Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1864
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: 15362
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Found at i:3846 original size:13 final size:13
Alignment explanation
Indices: 3828--3852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3818 CAAAGATCAG
3828 TGTATCGATACAA
1 TGTATCGATACAA
3841 TGTATCGATACA
1 TGTATCGATACA
3853 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3955 original size:20 final size:19
Alignment explanation
Indices: 3895--3965 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
3885 TAGCTTAAAT
3895 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
3914 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
3933 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
3953 TGTATCGATACAA
1 TGTATCGATACAA
3966 GTCATTGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 34 0.68
20 16 0.32
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:4710 original size:48 final size:49
Alignment explanation
Indices: 4637--5054 Score: 440
Period size: 48 Copynumber: 8.6 Consensus size: 49
4627 CAGTTAGACT
* * * * *
4637 TGAAGGTGACAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
* * * * *
4686 -CAAGGTGCCAATACGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
* * * *
4734 T-AAGGTACCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
* * *
4782 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
* * *
4831 TGCCAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
1 TG---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
*
4883 TGAA-GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
* * * *
4925 TGAAGGTGCCAATGTGCTGATTCTAGGCCGGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
* * * **
4974 TGAAGGTACCAATGTGCTGATTCAAGGCCAACTATATTGGGTTTAAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAGA
* * *
5024 TAAAGGCGCCAATATGCTGGTTCAAGGCCAG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAG
5055 TGATATCAGA
Statistics
Matches: 309, Mismatches: 47, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
42 4 0.01
43 34 0.11
44 1 0.00
47 1 0.00
48 114 0.37
49 81 0.26
50 30 0.10
52 44 0.14
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
Found at i:4903 original size:149 final size:140
Alignment explanation
Indices: 4546--5054 Score: 493
Period size: 149 Copynumber: 3.5 Consensus size: 140
4536 GATAAAAAGA
* * * * * *
4546 CCAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGTCAATATGCT
1 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGAT------AAGG-TGCCAATGTGCT
* * * * * *
4611 GATTCACGGTCAGCAACAGTTAGACTTGAAGGTGACAATGTGCTGATTCAAGGCCAGCGACATTG
59 GATTCAAGGCCAGCTACA-TTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTG
* *
4676 GTCTTAAAG-ACAAGGTG
123 GACTTAAAGTGCAAGGTG
* * * * *
4693 CCAATACGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTAAGGTACCAATGTACTGATTCAA
1 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATAAGGTGCCAATGTGCTGATTCAA
* * *
4758 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGA
66 GGCCAGCTACATTGGAC-T-----TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGA
*
4823 CTTAAAGGTGCCAAAGGCG
125 CTTAAA-GTG-C-AAGGTG
*
4842 CCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCA
1 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGAT-AAGGTGCCAATGTGCTGATTCA
* * * *
4906 AGGCCAGCTATATTGGACTTGAAGGTGCCAATGTGCTGATTCTAGGCCGGCTACATTGGACTTAA
65 AGGCCAGCTACATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAA
*
4971 AGATG-AAGGTA
130 AG-TGCAAGGTG
* * * * * *
4982 CCAATGTGCTGATTCAAGGCCAACTATATTGGGTTTAAAAGATAAAGGCGCCAATATGCTGGTTC
1 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-AAAGAT-AAGGTGCCAATGTGCTGATTC
5047 AAGGCCAG
64 AAGGCCAG
5055 TGATATCAGA
Statistics
Matches: 304, Mismatches: 44, Indels: 33
0.80 0.12 0.09
Matches are distributed among these distances:
139 5 0.02
140 60 0.20
141 12 0.04
142 24 0.08
143 43 0.14
145 41 0.13
146 1 0.00
147 37 0.12
148 2 0.01
149 77 0.25
150 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (140 bp):
CCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATAAGGTGCCAATGTGCTGATTCAA
GGCCAGCTACATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAA
GTGCAAGGTG
Found at i:5003 original size:192 final size:192
Alignment explanation
Indices: 4646--5053 Score: 527
Period size: 192 Copynumber: 2.1 Consensus size: 192
4636 TTGAAGGTGA
* * *
4646 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATACGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAGGTGCCAATACGCTGATTCAAG
*
4711 GCCAGCGATATTGGGCTTAAAGGTAAGGTACCAATGTACTGATTCAAGGCCAGCTACATTGGACT
66 GCCAGCGATATTGGACTT--A-GTAAGGTACCAATGTACTGATTCAAGGCCAGCTACATTGGACT
* * *
4776 TAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTT-AAAGGTGCCAAAGG
128 TAAAGATGAAGGTACCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAAGAT---AAAGG
4840 CGC
190 CGC
* * **
4843 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-CAAGGTGCCAATACGCTGATTCAA
* * * * *
4907 GGCCAGCTATATTGGACTT-G-AAGGTGCCAATGTGCTGATTCTAGGCCGGCTACATTGGACTTA
65 GGCCAGCGATATTGGACTTAGTAAGGTACCAATGTACTGATTCAAGGCCAGCTACATTGGACTTA
* * * **
4970 AAGATGAAGGTACCAATGTGCTGATTCAAGGCCAACTATATTGGGTTTAAAAGATAAAGGCGC
130 AAGATGAAGGTACCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAAGATAAAGGCGC
*
5033 CAATATGCTGGTTCAAGGCCA
1 CAATATGCTGATTCAAGGCCA
5054 GTGATATCAG
Statistics
Matches: 187, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
190 28 0.15
192 80 0.43
193 6 0.03
197 71 0.38
198 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (192 bp):
CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAGGTGCCAATACGCTGATTCAAG
GCCAGCGATATTGGACTTAGTAAGGTACCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAA
AGATGAAGGTACCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAAGATAAAGGCGC
Found at i:5147 original size:28 final size:28
Alignment explanation
Indices: 5090--5778 Score: 251
Period size: 29 Copynumber: 23.6 Consensus size: 28
5080 CACCAACTTG
5090 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-AACT
* * *
5119 TGTGTGCTTTTAAAGGCTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* *
5147 TATGGGCTTTTAAAGATTGCCACTAACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
*
5175 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
*
5203 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCCACTAACT
* * * ** *
5233 TGTGGG-TTTAAAAGGAAAAAGAGTGCTACGGAGT
1 TGTGGGCTTTTAAA-G-----G-TTGCCACTAACT
* * ** *
5267 TGTGAGCTTACAAAATAAAAAGAG-TGCCACGGAGT
1 TGTGGGCTT------T-TAAAG-GTTGCCACTAACT
* * * * **
5302 TGTGGACTTTGGAAAAGATGCCACCGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
** *
5331 TGTGGGCTTCGAAAAAAGG-TGCCACTAATT
1 TGTGGGCTT---TTAAAGGTTGCCACTAACT
* *
5361 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* * * * *
5388 TGTGGACTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
* * * * *
5417 TGTGAGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
* * * *
5446 TGTGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
* * * *
5475 TGTGGGCTTTGAAAAAGGGTGCCACTGATT
1 TGTGGGCTTT--TAAAGGTTGCCACTAACT
* *
5505 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* * * * *
5532 TGTGGACTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
* * * * *
5561 TATGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
* * * *
5590 TGTGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
* * * *
5619 TGTGGGCTTTGAAAAAGGGTGCCACTGATT
1 TGTGGGCTTT--TAAAGGTTGCCACTAACT
* *
5649 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* * * *
5676 TGTGGACTTTGAAAAAAGATGCCACTAACT
1 TGTGGGCTTT--TAAAGGTTGCCACTAACT
* * * * *
5706 TGTGAGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* * * *
5734 TGTGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTAACT
5763 TGTGGGCTTTTAAAGG
1 TGTGGGCTTTTAAAGG
5779 GTGAGGAATT
Statistics
Matches: 541, Mismatches: 85, Indels: 69
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.01
27 60 0.11
28 106 0.20
29 225 0.42
30 101 0.19
31 4 0.01
33 1 0.00
34 13 0.02
35 19 0.04
37 2 0.00
41 2 0.00
42 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCCACTAACT
Found at i:5184 original size:56 final size:57
Alignment explanation
Indices: 5115--5778 Score: 351
Period size: 58 Copynumber: 11.4 Consensus size: 57
5105 GGTTTGCATC
* *
5115 AACTTGTGTGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTT-AAAGATTGCCACT
1 AACTTGTGGGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAGTGCCACT
* * *
5171 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACT
1 AACTTGTGGGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTT-AAAAGAGTGCCACT
* * * * * * * *
5229 AACTTGTGGG-TTTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAGCTTACAAAATAAAAAGAGTG
1 AACTTGTGGGCTTTTAAA-G-----G-CTGCCACTGACTTATGGGCTT------TTAAAAGAGTG
*
5293 CCACG
53 CCACT
* * * * * * * * ** *
5298 GAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGAAAAAAGGTGCCACT
1 AACTTGTGGGCTTT-TAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGA-GTGCCACT
* * * * * *
5357 AATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAA-AGATGCCACT
1 AACTTGTGGGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAG-TGCCACT
* * * * * * *
5413 GACTTGTGAGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-AGATGCCACT
1 AACTTGTGGGCTTT-TAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAG-TGCCACT
* * * * * *
5471 GACTTGTGGGCTTTGAAAAAGGGTGCCACTGATTTGTGGGC-TTT-GAAG-GTTGCCACT
1 AACTTGTGGGCTTT--TAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAG-TGCCACT
* * * * * *
5528 GACTTGTGGACTTTGAAAAAGATGCCACTGACTTATGGGCTTTGAAAA-AGATGCCACT
1 AACTTGTGGGCTTT-TAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAG-TGCCACT
* * * * * * *
5586 GACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACT
1 AACTTGTGGGCTTT-TAAAGGCTGCCACTGACTTATGGGCTTT-TAAAAGAGTGCCACT
* * * * * * * *
5645 GATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAAGATGCCACT
1 AACTTGTGGGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAG-TGCCACT
* * * * * *
5702 AACTTGTGAGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-AGATGCCACT
1 AACTTGTGGGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAG-TGCCACT
*
5759 GACTTGTGGGCTTTTAAAGG
1 AACTTGTGGGCTTTTAAAGG
5779 GTGAGGAATT
Statistics
Matches: 490, Mismatches: 88, Indels: 59
0.77 0.14 0.09
Matches are distributed among these distances:
55 1 0.00
56 82 0.17
57 123 0.25
58 165 0.34
59 58 0.12
60 1 0.00
63 1 0.00
64 32 0.07
65 1 0.00
69 19 0.04
70 4 0.01
71 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (57 bp):
AACTTGTGGGCTTTTAAAGGCTGCCACTGACTTATGGGCTTTTAAAAGAGTGCCACT
Found at i:5270 original size:34 final size:35
Alignment explanation
Indices: 5232--5306 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
5222 TGCCACTAAC
* * *
5232 TTGTGGGTTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
* *
5266 TTGTGAGCTTACAAAATAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
5301 TTGTGG
1 TTGTGG
5307 ACTTTGGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 9 0.26
35 25 0.74
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (35 bp):
TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:5333 original size:29 final size:29
Alignment explanation
Indices: 5283--5772 Score: 652
Period size: 29 Copynumber: 17.0 Consensus size: 29
5273 CTTACAAAAT
* * *
5283 AAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 AAAAAGA-TGCCACTGACTTGTGGGCTTTG
* * *
5313 GAAAAGATGCCACCGACTTGTGGGCTTCG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
* * *
5342 AAAAAAGGTGCCACTAATTTGTGGGCTTTG
1 -AAAAAGATGCCACTGACTTGTGGGCTTTG
* * *
5372 --AAGGTTGCCACTGACTTGTGGACTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
*
5399 AAAAAGATGCCACTGACTTGTGAGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
5428 AAAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
5457 AAAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
* *
5486 AAAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAA-GATGCCACTGACTTGTGGGCTTTG
* * *
5516 --AAGGTTGCCACTGACTTGTGGACTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
*
5543 AAAAAGATGCCACTGACTTATGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
5572 AAAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
5601 AAAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
* *
5630 AAAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAA-GATGCCACTGACTTGTGGGCTTTG
* * *
5660 --AAGGTTGCCACTGACTTGTGGACTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
* *
5687 AAAAAAGATGCCACTAACTTGTGAGCTTTG
1 -AAAAAGATGCCACTGACTTGTGGGCTTTG
5717 -AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
5745 AAAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAAGATGCCACTGACTTGTGGGCTTT
5773 TAAAGGGTGA
Statistics
Matches: 404, Mismatches: 45, Indels: 23
0.86 0.10 0.05
Matches are distributed among these distances:
27 64 0.16
28 30 0.07
29 215 0.53
30 95 0.24
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
AAAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:5525 original size:115 final size:114
Alignment explanation
Indices: 5115--5772 Score: 625
Period size: 115 Copynumber: 5.6 Consensus size: 114
5105 GGTTTGCATC
* * * * * * *
5115 AACTTGTGTGCTTTTAAAGGCTGCCACTGACTTATGGGCTTT-TAAAGATTGCCACTAACTTGTG
1 AACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGT-
* * * * *
5179 GGCTTT-TAAAGGTTGCCACTGACTTGTGGGCTTTTG-AAAAGGGTGCCACT
64 GGCTTTGAAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAAAGATGCCACT
* * * * *
5229 AACTTGTGGG-TTTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAGCTTACAAAATAAAAAGAGTG
1 AACTTGTGGGCTTT-----G-AAAAGA-TGCCACTGACTTGTGGGCTT------TGAAAAGA-TG
* * * * * *
5293 CCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGAAAAAAGGTGCCACT
52 CCACTGACTTGTGG-CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCACT
* * * *
5357 AATTTGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTG
1 AACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG-AAAAGATGCCACTGACTTGTG
5421 AGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTG-AAAAAGATGCCACT
65 -GCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCACT
* * * * *
5471 GACTTGTGGGCTTTGAAAAAGGGTGCCACTGATTTGTGGGCTTTG-AAGGTTGCCACTGACTTGT
1 AACTTGTGGGCTTTG-AAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGT
*
5535 GGACTTTGAAAAAGATGCCACTGACTTATGGGCTTTG-AAAAAGATGCCACT
64 GG-CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCACT
* * *
5586 GACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTGATTTG
1 AACTTGTGGGCTTTG-AAAAGATGCCACTGACTTGTGGGCTTTG-AAAA-GATGCCACTGACTTG
* * *
5651 TGGGCTTTG--AAGGTTGCCACTGACTTGTGGACTTTGAAAAAAGATGCCACT
63 T-GGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCACT
*
5702 AACTTGTGAGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTG
1 AACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG-AAAAGATGCCACTGACTTGT-
5767 GGCTTT
64 GGCTTT
5773 TAAAGGGTGA
Statistics
Matches: 458, Mismatches: 57, Indels: 58
0.80 0.10 0.10
Matches are distributed among these distances:
113 3 0.01
114 79 0.17
115 186 0.41
116 38 0.08
117 40 0.09
118 2 0.00
119 4 0.01
120 15 0.03
121 15 0.03
122 3 0.01
124 1 0.00
126 3 0.01
127 23 0.05
128 43 0.09
129 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (114 bp):
AACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGG
CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCACT
Found at i:5551 original size:144 final size:144
Alignment explanation
Indices: 5136--5772 Score: 856
Period size: 144 Copynumber: 4.3 Consensus size: 144
5126 TTTTAAAGGC
* * * * *
5136 TGCCACTGACTTATGGGCTTT--TAAAGATTGCCACTAACTTGTGGGCTTT--TAAAGGTTGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
* * * * *
5197 CTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGG-GTTTAAAAGGAAAAAGAGTGCTA
65 CTGATTTGTGGGC-TTTG--AAGGTTGCCACTGACTTGTGGACTTT-----GAAAAAGA-TGCCA
* *
5261 CGGAGTTGTGAGCTTACAAAAT-AAAAAGA
121 CTGACTTGTGAGCTT------TGAAAAAGA
* * * * * * *
5290 GTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGAAAAAAGGTGCCA
1 -TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
*
5355 CTAATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGT
65 CTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGT
5420 GAGCTTTGAAAAAGA
130 GAGCTTTGAAAAAGA
5435 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCAC
*
5500 TGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTATG
66 TGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTG
*
5565 GGCTTTGAAAAAGA
131 AGCTTTGAAAAAGA
5579 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCAC
*
5644 TGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAAGATGCCACTAACTTGT
66 TGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTG-AAAAAGATGCCACTGACTTGT
5709 GAGCTTTG-AAAAGA
130 GAGCTTTGAAAAAGA
5723 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTT
1 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTT
5773 TAAAGGGTGA
Statistics
Matches: 443, Mismatches: 32, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
144 299 0.67
145 33 0.07
150 17 0.04
151 8 0.02
155 36 0.08
156 21 0.05
157 9 0.02
158 20 0.05
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (144 bp):
TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCAC
TGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTG
AGCTTTGAAAAAGA
Done.