Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold4858.1
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: 42425
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:748 original size:76 final size:76
Alignment explanation
Indices: 616--756 Score: 203
Period size: 76 Copynumber: 1.9 Consensus size: 76
606 GTTAATTTTT
* * * *
616 AAGTTTTCTAATCAGATTAGGATTAGTTTGAGGCCTATATAAGTGATGGTCGGCCACCCCTTGTA
1 AAGTTTTCTAATCAGATTAGGATTAGTTGGAGGCCTATATAAGTCATGGCCAGCCACCCCTTGTA
681 CACACACTTAG
66 CACACACTTAG
* * *
692 AAGTTTTCTAATTAGATTAGGATTTGTTGGAGGCCTATATAAG-CATTGGCCAGCCACCCTTTGT
1 AAGTTTTCTAATCAGATTAGGATTAGTTGGAGGCCTATATAAGTCA-TGGCCAGCCACCCCTTGT
756 A
65 A
757 AACATCTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 1 0.02
76 56 0.98
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (76 bp):
AAGTTTTCTAATCAGATTAGGATTAGTTGGAGGCCTATATAAGTCATGGCCAGCCACCCCTTGTA
CACACACTTAG
Found at i:2170 original size:25 final size:25
Alignment explanation
Indices: 2136--2193 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
2126 GTTTAAAAAC
2136 GAGCTGAACATATTCAACTTCTTTG
1 GAGCTGAACATATTCAACTTCTTTG
2161 GAGCTGAACATATTCAACTTCTTTG
1 GAGCTGAACATATTCAACTTCTTTG
*
2186 AAGCTGAA
1 GAGCTGAA
2194 TTTCGTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (25 bp):
GAGCTGAACATATTCAACTTCTTTG
Found at i:3528 original size:12 final size:11
Alignment explanation
Indices: 3512--3552 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
3502 GTAGATTCAA
3512 AAAAAAAATCG
1 AAAAAAAATCG
3523 AAAAAAAATCG
1 AAAAAAAATCG
*
3534 AAAAAAAATTG
1 AAAAAAAATCG
3545 AAAAAAAA
1 AAAAAAAA
3553 ATTTTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:3551 original size:14 final size:14
Alignment explanation
Indices: 3534--3568 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3524 AAAAAAATCG
3534 AAAAAAAATTGAAA
1 AAAAAAAATTGAAA
**
3548 AAAAAATTTTGAAA
1 AAAAAAAATTGAAA
3562 AAAAAAA
1 AAAAAAA
3569 TTGCATACGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (14 bp):
AAAAAAAATTGAAA
Found at i:7135 original size:20 final size:20
Alignment explanation
Indices: 7112--7165 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
7102 AGTTTTTCCC
*
7112 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
7132 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
7152 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
7166 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:7147 original size:30 final size:30
Alignment explanation
Indices: 7112--7185 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
7102 AGTTTTTCCC
7112 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
7142 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
7172 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
7186 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:7175 original size:20 final size:20
Alignment explanation
Indices: 7112--7176 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
7102 AGTTTTTCCC
* * * *
7112 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
7132 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
7151 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
7172 AGCTC
1 AGCTC
7177 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:10652 original size:21 final size:21
Alignment explanation
Indices: 10612--10694 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
10602 AATCTTGAAT
*
10612 GAAATTGAGAGAAGAA-AAAAA
1 GAAA-TGAGAGAAAAAGAAAAA
10633 GAAATGAGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
* * *
10654 GAAAT-AAATGAAAATGAAAAT
1 GAAATGAGA-GAAAAAGAAAAA
* *
10675 GAGA-GTGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
10695 AGAATTTGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
20 22 0.44
21 28 0.56
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (21 bp):
GAAATGAGAGAAAAAGAAAAA
Found at i:10737 original size:27 final size:30
Alignment explanation
Indices: 10707--10763 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
10697 AATTTGAGAT
* *
10707 TGAGA-TTGAAAAAGAAAA-AGA-TGAAAA
1 TGAGATTTCAAAAACAAAAGAGAGTGAAAA
10734 TGAGATTTCAAAAACAAAAGAGAGTGAAAA
1 TGAGATTTCAAAAACAAAAGAGAGTGAAAA
10764 GTAAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 11 0.44
29 3 0.12
30 6 0.24
ACGTcount: A:0.60, C:0.04, G:0.21, T:0.16
Consensus pattern (30 bp):
TGAGATTTCAAAAACAAAAGAGAGTGAAAA
Found at i:10738 original size:33 final size:34
Alignment explanation
Indices: 10647--10740 Score: 104
Period size: 33 Copynumber: 2.8 Consensus size: 34
10637 TGAGAGAAAA
* *
10647 AGAAAAAGAAATAAATGAAAATGAAAATGAGAGTG
1 AGAAAAAGAAA-AAATGAAAATGAGATTGAGAGTG
**
10682 AGAAAAAGAAAAAA-GAATTTGAGATTGAGA-T-
1 AGAAAAAGAAAAAATGAAAATGAGATTGAGAGTG
*
10713 TGAAAAAGAAAAAGATGAAAATGAGATT
1 AGAAAAAGAAAAA-ATGAAAATGAGATT
10741 TCAAAAACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 12 0.24
32 2 0.04
33 22 0.44
34 3 0.06
35 11 0.22
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (34 bp):
AGAAAAAGAAAAAATGAAAATGAGATTGAGAGTG
Found at i:10783 original size:12 final size:12
Alignment explanation
Indices: 10766--10805 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
10756 AGTGAAAAGT
10766 AAAAAGAGATTG
1 AAAAAGAGATTG
*
10778 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
10790 AAAGAGAGCTTG
1 AAAAAGAGATTG
10802 AAAA
1 AAAA
10806 GAAATCAAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:19394 original size:77 final size:77
Alignment explanation
Indices: 19267--19420 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
19257 GTCGTTATAT
19267 CATTATGATCATTATCACCTTGACCAACCTTAGACATTTTCAAAAACCTACAAAATAAACACTCA
1 CATTATGATCATTATCACCTTGACCAACCTTAGACATTTTCAAAAACCTACAAAATAAACACTCA
19332 ACACTTAAAAAG
66 ACACTTAAAAAG
19344 CATTATGATCATTATCACCTTGACCAACCTTAGACATTTTCAAAAACCTACAAAATAAACACTCA
1 CATTATGATCATTATCACCTTGACCAACCTTAGACATTTTCAAAAACCTACAAAATAAACACTCA
19409 ACACTTAAAAAG
66 ACACTTAAAAAG
19421 AAAAGTTAGC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.26
Consensus pattern (77 bp):
CATTATGATCATTATCACCTTGACCAACCTTAGACATTTTCAAAAACCTACAAAATAAACACTCA
ACACTTAAAAAG
Found at i:21227 original size:299 final size:299
Alignment explanation
Indices: 20689--21286 Score: 1153
Period size: 299 Copynumber: 2.0 Consensus size: 299
20679 ATAAAGTCCT
20689 AGGAAGCCTTGAAATCGAGAAAGATTTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAT
1 AGGAAGCCTTGAAATCGAGAAAGATTTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAT
20754 GAAGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAAATTGTTAAAACTACT
66 GAAGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAAATTGTTAAAACTACT
*
20819 TCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACTCAACGAGAATTTCTACTCAGAAAAATC
131 TCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACTCAAAGAGAATTTCTACTCAGAAAAATC
20884 TAAAATTTTTAATGTAAAGTAATGTGTTTACAAGGGTGGCCGGCCATGCCTATTAATAGGCCTTC
196 TAAAATTTTTAATGTAAAGTAATGTGTTTACAAGGGTGGCCGGCCATGCCTATTAATAGGCCTTC
20949 AATCTATTTCCTAATCTCATTAGGAAAACTAAAAAAATC
261 AATCTATTTCCTAATCTCATTAGGAAAACTAAAAAAATC
20988 AGGAAGCCTTGAAATCGAGAAAGATTTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAT
1 AGGAAGCCTTGAAATCGAGAAAGATTTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAT
*
21053 GAAGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACTACT
66 GAAGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAAATTGTTAAAACTACT
21118 TCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACTCAAAGAGAATTTCTACTCA-AAAAAGT
131 TCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACTCAAAGAGAATTTCTACTCAGAAAAA-T
*
21182 CTGAAATTTTTAATGTAAAGTAATGTGTTTACAAGGGTGGCCGGCCATGCCTATTAATAGGCCTT
195 CTAAAATTTTTAATGTAAAGTAATGTGTTTACAAGGGTGGCCGGCCATGCCTATTAATAGGCCTT
21247 CAATCTATTTCCTAATCTCATTAGGAAAACTAAAAAAATC
260 CAATCTATTTCCTAATCTCATTAGGAAAACTAAAAAAATC
21287 TAATTAATTA
Statistics
Matches: 295, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
298 5 0.02
299 290 0.98
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (299 bp):
AGGAAGCCTTGAAATCGAGAAAGATTTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAT
GAAGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAAATTGTTAAAACTACT
TCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACTCAAAGAGAATTTCTACTCAGAAAAATC
TAAAATTTTTAATGTAAAGTAATGTGTTTACAAGGGTGGCCGGCCATGCCTATTAATAGGCCTTC
AATCTATTTCCTAATCTCATTAGGAAAACTAAAAAAATC
Found at i:25987 original size:22 final size:22
Alignment explanation
Indices: 25959--26002 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25949 TTTTGAACCA
25959 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
25981 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
26003 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:26332 original size:57 final size:56
Alignment explanation
Indices: 26238--26347 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 56
26228 TCGTATCACA
**
26238 AAGAGAATTGGATAGCTCACAATTCAAATATTTCATCTATATTCATCCAAAAGTTCT
1 AAGAGAATTGGATAGCTCACAATTCAAATATAACATCTATATTCA-CCAAAAGTTCT
*
26295 AAGAGAATTGGATAGCTCACAATTCAAATATAACATCTATATTCAGCAAAAGT
1 AAGAGAATTGGATAGCTCACAATTCAAATATAACATCTATATTCACCAAAAGT
26348 CCTCTCTCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
56 7 0.14
57 43 0.86
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (56 bp):
AAGAGAATTGGATAGCTCACAATTCAAATATAACATCTATATTCACCAAAAGTTCT
Found at i:26722 original size:61 final size:63
Alignment explanation
Indices: 26652--26776 Score: 236
Period size: 61 Copynumber: 2.0 Consensus size: 63
26642 AGTGGAAGAG
26652 TTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTCC-TTTAATGAT-TTTAAGC
1 TTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGC
26713 TTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGC
1 TTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGC
26776 T
1 T
26777 CCCTTTATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 45 0.73
62 9 0.15
63 8 0.13
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (63 bp):
TTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGC
Found at i:29322 original size:97 final size:97
Alignment explanation
Indices: 29156--29349 Score: 352
Period size: 97 Copynumber: 2.0 Consensus size: 97
29146 TAAATGTGTA
*
29156 AAACTAATCTAGAAATGTATCTTTAAAGGCTATGTCCAAATTCGGCTGAATGGAACTTCAATGGG
1 AAACTAATCTAGAAATGTATCTTTAAAGGCTATGTCCAAATTCAGCTGAATGGAACTTCAATGGG
29221 CAGCTTCATGGCTAAGGAAATAAACTTGAAGG
66 CAGCTTCATGGCTAAGGAAATAAACTTGAAGG
* *
29253 AAACTAATTTAGAAATGTATCTTTAAAGGCTATGTCCAAATTCAGCTGAATGGTACTTCAATGGG
1 AAACTAATCTAGAAATGTATCTTTAAAGGCTATGTCCAAATTCAGCTGAATGGAACTTCAATGGG
*
29318 CAGCTTCATGGCTAAGGAAATGAACTTGAAGG
66 CAGCTTCATGGCTAAGGAAATAAACTTGAAGG
29350 CTTGGTGAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
AAACTAATCTAGAAATGTATCTTTAAAGGCTATGTCCAAATTCAGCTGAATGGAACTTCAATGGG
CAGCTTCATGGCTAAGGAAATAAACTTGAAGG
Found at i:29889 original size:10 final size:10
Alignment explanation
Indices: 29876--29913 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
29866 TTGTAGCTAA
29876 ATTGAGCTCG
1 ATTGAGCTCG
29886 ATTGAGCT-G
1 ATTGAGCTCG
29895 ACTTGAGCTCG
1 A-TTGAGCTCG
*
29906 AGTGAGCT
1 ATTGAGCT
29914 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:29893 original size:20 final size:20
Alignment explanation
Indices: 29853--29913 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
29843 ACCAATAAAA
29853 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
29873 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
29893 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
29913 T
1 T
29914 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:29914 original size:20 final size:20
Alignment explanation
Indices: 29877--29914 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29867 TGTAGCTAAA
*
29877 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
29897 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
29915 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:32081 original size:20 final size:19
Alignment explanation
Indices: 32026--32070 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
32016 CATTTCATTG
*
32026 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
32047 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
32066 AGCTC
1 AGCTC
32071 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:37187 original size:128 final size:128
Alignment explanation
Indices: 37022--37275 Score: 499
Period size: 128 Copynumber: 2.0 Consensus size: 128
37012 CCACAATCAC
*
37022 AAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAAATCTTGGAGAAAACTCAAAGAAAA
1 AAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAAATCTTGAAGAAAACTCAAAGAAAA
37087 TTTTGCTCTCAACAAATCTGAAATTTTAATAATAATGATAAGTGTTTAACAAGGTGGACAGAA
66 TTTTGCTCTCAACAAATCTGAAATTTTAATAATAATGATAAGTGTTTAACAAGGTGGACAGAA
37150 AAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAAATCTTGAAGAAAACTCAAAGAAAA
1 AAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAAATCTTGAAGAAAACTCAAAGAAAA
37215 TTTTGCTCTCAACAAATCTGAAATTTTAATAATAATGATAAGTGTTTAACAAGGTGGACAG
66 TTTTGCTCTCAACAAATCTGAAATTTTAATAATAATGATAAGTGTTTAACAAGGTGGACAG
37276 CCATGCCTTT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (128 bp):
AAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAAATCTTGAAGAAAACTCAAAGAAAA
TTTTGCTCTCAACAAATCTGAAATTTTAATAATAATGATAAGTGTTTAACAAGGTGGACAGAA
Found at i:38441 original size:287 final size:287
Alignment explanation
Indices: 37925--38498 Score: 1148
Period size: 287 Copynumber: 2.0 Consensus size: 287
37915 AGTAATAAAT
37925 CAAATGGTAAACATAATCGTCACAAGTAGGTATTTGAAAAGATTCACATGGTTCACAGAGTTGCA
1 CAAATGGTAAACATAATCGTCACAAGTAGGTATTTGAAAAGATTCACATGGTTCACAGAGTTGCA
37990 TAATCATACCATGCATTAATCGACGGTCTATAGATTCACTCACACATGCATTATCAAAAACAAGA
66 TAATCATACCATGCATTAATCGACGGTCTATAGATTCACTCACACATGCATTATCAAAAACAAGA
38055 ATCTTTTTATCAACCATCAAAACAGATAGATCATCAATAAATAAAATAGGACAGTCAAGCACGTT
131 ATCTTTTTATCAACCATCAAAACAGATAGATCATCAATAAATAAAATAGGACAGTCAAGCACGTT
38120 TCGATCTAAGTGTTCATCAACACGATCTTTATCACTATCCGAGGAGTACAAAAGTGTTTCAAAGG
196 TCGATCTAAGTGTTCATCAACACGATCTTTATCACTATCCGAGGAGTACAAAAGTGTTTCAAAGG
38185 TTTCAAGCATCTTACCTCGATAAGCAG
261 TTTCAAGCATCTTACCTCGATAAGCAG
38212 CAAATGGTAAACATAATCGTCACAAGTAGGTATTTGAAAAGATTCACATGGTTCACAGAGTTGCA
1 CAAATGGTAAACATAATCGTCACAAGTAGGTATTTGAAAAGATTCACATGGTTCACAGAGTTGCA
38277 TAATCATACCATGCATTAATCGACGGTCTATAGATTCACTCACACATGCATTATCAAAAACAAGA
66 TAATCATACCATGCATTAATCGACGGTCTATAGATTCACTCACACATGCATTATCAAAAACAAGA
38342 ATCTTTTTATCAACCATCAAAACAGATAGATCATCAATAAATAAAATAGGACAGTCAAGCACGTT
131 ATCTTTTTATCAACCATCAAAACAGATAGATCATCAATAAATAAAATAGGACAGTCAAGCACGTT
38407 TCGATCTAAGTGTTCATCAACACGATCTTTATCACTATCCGAGGAGTACAAAAGTGTTTCAAAGG
196 TCGATCTAAGTGTTCATCAACACGATCTTTATCACTATCCGAGGAGTACAAAAGTGTTTCAAAGG
38472 TTTCAAGCATCTTACCTCGATAAGCAG
261 TTTCAAGCATCTTACCTCGATAAGCAG
38499 AAGAATAAGG
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
287 287 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (287 bp):
CAAATGGTAAACATAATCGTCACAAGTAGGTATTTGAAAAGATTCACATGGTTCACAGAGTTGCA
TAATCATACCATGCATTAATCGACGGTCTATAGATTCACTCACACATGCATTATCAAAAACAAGA
ATCTTTTTATCAACCATCAAAACAGATAGATCATCAATAAATAAAATAGGACAGTCAAGCACGTT
TCGATCTAAGTGTTCATCAACACGATCTTTATCACTATCCGAGGAGTACAAAAGTGTTTCAAAGG
TTTCAAGCATCTTACCTCGATAAGCAG
Done.