Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 189 of 189
Found at i:56413218 original size:385 final size:389
Alignment explanation
Indices: 56412418--56413395 Score: 1428
Period size: 385 Copynumber: 2.5 Consensus size: 389
56412408 ACCTTTCCTA
* * * * * *
56412418 GCAGTATAGTGGAGCAGATTAAAGCTACGATGGTGAATCTTGCTTCCTTGGTATTGTAATTAAAT
1 GCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTAAAA
* * *
56412483 AGATTGAAGCCGCAACAGAAAATCTTACTTTCCTGGCGATGTAGTGGATCAGATTGAAGCTACAA
66 AGATTGAAGCCGCAACGGAGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAA
* *
56412548 CGGCGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTGAAGCCACAACGGCAAATCTCACTTT
131 CGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC-TT
*
56412613 CCTGGGAGTACAGTGGAGTAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTAGTATTGCAATT
195 CC-----G--CA-TGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTAGTATTGCAATT
* * * *
56412678 AAAAGGATTGAAGCCGCAACGGCGAATCTTTCTTTCCTGGCGATGAAGTGGATCAGATTGAAGCT
252 AAAAAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCAATGAAGTGGATCAGATTGAAGCT
* * **
56412743 ACAACGACGAATTTTGTTCCCTGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCA
317 ACAACGACGAATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCA
56412808 CTTCCCTG
382 CTTCCCTG
* * *
56412816 GCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCTTGCTTCCCTGGTACTGCAATTAAAA
1 GCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTAAAA
* *
56412881 AGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGAAGCTACAA
66 AGATTGAAGCCGCAACGGAGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAA
*
56412946 CGGTGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTC
131 CGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTC
* * *
56413011 C-C-T-G-GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGTAATTAAAAAGATT
196 CGCATGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTAGTATTGCAATTAAAAAGATT
* *
56413072 GAAGCCGCAACGGCAAATCTTACTTTCCTGGCAATGCAGTGGATCAGATTGAAGCTACAACGGCG
261 GAAGCCGCAACGGCAAATCTTACTTTCCTGGCAATGAAGTGGATCAGATTGAAGCTACAACGACG
*
56413137 AATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCGCAACGGCGAATCTCACTTCCCTG
326 AATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTG
* ** *
56413201 GTAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 GCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTAAAA
* * * *
56413266 AGATTGAAGCCGCAACGGTGAATCTTAC-TTCCTTGGTGGTGCAGTCGGA-CTGATTGAAGCTAC
66 AGATTGAAGCCGCAACGGAGAATCTTACTTTCC-TGGCGATGCAGT-GGATCAGATTGAAGCTAC
* * *
56413329 AACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTAAAGCCACAACGGTGAATCTCACT
129 AACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACT
56413394 TC
194 TC
56413396 TCCCTAAGCA
Statistics
Matches: 530, Mismatches: 48, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
384 4 0.01
385 341 0.64
386 4 0.01
387 1 0.00
389 1 0.00
397 4 0.01
398 175 0.33
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (389 bp):
GCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTAAAA
AGATTGAAGCCGCAACGGAGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAA
CGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTC
CGCATGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTAGTATTGCAATTAAAAAGATT
GAAGCCGCAACGGCAAATCTTACTTTCCTGGCAATGAAGTGGATCAGATTGAAGCTACAACGACG
AATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTG
Found at i:56413395 original size:99 final size:99
Alignment explanation
Indices: 56413015--56413395 Score: 453
Period size: 99 Copynumber: 3.8 Consensus size: 99
56413005 CACTTCCCTG
* **** *
56413015 GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGTAATTAAAAAGATTGAAGCCGC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGC
* * * *
56413080 AACGGCAAATCTTACTTTCCTGGCAATGCAGTGGA
66 AACGGCGAATCTCAC-TTCCTGGTAGTGCAGTGGA
* * * *
56413115 TCAGATTGAAGCTACAACGGCGAATCTT-ATTCCCCAACATTGCAATTAAAGAGATTGAAGCCGC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGC
*
56413179 AACGGCGAATCTCACTTCCCTGGTAGTACAGTGGA
66 AACGGCGAATCTCACTT-CCTGGTAGTGCAGTGGA
* * * *
56413214 GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAAAGATTGAAGCCGC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGC
* * *
56413279 AACGGTGAATCTTACTTCCTTGGTGGTGCAGTCGGA
66 AACGGCGAATCTCACTTCC-TGGTAGTGCAGT-GGA
* * * * *
56413315 -CTGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTAAAGCCAC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGC
*
56413378 AACGGTGAATCTCACTTC
66 AACGGCGAATCTCACTTC
56413396 TCCCTAAGCA
Statistics
Matches: 240, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
98 2 0.01
99 129 0.54
100 106 0.44
101 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (99 bp):
GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGC
AACGGCGAATCTCACTTCCTGGTAGTGCAGTGGA
Found at i:56413496 original size:44 final size:44
Alignment explanation
Indices: 56413448--56413586 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
56413438 CCTAAGCAGT
*
56413448 AGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
1 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
* ** * * * * ** *
56413492 AGTGGAGCGGA-TTAA-AACCACAGATCTTATCTCTCT-AAGCAGT
1 AGTGGAGCAGACGAAAGAAAC-CA-ATCCTATCTCCCTGGAGTTGC
56413535 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
1 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
*
56413579 ACTGGAGC
1 AGTGGAGC
56413587 GGATTAAAAC
Statistics
Matches: 68, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
42 3 0.04
43 28 0.41
44 34 0.50
45 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (44 bp):
AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
Found at i:56413549 original size:87 final size:87
Alignment explanation
Indices: 56413429--56413605 Score: 311
Period size: 87 Copynumber: 2.0 Consensus size: 87
56413419 TCACATCCAG
*
56413429 TCTTATCTTCCTAAGCAGTAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAG
1 TCTTATCTTCCTAAGCAGTAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAC
*
56413494 TGGAGCGGATTAAAACCACAGA
66 TGGAGCGGATTAAAACCACAAA
*
56413516 TCTTATC-TCTCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCA
1 TCTTATCTTC-CTAAGCAGTAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCA
56413580 CTGGAGCGGATTAAAACCACAAA
65 CTGGAGCGGATTAAAACCACAAA
56413603 TCT
1 TCT
56413606 CATCCCCTGA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
86 2 0.02
87 84 0.98
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (87 bp):
TCTTATCTTCCTAAGCAGTAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAC
TGGAGCGGATTAAAACCACAAA
Found at i:56413566 original size:43 final size:43
Alignment explanation
Indices: 56413394--56413570 Score: 132
Period size: 43 Copynumber: 4.2 Consensus size: 43
56413384 GAATCTCACT
* * * *
56413394 TCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCCAGTCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAATCCTA
* *
56413434 TCTTCCTAAGCAGTAGTGGAGAAGACGAAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
* ** * * ** * *
56413477 TCTCCCTGGAGTTGCAGTGGAGCGGA-TTAA-AACCACAGATCTTA
1 TCTCCCT-AAGCAGTAGTGGAGCAGACGAAAGAAAC-CA-ATCCTA
*
56413521 TCTCTCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
56413564 TCTCCCT
1 TCTCCCT
56413571 GGAGTTGCAC
Statistics
Matches: 100, Mismatches: 28, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.01
40 23 0.23
42 4 0.04
43 42 0.42
44 27 0.27
45 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
Found at i:56413626 original size:87 final size:87
Alignment explanation
Indices: 56413433--56413627 Score: 286
Period size: 87 Copynumber: 2.2 Consensus size: 87
56413423 ATCCAGTCTT
* * *
56413433 ATCTTCCTAAGCAGTAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAGTGGA
1 ATCTCCCTAAGCAGCAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCACTGGA
* *
56413498 GCGGATTAAAACCACAGATCTT
66 GCGGATTAAAACCACAAATCTC
* * *
56413520 ATCTCTCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCACTGGA
1 ATCTCCCTAAGCAGCAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCACTGGA
56413585 GCGGATTAAAACCACAAATCTC
66 GCGGATTAAAACCACAAATCTC
56413607 ATC-CCCTGAAGGCA-CAGTGGA
1 ATCTCCCT-AA-GCAGCAGTGGA
56413628 CTTGAATGAA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 3 0.03
87 92 0.94
88 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.21
Consensus pattern (87 bp):
ATCTCCCTAAGCAGCAGTGGAGAAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCACTGGA
GCGGATTAAAACCACAAATCTC
Found at i:56429125 original size:29 final size:30
Alignment explanation
Indices: 56429070--56429126 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56429060 TTTCCGAGCC
56429070 TTGGGGAAAAAATGTAATTATGTAAAAATT
1 TTGGGGAAAAAATGTAATTATGTAAAAATT
* * *
56429100 TTGGGGCAAAATTGTAATTTTG-AAAAA
1 TTGGGGAAAAAATGTAATTATGTAAAAA
56429127 GTTAGAGTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (30 bp):
TTGGGGAAAAAATGTAATTATGTAAAAATT
Found at i:56429596 original size:50 final size:50
Alignment explanation
Indices: 56429467--56429712 Score: 366
Period size: 50 Copynumber: 4.8 Consensus size: 50
56429457 ATTTGGGTAA
56429467 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT--G
56429519 AGGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 A-GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
56429570 AGAGGTCCCATGTAAGACCTTGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
56429620 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
56429670 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
56429713 TGTTATTATC
Statistics
Matches: 177, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
50 92 0.52
51 36 0.20
52 1 0.01
53 48 0.27
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:56434952 original size:15 final size:15
Alignment explanation
Indices: 56434932--56434965 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
56434922 TGAACAGTTG
56434932 AAAGCACTGTTAACT
1 AAAGCACTGTTAACT
56434947 AAAGCACTGTTAACT
1 AAAGCACTGTTAACT
56434962 AAAG
1 AAAG
56434966 AATCAGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (15 bp):
AAAGCACTGTTAACT
Found at i:56436456 original size:23 final size:23
Alignment explanation
Indices: 56436430--56436503 Score: 105
Period size: 23 Copynumber: 3.2 Consensus size: 23
56436420 ATAAGTGCCG
56436430 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
56436453 CACTGATATGTAGCCGTAGCTA-
1 CACTGATATGTAGCCGAAGCTAC
* *
56436475 CAGCTAAAATGTAGCCGAAGCTAC
1 CA-CTGATATGTAGCCGAAGCTAC
56436499 CACTG
1 CACTG
56436504 TTCAATAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
22 2 0.05
23 40 0.91
24 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:56441725 original size:14 final size:15
Alignment explanation
Indices: 56441706--56441737 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
56441696 ACATGCTACA
56441706 AAAACAGAAAAT-AG
1 AAAACAGAAAATGAG
56441720 AAAACAGAAAATGAG
1 AAAACAGAAAATGAG
56441735 AAA
1 AAA
56441738 CAAAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAACAGAAAATGAG
Found at i:56441754 original size:19 final size:18
Alignment explanation
Indices: 56441675--56441774 Score: 72
Period size: 18 Copynumber: 5.9 Consensus size: 18
56441665 AAATTAAGAA
*
56441675 AAAAAATACTAGAGAAAC
1 AAAAAATGCTAGAGAAAC
* * *
56441693 AAAACATGCTACAAAAAC
1 AAAAAATGCTAGAGAAAC
*
56441711 AGAAAA---TAGA-AAAC
1 AAAAAATGCTAGAGAAAC
*
56441725 AGAAAA---T-GAGAAAC
1 AAAAAATGCTAGAGAAAC
56441739 AAAAAACTGCTAGAGAAAC
1 AAAAAA-TGCTAGAGAAAC
*
56441758 AAAACATGCTAGAGAAA
1 AAAAAATGCTAGAGAAA
56441775 TAGAAATTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
13 2 0.03
14 20 0.30
15 3 0.04
18 30 0.45
19 12 0.18
ACGTcount: A:0.63, C:0.13, G:0.14, T:0.10
Consensus pattern (18 bp):
AAAAAATGCTAGAGAAAC
Found at i:56441767 original size:18 final size:19
Alignment explanation
Indices: 56441732--56441774 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
56441722 AACAGAAAAT
56441732 GAGAAACAAAAAACTGCTA
1 GAGAAACAAAAAACTGCTA
*
56441751 GAGAAACAAAACA-TGCTA
1 GAGAAACAAAAAACTGCTA
56441769 GAGAAA
1 GAGAAA
56441775 TAGAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.58, C:0.14, G:0.19, T:0.09
Consensus pattern (19 bp):
GAGAAACAAAAAACTGCTA
Found at i:56443283 original size:124 final size:124
Alignment explanation
Indices: 56443063--56443645 Score: 614
Period size: 124 Copynumber: 4.7 Consensus size: 124
56443053 TTCAGGAGAG
** * * * * * *** * *
56443063 CAAAACGACACTGTTTTGTTTAAACTACAATAAAGCTTTGCGGTGTTTTTAAAATAACACCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGCGGCGTTTTTCCTATAGCGCCTCTA
* *** **
56443128 ATTCTCGCCTTTTATAGCGTTTTTAGCATAGCGCCTTTAATGCCGCTAATTTCGCCAGA
66 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* * * * * *
56443187 CAAAACGACACCGTTTTGTTTAATTTAAAATGGAGTTCTGCAGCGTTTTTCCTGTAGCGCCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGCGGCGTTTTTCCTATAGCGCCTCTA
* * *
56443252 ATTCTCACCTTTTGCGGTGTTTTTAGCATAGCGCCGCTAATGCCGGTAATTTTGCCAGA
66 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* * * * *
56443311 TAATACGACACCATTTTGTTTAAATTACAATGAAGTTTTGCGGCATTTTTCCCATAGCGCCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGCGGCGTTTTTCCTATAGCGCCTCTA
* * * *
56443376 ATTCTCACCATGTGCGGCGTTTTTATCATAGCGCTGCTAATGCCGCTAATTTCGCCAGA
66 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* *
56443435 CAATA-GACACCATTTTGTTTAAATTAAAATGAAGTTTTGTGGCGTTTTTCCTATAGCGCCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGCGGCGTTTTTCCTATAGCGCCTCTA
* * * * * *
56443499 AATCTCA-CTTTTAGAGGCGTTTTTAGCAAAGCGCCGCTAATGCCTCTAATTTCGACAAA
66 ATTCTCACCTTTT-GCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* * * * * ** * * *
56443558 CAAAACGACATCGTTTTGTGTAAAATAGAACAAAGTTTTGTGGCGTTTTTAACT-TAGCACCTCT
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGCGGCGTTTTT-CCTATAGCGCCTCT
* **
56443622 AATGCTCACCTTTAACGGCGTTTT
65 AATTCTCACCTTTTGCGGCGTTTT
56443646 AACTTAGCGT
Statistics
Matches: 382, Mismatches: 73, Indels: 8
0.83 0.16 0.02
Matches are distributed among these distances:
122 3 0.01
123 104 0.27
124 269 0.70
125 6 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (124 bp):
CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGCGGCGTTTTTCCTATAGCGCCTCTA
ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
Found at i:56443643 original size:247 final size:246
Alignment explanation
Indices: 56443063--56443645 Score: 677
Period size: 247 Copynumber: 2.3 Consensus size: 246
56443053 TTCAGGAGAG
* * * * *
56443063 CAAAACGACACTGTTTTGTTTAAACTACAATAAAGCTTTGCGGTGTTTTTAAAATAACACCTCTA
1 CAAAACGACAC-GTTTTGTTTAAAATACAATAAAGTTTTGCGGCGTTTTTAACATAGCACCTCTA
* ** *
56443128 ATTCTCGCCTTTTATAGCGTTTTTAGCATAGCGCCTTTAATGCCGCTAATTTCGCCAGACAAAAC
65 ATTCTCACC-TTTACGGCGTTTTTAGCATAGCGCCTCTAATGCCGCTAATTTCGCCAGACAAAAC
* * * * *
56443193 GACACCGTTTTGTTTAATTTAAAATGGAGTTCTGCAGCGTTTTTCCTGTAGCGCCTCTAATTCTC
129 GACACCATTTTGTTTAAATTAAAATGAAGTTCTGCAGCGTTTTTCCTATAGCGCCTCTAAATCTC
* * * * * * *
56443258 ACCTTTTGCGGTGTTTTTAGCATAGCGCCGCTAATGCCGGTAATTTTGCCAGA
194 ACCTTTTGAGGCGTTTTTAGCAAAGCGCCGCTAATGCCGCTAATTTCGACAAA
* * * * * * ** *
56443311 TAATACGACACCATTTTGTTTAAATTACAATGAAGTTTTGCGGCATTTTTCCCATAGCGCCTCTA
1 CAAAACGACA-CGTTTTGTTTAAAATACAATAAAGTTTTGCGGCGTTTTTAACATAGCACCTCTA
* * * *
56443376 ATTCTCACCATGTGCGGCGTTTTTATCATAGCG-CTGCTAATGCCGCTAATTTCGCCAGACAATA
65 ATTCTCACC-TTTACGGCGTTTTTAGCATAGCGCCT-CTAATGCCGCTAATTTCGCCAGACAAAA
* **
56443440 -GACACCATTTTGTTTAAATTAAAATGAAGTTTTGTGGCGTTTTTCCTATAGCGCCTCTAAATCT
128 CGACACCATTTTGTTTAAATTAAAATGAAGTTCTGCAGCGTTTTTCCTATAGCGCCTCTAAATCT
*
56443504 CA-CTTTTAGAGGCGTTTTTAGCAAAGCGCCGCTAATGCCTCTAATTTCGACAAA
193 CACCTTTT-GAGGCGTTTTTAGCAAAGCGCCGCTAATGCCGCTAATTTCGACAAA
* * * * *
56443558 CAAAACGACATCGTTTTGTGTAAAATAGAACAAAGTTTTGTGGCGTTTTTAACTTAGCACCTCTA
1 CAAAACGACA-CGTTTTGTTTAAAATACAATAAAGTTTTGCGGCGTTTTTAACATAGCACCTCTA
*
56443623 ATGCTCACCTTTAACGGCGTTTT
65 ATTCTCACCTTT-ACGGCGTTTT
56443646 AACTTAGCGT
Statistics
Matches: 275, Mismatches: 56, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
246 7 0.03
247 165 0.60
248 102 0.37
249 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (246 bp):
CAAAACGACACGTTTTGTTTAAAATACAATAAAGTTTTGCGGCGTTTTTAACATAGCACCTCTAA
TTCTCACCTTTACGGCGTTTTTAGCATAGCGCCTCTAATGCCGCTAATTTCGCCAGACAAAACGA
CACCATTTTGTTTAAATTAAAATGAAGTTCTGCAGCGTTTTTCCTATAGCGCCTCTAAATCTCAC
CTTTTGAGGCGTTTTTAGCAAAGCGCCGCTAATGCCGCTAATTTCGACAAA
Found at i:56444425 original size:14 final size:14
Alignment explanation
Indices: 56444402--56444455 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
56444392 TTAAGCCCTA
*
56444402 AAACTCTAAACCAT
1 AAACTTTAAACCAT
*
56444416 GAACTTTAAACCAT
1 AAACTTTAAACCAT
*
56444430 AAACTTTAAAGCAT
1 AAACTTTAAACCAT
*
56444444 AAACCTTAAACC
1 AAACTTTAAACC
56444456 CAAAACCTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (14 bp):
AAACTTTAAACCAT
Found at i:56444461 original size:28 final size:28
Alignment explanation
Indices: 56444392--56444466 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
56444382 TTAAACCTCT
* * *
56444392 TTAAGCCCTAAAACTCTAAACCATGAACT
1 TTAAACCC-AAAACTCTAAACCATAAACC
* *
56444421 TTAAA-CCATAAACTTTAAAGCATAAACC
1 TTAAACCCA-AAACTCTAAACCATAAACC
56444449 TTAAACCCAAAAC-CTAAA
1 TTAAACCCAAAACTCTAAA
56444467 ATCCTAAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.13
28 26 0.68
29 7 0.18
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (28 bp):
TTAAACCCAAAACTCTAAACCATAAACC
Found at i:56444880 original size:40 final size:39
Alignment explanation
Indices: 56444825--56444912 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
56444815 AACTCTTTGT
** * * *
56444825 GGCGTTTTTTAGAAAGTGCCGCTAAATGTCGATCTATAGC
1 GGCG-TTTTTAGAAAGCACCGCTAAATCTCAATATATAGC
*
56444865 GGCGTTTTTAGGAAAGCACCGCTAATTCTCAATATATAGC
1 GGCGTTTTTA-GAAAGCACCGCTAAATCTCAATATATAGC
56444905 GGCGTTTT
1 GGCGTTTT
56444913 GAATAAAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.15
40 35 0.85
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (39 bp):
GGCGTTTTTAGAAAGCACCGCTAAATCTCAATATATAGC
Found at i:56446717 original size:16 final size:17
Alignment explanation
Indices: 56446685--56446721 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
56446675 GTTTTATAGT
*
56446685 GATTCGGAAGCTCACTC
1 GATTCGAAAGCTCACTC
56446702 GATTCGAAAG-TCACTC
1 GATTCGAAAGCTCACTC
56446718 GATT
1 GATT
56446722 GGTACTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (17 bp):
GATTCGAAAGCTCACTC
Found at i:56447741 original size:70 final size:70
Alignment explanation
Indices: 56447628--56447758 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
56447618 GAATATAGTG
* *
56447628 ATTGGTAGTAATTCTGCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTATAAGTG
1 ATTGGTAGTAATTCTGCATATGCTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATAAGTG
56447693 TGGTA
66 TGGTA
*
56447698 ATTGGTAGTAATTCTGCATATGCTGTGGACTATCGTAGCTCTGTGTGAGCATCGAAGTATA
1 ATTGGTAGTAATTCTGCATATGCTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATA
56447759 TGATTTACTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (70 bp):
ATTGGTAGTAATTCTGCATATGCTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATAAGTG
TGGTA
Done.