATTTATAGAA
ATATATACTGGGTTGCACACATAATGCTTAATAATCAACCAGCACAACTTAGTGCCAGCACTTTA
AACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38493 original size:28 final size:27
Alignment explanation
Indices: 38457--38531 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 27
38447 CTTAATAATC
38457 AACCGCGCACACTTAGTGCATGTAC-TTT
1 AACC-CGCACACTTAGTGC-TGTACATTT
*
38485 AAACTCGCACACTTAGTGCTGTACAATTT
1 -AACCCGCACACTTAGTGCTGTAC-ATTT
38514 AACCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
38532 CAATCTCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
28 31 0.74
29 6 0.14
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
AACCCGCACACTTAGTGCTGTACATTT
Done.