Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 316 of 332
Found at i:103691531 original size:24 final size:24
Alignment explanation
Indices: 103691504--103691555 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
103691494 TTAGTAAGTC
*
103691504 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
103691528 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
103691552 AAAT
1 AAAT
103691556 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:103705066 original size:14 final size:15
Alignment explanation
Indices: 103705044--103705077 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
103705034 AATTGAAAAT
*
103705044 TTAATATTATT-TTA
1 TTAAAATTATTCTTA
103705058 TTAAAATTATTCTTA
1 TTAAAATTATTCTTA
103705073 TTAAA
1 TTAAA
103705078 TAAATAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAAATTATTCTTA
Found at i:103706225 original size:5 final size:5
Alignment explanation
Indices: 103706208--103706240 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
103706198 AAAATAAAAT
103706208 ATTAA TATT-A ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA -ATTAA ATTAA ATTAA ATTAA ATTAA ATT
103706241 GTAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 3 0.12
5 20 0.77
6 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
ATTAA
Found at i:103708651 original size:12 final size:12
Alignment explanation
Indices: 103708634--103708660 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103708624 AGCGTGTGAG
103708634 ACATGAACTCAA
1 ACATGAACTCAA
103708646 ACATGAACTCAA
1 ACATGAACTCAA
103708658 ACA
1 ACA
103708661 GGTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.15
Consensus pattern (12 bp):
ACATGAACTCAA
Found at i:103716412 original size:7 final size:7
Alignment explanation
Indices: 103716400--103716442 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
103716390 TCGTAACCAA
103716400 GGGAAAG
1 GGGAAAG
103716407 GGGAAAG
1 GGGAAAG
103716414 GGGAAAG
1 GGGAAAG
103716421 GGGAAA-
1 GGGAAAG
*
103716427 GGGAAGG
1 GGGAAAG
103716434 GGGAGAAG
1 GGGA-AAG
103716442 G
1 G
103716443 ATGCGTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (7 bp):
GGGAAAG
Found at i:103716863 original size:3 final size:3
Alignment explanation
Indices: 103716857--103716922 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
103716847 GGACATTTTT
* *
103716857 TTA TTA TTA CTA TGGTA TTA TTTA TTA TTA TTA TTA TTA TT- TTA TTG
1 TTA TTA TTA TTA T--TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
103716904 TTA CTT- CTA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA T
103716923 CATCATACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 3 0.06
3 40 0.78
4 5 0.10
5 3 0.06
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:103720803 original size:132 final size:132
Alignment explanation
Indices: 103720525--103721177 Score: 586
Period size: 132 Copynumber: 5.0 Consensus size: 132
103720515 TTGCCTCACC
* * * * * * *
103720525 TTAGAAAATACGAGTGAACTTCCGAAGAGATATTCGATTATTTTGAACAAACGGGAGATTGCAAC
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAAC
* * * * * * *
103720590 CCATCACGATAGGGTACTATTCCCCGAATTG-CATAACATCGAACATTTCTTTCGTTTTAAA-GA
66 CCAGCACAATAGGGCACGATTCCCCGAATTGCCA-AACATTGAACATTGCCTTCGTTTTAAAGGA
103720653 GTTT
130 -TTT
* ** * * * *
103720657 TTAGAAAA-AGTGAGTGAAATTCCGAAGGGATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAA
1 TTAGAAAACA-TGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAA
* *
103720721 CCCAGCACAATAGGGCACGATT-CTCGAATTGCCAAACATTGAACATCGCCTTCGTTTTAAAGGG
65 CCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATTGAACATTGCCTTCGTTTTAAA-GG
*
103720785 TTTT
129 ATTT
* * * * * *
103720789 CTTA-AAAACATGAGTGAAA-ACCTAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCACA
1 -TTAGAAAACATGAGTGAAATTCC-GAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCA
* * * * **
103720852 ACCCAGCACGATAGGGCATGATT-CCCGAATTGTCAAACACTGAGTATTGCCTTCGTTTTAAAGG
64 ACCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATTGAACATTGCCTTCGTTTTAAAGG
103720916 ATTT
129 ATTT
* * ** * *
103720920 TTAGAAGACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGA-AAACGAGAAATTGCAA
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGA-ACAAACGAGAAATCGCAA
* * * * * * * *
103720984 CCCAACACACTAGGGCACGATTCCGCGAATTACCAAATATTAAACCTTGCCTTCGTTTTAAAGAA
65 CCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATTGAACATTGCCTTCGTTTTAAAGGA
103721049 TTT
130 TTT
** * * ** *
103721052 TTA-AAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTACGA
1 TTAGAAA-ACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAA
* * ** ** * *
103721116 CCCAGCACATTAGGGCACGATTCCACGAATCACCAAGTATCGAACATCGCCTTCGTTTTAAA
65 CCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATTGAACATTGCCTTCGTTTTAAA
103721178 TAATTGTGAA
Statistics
Matches: 423, Mismatches: 85, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
130 3 0.01
131 104 0.25
132 311 0.74
133 5 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAAC
CCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATTGAACATTGCCTTCGTTTTAAAGGAT
TT
Found at i:103721004 original size:263 final size:263
Alignment explanation
Indices: 103720554--103721177 Score: 638
Period size: 263 Copynumber: 2.4 Consensus size: 263
103720544 TTCCGAAGAG
* * * * *
103720554 ATATTCGATTATTTTGAACAAACGGGAGATTGCAACCCATCACGATAGGGTACT-ATTCCCCGAA
1 ATATTCGATTATTTTGAACAAACGAGAAATTACAACCCAGCACGATAGGGCA-TGATT-CCCGAA
* * *
103720618 TTGCATAACATCGAACATTTCTTTCGTTTTAAAGAGTTTTTAGAAAAAGTGAGTGAAATTCCGAA
64 TTGCATAACATCGAACATTGCCTTCGTTTTAAAGAGTTTTTAGAAAAACTGAGTGAAATTCCGAA
* * * * *
103720683 GGGATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAACCCAGCACAATAGGGCACGATT-CTCG
129 GGGATATTCGATCATTTCGAACAAACGAAAAAGCGCAACCCAACACAATAGGGCACGATTCCGCG
* * **
103720747 AATTGCCAAACATTGAACATCGCCTTCGTTTTAAAGGGTTTTCTTAAAA-ACATGAGTGAAAACC
194 AATTACCAAACATTAAACATCGCCTTCGTTTTAAA-GAATTT-TTAAAAGACATGAGTGAAAACC
103720811 TAAAGGA
257 TAAAGGA
* * *
103720818 ATATTCAATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
1 ATATTCGATTATTTTGAACAAACGAGAAATTACAACCCAGCACGATAGGGCATGATTCCCGAATT
** * * **
103720883 GTCA-AACA-CTGAGTATTGCCTTCGTTTTAAAG-GATTTTTAGAAGACCTGAGTGAAATTTTGA
66 G-CATAACATC-GAACATTGCCTTCGTTTTAAAGAG-TTTTTAGAAAAACTGAGTGAAATTCCGA
* * * * ** *
103720945 AGGGATATTTGATTATTTTGAGA-AAACGAGAAATTGCAACCCAACACACTAGGGCACGATTCCG
128 AGGGATATTCGATCATTTCGA-ACAAACGAAAAAGCGCAACCCAACACAATAGGGCACGATTCCG
* * * ***
103721009 CGAATTACCAAATATTAAACCTTGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTT
192 CGAATTACCAAACATTAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAAACC
* *
103721074 TGAAGGG
257 TAAAGGA
* * * *
103721081 ATATTCGATTATTTTGAGCAAACGCGAAATTACGACCCAGCAC-ATTAGGGCACGATTCCACGAA
1 ATATTCGATTATTTTGAACAAACGAGAAATTACAACCCAGCACGA-TAGGGCATGATTCC-CGAA
* * *
103721145 -T-CACCAAGTATCGAACATCGCCTTCGTTTTAAA
64 TTGCA-TAA-CATCGAACATTGCCTTCGTTTTAAA
103721178 TAATTGTGAA
Statistics
Matches: 295, Mismatches: 52, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
261 2 0.01
262 9 0.03
263 177 0.60
264 106 0.36
265 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (263 bp):
ATATTCGATTATTTTGAACAAACGAGAAATTACAACCCAGCACGATAGGGCATGATTCCCGAATT
GCATAACATCGAACATTGCCTTCGTTTTAAAGAGTTTTTAGAAAAACTGAGTGAAATTCCGAAGG
GATATTCGATCATTTCGAACAAACGAAAAAGCGCAACCCAACACAATAGGGCACGATTCCGCGAA
TTACCAAACATTAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAAACCTAAA
GGA
Found at i:103724809 original size:19 final size:19
Alignment explanation
Indices: 103724785--103724822 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
103724775 TAATTTAGTT
103724785 GAAGGATCAAAAGACCATG
1 GAAGGATCAAAAGACCATG
103724804 GAAGGATCAAAAGACCATG
1 GAAGGATCAAAAGACCATG
103724823 TAGAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.11
Consensus pattern (19 bp):
GAAGGATCAAAAGACCATG
Found at i:103728415 original size:13 final size:13
Alignment explanation
Indices: 103728397--103728426 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
103728387 TTTTAGGTTA
103728397 AATTAAATTGTAT
1 AATTAAATTGTAT
103728410 AATTAAATTGTAT
1 AATTAAATTGTAT
103728423 AATT
1 AATT
103728427 TAACCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
AATTAAATTGTAT
Found at i:103734750 original size:6 final size:6
Alignment explanation
Indices: 103734741--103734790 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
103734731 TGATGAGGGT
* * * * *
103734741 GAGGAA GAGGAA GAGGAG GAAGAA GAGGAA GAAGAT GAGGAG GAGGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
103734789 GA
1 GA
103734791 AGAACTTCAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (6 bp):
GAGGAA
Found at i:103734761 original size:9 final size:9
Alignment explanation
Indices: 103734744--103734793 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
103734734 TGAGGGTGAG
103734744 GAAGAGGAA
1 GAAGAGGAA
*
103734753 GAGGAGGAA
1 GAAGAGGAA
103734762 GAAGAGGAA
1 GAAGAGGAA
* *
103734771 GAAGATGAG
1 GAAGAGGAA
*
103734780 GAGGAGGAA
1 GAAGAGGAA
103734789 GAAGA
1 GAAGA
103734794 ACTTCAGCCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (9 bp):
GAAGAGGAA
Found at i:103734786 original size:18 final size:18
Alignment explanation
Indices: 103734740--103734793 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
103734730 ATGATGAGGG
*
103734740 TGAGGAAGAGGAAGAGGA
1 TGAGGAAGAGGAAGAAGA
* *
103734758 GGAAGAAGAGGAAGAAGA
1 TGAGGAAGAGGAAGAAGA
*
103734776 TGAGGAGGAGGAAGAAGA
1 TGAGGAAGAGGAAGAAGA
103734794 ACTTCAGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.04
Consensus pattern (18 bp):
TGAGGAAGAGGAAGAAGA
Found at i:103740525 original size:29 final size:29
Alignment explanation
Indices: 103740491--103740555 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
103740481 TTGTTATAAT
* *
103740491 TTTTAAAATATTAAATTA-AATTTTTATTA
1 TTTTAAAAAATTAAAATATAA-TTTTATTA
103740520 TTTTAAAAAATTAAAATATAATTTTATTA
1 TTTTAAAAAATTAAAATATAATTTTATTA
103740549 TTATTAA
1 TT-TTAA
103740556 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTTAAAAAATTAAAATATAATTTTATTA
Found at i:103741264 original size:19 final size:21
Alignment explanation
Indices: 103741225--103741266 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
103741215 CTTGGTCTGA
103741225 ATATTATATTATAAAATAATT
1 ATATTATATTATAAAATAATT
*
103741246 ATATTA-ATTAT-ATATAATT
1 ATATTATATTATAAAATAATT
103741265 AT
1 AT
103741267 CTATACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTATATTATAAAATAATT
Found at i:103746457 original size:17 final size:17
Alignment explanation
Indices: 103746423--103746470 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
103746413 AAATAAAACA
103746423 ATATTA-TTATGTTAAAT
1 ATATTATTTAT-TTAAAT
*
103746440 ATATTATTTATTTTAAT
1 ATATTATTTATTTAAAT
* *
103746457 ATCTCATTTATTTA
1 ATATTATTTATTTA
103746471 TATAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATTATTTATTTAAAT
Found at i:103747179 original size:6 final size:6
Alignment explanation
Indices: 103747168--103747199 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
103747158 AAATATATTC
103747168 TATTTT TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TA
103747200 AAGATGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:103755968 original size:64 final size:64
Alignment explanation
Indices: 103755884--103756060 Score: 240
Period size: 64 Copynumber: 2.8 Consensus size: 64
103755874 ATATATATTT
* *
103755884 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGGTAC
*
103755948 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGGTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGGTAC
*
103756012 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
103756061 GAATGTTTGT
Statistics
Matches: 104, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 74 0.71
65 11 0.11
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGGTAC
Found at i:103756233 original size:41 final size:41
Alignment explanation
Indices: 103756176--103756421 Score: 334
Period size: 41 Copynumber: 6.0 Consensus size: 41
103756166 TTGTATATGA
103756176 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
*
103756217 GATTATTTCAGGCTTAACGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
103756258 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
103756299 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
* * * * * *
103756340 AATTAATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG
* * * * ** *
103756381 AAATGA-ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 -GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
103756422 TTTTATATAG
Statistics
Matches: 187, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 178 0.95
42 7 0.04
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (41 bp):
GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
Found at i:103757113 original size:14 final size:15
Alignment explanation
Indices: 103757089--103757123 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
103757079 TACTTTAATC
103757089 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
103757104 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
103757119 ATGGT
1 ATGGT
103757124 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:103758043 original size:20 final size:21
Alignment explanation
Indices: 103758018--103758060 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
103758008 TATGATTTTA
103758018 AAAAAAAT-TAGAAAAATTAT
1 AAAAAAATATAGAAAAATTAT
*
103758038 -AAAAAATATAGGAAAATTAT
1 AAAAAAATATAGAAAAATTAT
103758058 AAA
1 AAA
103758061 TTTTATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 11 0.55
21 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAAAATATAGAAAAATTAT
Found at i:103758439 original size:20 final size:21
Alignment explanation
Indices: 103758416--103758458 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
103758406 AAAAGCAATT
103758416 TTTATTAAAAAAATT-TAAAA
1 TTTATTAAAAAAATTATAAAA
* *
103758436 TTTATTAGAAATATTATAAAA
1 TTTATTAAAAAAATTATAAAA
103758457 TT
1 TT
103758459 ATAGGGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTATTAAAAAAATTATAAAA
Found at i:103758581 original size:17 final size:20
Alignment explanation
Indices: 103758541--103758581 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
103758531 ATTTATAATT
*
103758541 TTTAATAATGTGTTTATCAT
1 TTTAATAATGTGTTTATCAG
103758561 TTTAATAAT-T-TTTAT-AG
1 TTTAATAATGTGTTTATCAG
103758578 TTTA
1 TTTA
103758582 TTTTATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 1 0.05
20 9 0.45
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAATAATGTGTTTATCAG
Found at i:103758601 original size:22 final size:22
Alignment explanation
Indices: 103758559--103758601 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
103758549 TGTGTTTATC
* *
103758559 ATTTTAATAATTTTTATAGTTT
1 ATTTTAATAATTTTAAAAGTTT
103758581 ATTTT-ATAATTTCTAAAAGTT
1 ATTTTAATAATTT-TAAAAGTT
103758602 AATTAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTTTAATAATTTTAAAAGTTT
Found at i:103762916 original size:14 final size:14
Alignment explanation
Indices: 103762897--103762927 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
103762887 GCATTTGGGC
103762897 TCTTGAACTATGAT
1 TCTTGAACTATGAT
103762911 TCTTGAACTATGAT
1 TCTTGAACTATGAT
103762925 TCT
1 TCT
103762928 CACCTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (14 bp):
TCTTGAACTATGAT
Found at i:103763646 original size:11 final size:11
Alignment explanation
Indices: 103763630--103763655 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
103763620 TAATTTAGAA
103763630 AAAAATAAAAT
1 AAAAATAAAAT
103763641 AAAAATAAAAT
1 AAAAATAAAAT
103763652 AAAA
1 AAAA
103763656 TGAACACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:103767439 original size:72 final size:74
Alignment explanation
Indices: 103767340--103767480 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 74
103767330 TAAATTTAAA
*
103767340 TTTAATTTTTTAAAATGCATAAAAAATTTT-A-AAAAAATTAAACCCCTAATATTTTTTACATTC
1 TTTAATTTTTCAAAATGCATAAAAAATTTTAATAAAAAATTAAACCCCTAAT-TTTTTTACATTC
103767403 AATTAAGTAT
65 AATTAAGTAT
* * ***
103767413 TTTAA-TTTTCAAAATGTATAATAAATTTTAAATTAAAAAATTAAATTTCTAATTTTTTTACATT
1 TTTAATTTTTCAAAATGCATAAAAAATTTT-AA-TAAAAAATTAAACCCCTAATTTTTTTACATT
103767477 CAAT
64 CAAT
103767481 AATTAGGTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
72 21 0.36
73 5 0.09
74 1 0.02
75 15 0.26
76 16 0.28
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (74 bp):
TTTAATTTTTCAAAATGCATAAAAAATTTTAATAAAAAATTAAACCCCTAATTTTTTTACATTCA
ATTAAGTAT
Found at i:103781228 original size:58 final size:58
Alignment explanation
Indices: 103781105--103781261 Score: 224
Period size: 59 Copynumber: 2.7 Consensus size: 58
103781095 AAAGTTGCTA
** *
103781105 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACCACCAGCATGTCAAGGGTTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGAACCAGCATGTCAAGGATTAAATT
* * *
103781163 TGTTTTGGCACTAAAAGTAAACCACAAGCCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGCCACAAGAACCAGCATGTCAAGGATTAAATT
* * *
103781222 TGTTTGGGCGCTAAAAGCAACCGCAAGCCACAAGTACCAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGAACCAG
103781262 TCCAACCCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 37 0.43
59 50 0.57
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:103782844 original size:34 final size:34
Alignment explanation
Indices: 103782805--103782875 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
103782795 TGCTTTTGGA
*
103782805 GCCAGAAGTGCTTTTGAAATGCAATGCAGAACTG
1 GCCAGAAGTGCTTTTGAAAAGCAATGCAGAACTG
103782839 GCCAGAAGTGCTTTTGAAAAGCAATGCAGAACTG
1 GCCAGAAGTGCTTTTGAAAAGCAATGCAGAACTG
103782873 GCC
1 GCC
103782876 CTACGTCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (34 bp):
GCCAGAAGTGCTTTTGAAAAGCAATGCAGAACTG
Found at i:103787270 original size:46 final size:44
Alignment explanation
Indices: 103787166--103787273 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
103787156 TGTCTTTGAC
** * * *
103787166 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
103787210 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
103787256 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
103787274 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:103794642 original size:46 final size:44
Alignment explanation
Indices: 103794538--103794645 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
103794528 TGTCTTTGAC
** * * *
103794538 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
103794582 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
103794628 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
103794646 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:103796208 original size:26 final size:26
Alignment explanation
Indices: 103796160--103796210 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
103796150 AAACAATTTA
* *
103796160 TTTTATATTATTTAAAAATTATATAT
1 TTTTATAATATATAAAAATTATATAT
103796186 TTTTATAATATATAATAAA-TATATA
1 TTTTATAATATATAA-AAATTATATA
103796211 ACTATATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTATAATATATAAAAATTATATAT
Found at i:103797485 original size:21 final size:21
Alignment explanation
Indices: 103797461--103797502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
103797451 AATTAACTAC
*
103797461 TTTTAGATTA-TTTGTTTTAAA
1 TTTTA-ATTATTTTGATTTAAA
103797482 TTTTAATTATTTTGATTTAAA
1 TTTTAATTATTTTGATTTAAA
103797503 AATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTTAATTATTTTGATTTAAA
Found at i:103797897 original size:21 final size:21
Alignment explanation
Indices: 103797871--103797926 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
103797861 CACTATTGTT
103797871 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
103797892 TCTAATCTTACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
103797913 ACTAATCTCACCGC
1 TCTAATCTCACCGC
103797927 CACCGCTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:103798853 original size:22 final size:22
Alignment explanation
Indices: 103798828--103798871 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
103798818 CAATTAGATA
103798828 AACTTTTTGGGCCAAAATTGGG
1 AACTTTTTGGGCCAAAATTGGG
103798850 AACTTTTTGGGCCAAAATTGGG
1 AACTTTTTGGGCCAAAATTGGG
103798872 TTACGCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
AACTTTTTGGGCCAAAATTGGG
Found at i:103801150 original size:32 final size:32
Alignment explanation
Indices: 103801104--103801168 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
103801094 GGGCCTTTAG
103801104 AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
1 AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
*
103801136 AGTAAGACTTGGGTAGTAAAGGAGGGTTGCGA
1 AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
103801168 A
1 A
103801169 TTTCCTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.42, T:0.20
Consensus pattern (32 bp):
AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
Found at i:103806796 original size:19 final size:18
Alignment explanation
Indices: 103806767--103806808 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
103806757 CTCCCTGTAT
103806767 TTTGTTTTTATTTATTTA
1 TTTGTTTTTATTTATTTA
*
103806785 TTTGTTTATTATTTATTTT
1 TTTGTTT-TTATTTATTTA
103806804 TTTGT
1 TTTGT
103806809 CTCCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (18 bp):
TTTGTTTTTATTTATTTA
Found at i:103814239 original size:19 final size:20
Alignment explanation
Indices: 103814217--103814265 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
103814207 AAATCCAAAT
103814217 TAAAATACTAAAATTCA-GA
1 TAAAATACTAAAATTCAGGA
*
103814236 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAGGA
103814256 TAAGAATACT
1 TAA-AATACT
103814266 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 14 0.56
20 5 0.20
21 4 0.16
22 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:103817244 original size:15 final size:15
Alignment explanation
Indices: 103817218--103817255 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
103817208 TAAAATCTTA
103817218 AAATTCTATAAAACTC
1 AAATT-TATAAAACTC
103817234 AAATTTATAAAACTC
1 AAATTTATAAAACTC
103817249 AAATTTA
1 AAATTTA
103817256 ATCGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTTATAAAACTC
Found at i:103817615 original size:69 final size:68
Alignment explanation
Indices: 103817533--103817662 Score: 233
Period size: 69 Copynumber: 1.9 Consensus size: 68
103817523 GTTACTTTTC
*
103817533 ACGGATCCTTATATGATTTACATATCTTATATATGAGATATAAAATCACAAAAAAGATATAAAAT
1 ACGGATCCTTATATGATCTACATATCTTATATATGAGATATAAAATCAC-AAAAAGATATAAAAT
103817598 CACT
65 CACT
*
103817602 ACGGATCCTTATATGATCTACATATCTTATATATGAGATATGAAATCACAAAAAGATATAA
1 ACGGATCCTTATATGATCTACATATCTTATATATGAGATATAAAATCACAAAAAGATATAA
103817663 GCTCACTTCA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
68 12 0.20
69 47 0.80
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (68 bp):
ACGGATCCTTATATGATCTACATATCTTATATATGAGATATAAAATCACAAAAAGATATAAAATC
ACT
Found at i:103830352 original size:50 final size:51
Alignment explanation
Indices: 103830275--103830403 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
103830265 GACCATGGCA
* *
103830275 ACAAGTGATAAATGATAGCTTCGGCTACACTTATCTGATAAATGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATAAATGACAAATG
* *
103830326 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAATGACAAATT
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATAAATGACAAATG
* *
103830376 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
103830404 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATAAATGACAAATG
Found at i:103830417 original size:31 final size:31
Alignment explanation
Indices: 103830379--103830588 Score: 305
Period size: 31 Copynumber: 6.8 Consensus size: 31
103830369 ACAAATTACA
103830379 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
103830410 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
103830441 AGTG-AAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
103830471 AGTGAAAAATGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
103830502 AGTGAAAAGTGGTAGCTCCGACTAACTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
103830533 AGTGAAAAATGGTAGATCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
103830564 TGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
103830589 AAGTGACAAG
Statistics
Matches: 159, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
30 30 0.19
31 129 0.81
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:103830667 original size:46 final size:49
Alignment explanation
Indices: 103830617--103830742 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
103830607 GATTTCCGTA
** * *
103830617 TAAGACCATATTTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGACATCGATATGAGATATGTGATTACGTG
* *
103830663 TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGACATCGATATGAGATATGTGATTACGTG
** * *
103830712 TAAGACGTTAGCTGGGCTATGGCATCGATAT
1 TAAGACCATAGCTGGGATATGACATCGATAT
103830743 ATGAATATGT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 22 0.32
47 1 0.01
48 13 0.19
49 32 0.47
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGCTGGGATATGACATCGATATGAGATATGTGATTACGTG
Found at i:103830724 original size:49 final size:48
Alignment explanation
Indices: 103830648--103830779 Score: 168
Period size: 49 Copynumber: 2.9 Consensus size: 48
103830638 GCATCAGTGA
*
103830648 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
** *
103830696 GATATGTGATTACGTGTAAGACGTTAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
*
103830745 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATC
103830780 ATTATGTGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
42 27 0.35
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.16
49 35 0.45
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
Found at i:103830755 original size:42 final size:42
Alignment explanation
Indices: 103830709--103830806 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 42
103830699 ATGTGATTAC
** *
103830709 GTGTAAGACGTTAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGAT
*
103830751 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
103830793 GTGTAAGACCATAG
1 GTGTAAGACCATAG
103830807 TTGAACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
Found at i:103830816 original size:42 final size:42
Alignment explanation
Indices: 103830709--103830823 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
103830699 ATGTGATTAC
** ** *
103830709 GTGTAAGACGTTAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGAACTATGGCATCGATATATGAAGAT
** *
103830751 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAACTATGGCATCGA-TATATGAAGAT
* *
103830793 GTGTAAGACCATAGTTGAACTATGACATCGA
1 GTGTAAGACCATAGCTGAACTATGGCATCGA
103830824 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAACTATGGCATCGATATATGAAGAT
Found at i:103832928 original size:29 final size:29
Alignment explanation
Indices: 103832895--103832953 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
103832885 ATAGAAAAAA
103832895 TTAACTTAATGAATTTAACGACTATTATT
1 TTAACTTAATGAATTTAACGACTATTATT
**
103832924 TTAACTTAATGAATTTAATTACTATTATT
1 TTAACTTAATGAATTTAACGACTATTATT
103832953 T
1 T
103832954 GGTGAGGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (29 bp):
TTAACTTAATGAATTTAACGACTATTATT
Found at i:103854710 original size:39 final size:39
Alignment explanation
Indices: 103854656--103854768 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
103854646 TTCAGTGATG
* *
103854656 TATATCCAGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
103854695 TATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
103854734 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTG
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTG
103854769 CAAATATGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:103854796 original size:39 final size:39
Alignment explanation
Indices: 103854656--103854799 Score: 110
Period size: 39 Copynumber: 3.7 Consensus size: 39
103854646 TTCAGTGATG
* ** * * * * *
103854656 TATATCCAGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGTAGGCTACGTGCTGCAAA
** * * * * *
103854695 TATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGTAGGCTACGTGCTGCAAA
*
103854734 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGCAAA
1 TATATCCGGACTTAAAGTCCGTAGGCTACGTGCTGCAAA
* *
103854773 TATGTCCGGGC-TAAAGTCTCGTAGGCT
1 TATATCCGGACTTAAAGTC-CGTAGGCT
103854800 TCGAGCTGGT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 6 0.07
39 86 0.93
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGTAGGCTACGTGCTGCAAA
Found at i:103867586 original size:20 final size:19
Alignment explanation
Indices: 103867561--103867599 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103867551 CAAATAATTT
103867561 AAATAT-TAAAAAAATAAA
1 AAATATATAAAAAAATAAA
* *
103867579 AAATATATATAACAATAAA
1 AAATATATAAAAAAATAAA
103867598 AA
1 AA
103867600 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATATATAAAAAAATAAA
Found at i:103867717 original size:18 final size:19
Alignment explanation
Indices: 103867678--103867716 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
103867668 ATATTTTTTA
*
103867678 TTTAAACATTATATTATAT
1 TTTAAACATTATAGTATAT
103867697 TTTAAAC-TTA-AGTATAT
1 TTTAAACATTATAGTATAT
103867714 TTT
1 TTT
103867717 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTAAACATTATAGTATAT
Found at i:103878593 original size:48 final size:48
Alignment explanation
Indices: 103878536--103878631 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
103878526 CTGCTTTACA
103878536 GGGTTGAAAAAAAATGGATATGTTCAATATTTTATTTTCTGCTCTTAT
1 GGGTTGAAAAAAAATGGATATGTTCAATATTTTATTTTCTGCTCTTAT
103878584 GGGTTGAAAAAAAATGGATATGTTCAATATTTTATTTTCTGCTCTTAT
1 GGGTTGAAAAAAAATGGATATGTTCAATATTTTATTTTCTGCTCTTAT
103878632 TTTTTTCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (48 bp):
GGGTTGAAAAAAAATGGATATGTTCAATATTTTATTTTCTGCTCTTAT
Found at i:103886749 original size:19 final size:17
Alignment explanation
Indices: 103886714--103886760 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
103886704 GGACAAGGTC
103886714 TGGTTTT-TTTTTTTTT
1 TGGTTTTGTTTTTTTTT
103886730 TGGTTTTGTTTTCTTCTTT
1 TGGTTTTGTTTT-TT-TTT
103886749 T-GTCTTTGTTTT
1 TGGT-TTTGTTTT
103886761 GTATTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
18 4 0.15
19 12 0.44
ACGTcount: A:0.00, C:0.06, G:0.15, T:0.79
Consensus pattern (17 bp):
TGGTTTTGTTTTTTTTT
Found at i:103886773 original size:24 final size:25
Alignment explanation
Indices: 103886718--103886773 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
103886708 AAGGTCTGGT
* * *
103886718 TTTTTTTTTTTTTGGTTTTGTTTTC
1 TTTTTTTGTCTTTGGTTTTGTATTC
* *
103886743 TTCTTTTGTCTTT-GTTTTGTATTG
1 TTTTTTTGTCTTTGGTTTTGTATTC
103886767 TTTTTTT
1 TTTTTTT
103886774 CTTTTAGCTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.80
Consensus pattern (25 bp):
TTTTTTTGTCTTTGGTTTTGTATTC
Found at i:103889611 original size:45 final size:45
Alignment explanation
Indices: 103889547--103889661 Score: 196
Period size: 45 Copynumber: 2.6 Consensus size: 45
103889537 CCCTCACCCT
*
103889547 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCGCCAC-CAA
1 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTC-A
*
103889592 CTACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
1 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
103889637 CAACTGGTTCATCATCAGCACCCCC
1 CAACTGGTTCATCATCAGCACCCCC
103889662 GCCACCCCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 65 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.52, G:0.09, T:0.15
Consensus pattern (45 bp):
CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
Found at i:103893036 original size:17 final size:18
Alignment explanation
Indices: 103892999--103893036 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
103892989 GTCTTCTCTT
*
103892999 GAACCAAATTCTTAGCTA
1 GAACCAAATTCTCAGCTA
*
103893017 GAACTAAATTCTCA-CTA
1 GAACCAAATTCTCAGCTA
103893034 GAA
1 GAA
103893037 AGAGTAACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (18 bp):
GAACCAAATTCTCAGCTA
Found at i:103899169 original size:16 final size:15
Alignment explanation
Indices: 103899148--103899194 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
103899138 TTTAATAGGG
103899148 TAATTTTATATTTTTA
1 TAATTTTA-ATTTTTA
*
103899164 TAATTTTAAATTTTGA
1 TAATTTT-AATTTTTA
*
103899180 -AATTTCAATTTTTA
1 TAATTTTAATTTTTA
103899194 T
1 T
103899195 GTGATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 13 0.50
17 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TAATTTTAATTTTTA
Found at i:103899877 original size:31 final size:31
Alignment explanation
Indices: 103899840--103899899 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
103899830 TACAGAGATA
103899840 AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
1 AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
103899871 AAAAAGAATCAGGTCAAAGTAATTAAAGA
1 AAAAAGAATCAGGTCAAAGTAATTAAAGA
103899900 TTTAAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (31 bp):
AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
Found at i:103911984 original size:30 final size:30
Alignment explanation
Indices: 103911943--103912003 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
103911933 AGTTATGAAA
*
103911943 TGGTGGTTGAACAATTTGAAAAGTTTTTAT
1 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
103911973 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
1 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
103912003 T
1 T
103912004 TAAGTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (30 bp):
TGGTAGTTGAACAATTTGAAAAGTTTTTAT
Found at i:103913754 original size:21 final size:21
Alignment explanation
Indices: 103913728--103913768 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
103913718 TATTTATTTT
103913728 AAATTAATAAA-AATTGAAATG
1 AAATTAA-AAATAATTGAAATG
*
103913749 AAATTAAAAATAATTTAAAT
1 AAATTAAAAATAATTGAAAT
103913769 TTAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AAATTAAAAATAATTGAAATG
Found at i:103914862 original size:29 final size:28
Alignment explanation
Indices: 103914809--103914881 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
103914799 TTAAATTTTA
* *
103914809 AAAAAAAATTT-AATCATGAATTGAACC
1 AAAAAAATTTTAAATCATGAACTGAACC
* *
103914836 AAAAAAATTTTAAATACATTAACTGAATC
1 AAAAAAATTTTAAAT-CATGAACTGAACC
* *
103914865 -AAAATATTTTAATTCAT
1 AAAAAAATTTTAAATCAT
103914882 TCAATCGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 13 0.34
28 15 0.39
29 10 0.26
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAAAAATTTTAAATCATGAACTGAACC
Found at i:103915089 original size:20 final size:19
Alignment explanation
Indices: 103915053--103915092 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103915043 TAATAGTTCA
*
103915053 AAAAATATATTGCTAATAT
1 AAAAATATATTGATAATAT
*
103915072 AAAAATATATTATATAATAT
1 AAAAATATATT-GATAATAT
103915092 A
1 A
103915093 TATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATATATTGATAATAT
Found at i:103916385 original size:41 final size:41
Alignment explanation
Indices: 103916340--103916418 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
103916330 ACAAAAAGAA
103916340 AATCTAATCCAAAAA-GAAAAAAAAAAAGAAAAAGAAAACTT
1 AATCTAATCCAAAAATG-AAAAAAAAAAGAAAAAGAAAACTT
** * *
103916381 AATCTAATTTAAAAATGAAAAGAAAAAGGAAAAGAAAA
1 AATCTAATCCAAAAATGAAAAAAAAAAGAAAAAGAAAA
103916419 TCCTAACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.70, C:0.06, G:0.10, T:0.14
Consensus pattern (41 bp):
AATCTAATCCAAAAATGAAAAAAAAAAGAAAAAGAAAACTT
Found at i:103918918 original size:21 final size:24
Alignment explanation
Indices: 103918894--103918946 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
103918884 TCGTATTGTA
103918894 ACATATATAAATAA-AA-AAA-AT
1 ACATATATAAATAATAACAAATAT
*
103918915 ACATAGATAAATAATAACAAATAT
1 ACATATATAAATAATAACAAATAT
*
103918939 ACAAATAT
1 ACATATAT
103918947 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 13 0.50
22 2 0.08
23 3 0.12
24 8 0.31
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (24 bp):
ACATATATAAATAATAACAAATAT
Found at i:103919381 original size:13 final size:13
Alignment explanation
Indices: 103919363--103919393 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
103919353 ATCGATTGAG
*
103919363 TATTAATTTAATT
1 TATTAACTTAATT
103919376 TATTAACTTAATT
1 TATTAACTTAATT
103919389 TATTA
1 TATTA
103919394 TTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTAACTTAATT
Found at i:103921607 original size:54 final size:54
Alignment explanation
Indices: 103921525--103921632 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
103921515 GAAGATTGGA
*
103921525 CGCTATGTTGTTGTCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
1 CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
103921579 CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
1 CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
103921633 TTGTGTTATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (54 bp):
CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
Found at i:103921880 original size:19 final size:18
Alignment explanation
Indices: 103921840--103921881 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
103921830 AAGTATATTT
103921840 TATT-TATAAATTTAAAA
1 TATTATATAAATTTAAAA
* *
103921857 AATTATATATAATTTTAAA
1 TATTATATA-AATTTAAAA
103921876 TATTAT
1 TATTAT
103921882 GTTACTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 4 0.20
19 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTATATAAATTTAAAA
Found at i:103922692 original size:17 final size:18
Alignment explanation
Indices: 103922672--103922705 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
103922662 ATTAGATTAA
103922672 AAAATATATTT-TTTATT
1 AAAATATATTTATTTATT
*
103922689 AAAATTTATTTATTTAT
1 AAAATATATTTATTTAT
103922706 ATTGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAATATATTTATTTATT
Found at i:103922725 original size:40 final size:44
Alignment explanation
Indices: 103922646--103922725 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
103922636 AGAAATGAAT
*
103922646 AAATTAATTTATTTATATTAGATTAAAAAATATATTTTTTATTA
1 AAATTAATTTATTTATATTAGATTAAAAAATATAATTTTTATTA
*
103922690 AAATTTATTTATTTATATT-GA-T-AAAAAT-TAATTTTT
1 AAATTAATTTATTTATATTAGATTAAAAAATATAATTTTT
103922726 GTATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 7 0.21
41 6 0.18
42 1 0.03
43 2 0.06
44 18 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (44 bp):
AAATTAATTTATTTATATTAGATTAAAAAATATAATTTTTATTA
Found at i:103926109 original size:12 final size:12
Alignment explanation
Indices: 103926092--103926118 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103926082 AATGAAGTAA
103926092 GAAAATTTCATT
1 GAAAATTTCATT
103926104 GAAAATTTCATT
1 GAAAATTTCATT
103926116 GAA
1 GAA
103926119 TATATAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (12 bp):
GAAAATTTCATT
Found at i:103928073 original size:15 final size:15
Alignment explanation
Indices: 103928043--103928072 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
103928033 AGCAAACAAC
103928043 ACAAGCAGAAAGAAA
1 ACAAGCAGAAAGAAA
103928058 ACAAGCA-AAAGAAA
1 ACAAGCAGAAAGAAA
103928072 A
1 A
103928073 AAAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.13, G:0.17, T:0.00
Consensus pattern (15 bp):
ACAAGCAGAAAGAAA
Found at i:103928548 original size:3 final size:3
Alignment explanation
Indices: 103928489--103928529 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
103928479 TGACATGCAG
103928489 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
103928530 TAATGATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:103928669 original size:3 final size:3
Alignment explanation
Indices: 103928661--103928686 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
103928651 TCATTGGCCC
103928661 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
103928687 AACACAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:103929804 original size:16 final size:16
Alignment explanation
Indices: 103929785--103929836 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
103929775 GGTAATCAGT
103929785 AAATAAGACAAAGACA
1 AAATAAGACAAAGACA
* * *
103929801 AAATAAGAAAAAAACC
1 AAATAAGACAAAGACA
* *
103929817 AAATAAAAGCAAAGGCA
1 AAATAAGA-CAAAGACA
103929834 AAA
1 AAA
103929837 GTAAAACCCC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.06
Consensus pattern (16 bp):
AAATAAGACAAAGACA
Found at i:103931382 original size:18 final size:18
Alignment explanation
Indices: 103931361--103931395 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
103931351 TTATTTTTTT
103931361 ATATAAAAAAATTAAAAA
1 ATATAAAAAAATTAAAAA
*
103931379 ATATAAAAACATTAAAA
1 ATATAAAAAAATTAAAA
103931396 TAGATATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
ATATAAAAAAATTAAAAA
Found at i:103932586 original size:20 final size:20
Alignment explanation
Indices: 103932561--103932600 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
103932551 CGTAAAATGA
*
103932561 TTTCTGGAAAATGCTTTACT
1 TTTCTGGAAAATGATTTACT
*
103932581 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
103932601 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:103933052 original size:13 final size:13
Alignment explanation
Indices: 103933034--103933061 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103933024 ATTCTTTCTC
103933034 TATTTATGAAGTT
1 TATTTATGAAGTT
103933047 TATTTATGAAGTT
1 TATTTATGAAGTT
103933060 TA
1 TA
103933062 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:103934458 original size:12 final size:12
Alignment explanation
Indices: 103934441--103934466 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
103934431 TTTTCCAGAA
103934441 AACATTATATCG
1 AACATTATATCG
103934453 AACATTATATCG
1 AACATTATATCG
103934465 AA
1 AA
103934467 TACACAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AACATTATATCG
Found at i:103935195 original size:18 final size:18
Alignment explanation
Indices: 103935172--103935229 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
103935162 ATTTGAAGGA
103935172 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
103935190 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
103935208 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
103935226 ATGA
1 ATGA
103935230 GAGCTTTAGG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:103936301 original size:15 final size:15
Alignment explanation
Indices: 103936281--103936317 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
103936271 TAACTCTCTA
103936281 TCTTTCTCACATATC
1 TCTTTCTCACATATC
*
103936296 TCTTTCTCTCATATC
1 TCTTTCTCACATATC
*
103936311 ACTTTCT
1 TCTTTCT
103936318 TTCCCACTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.51
Consensus pattern (15 bp):
TCTTTCTCACATATC
Found at i:103952391 original size:47 final size:47
Alignment explanation
Indices: 103952293--103952417 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
103952283 CGATAAGTAC
* * **
103952293 CTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAATGC
1 CTATACCATGGCCCGTAGCCAAATCAAGGTAACTTACCCCAAAATAA
*
103952340 CTATACCATTGCCCGTAGCCAAATCAAGGTAAC-T-CCCTACAAAATAA
1 CTATACCATGGCCCGTAGCCAAATCAAGGTAACTTACCC--CAAAATAA
* *
103952387 CTATATCATGGCCCGTATCCAAATCAAGGTA
1 CTATACCATGGCCCGTAGCCAAATCAAGGTA
103952418 CTATTCGCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 2 0.03
46 1 0.01
47 65 0.96
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.22
Consensus pattern (47 bp):
CTATACCATGGCCCGTAGCCAAATCAAGGTAACTTACCCCAAAATAA
Found at i:103955667 original size:43 final size:42
Alignment explanation
Indices: 103955574--103955697 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 42
103955564 AGATGAAATT
* *
103955574 ACATGTAAGACCATGTCTGGGACATTGGCATCGTTAT-ATGATT
1 ACATGTAAGACCATGTCTGGGACATTGGCATTG-TATGA-GATA
* *
103955617 TCGTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATTG-TATGAGATA
* *
103955660 ACATGTAAGACCATATCTGGGATA-TGGCATTGTATGAG
1 ACATGTAAGACCATGTCTGGGACATTGGCATTGTATGAG
103955698 CTTTATGTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
41 6 0.08
42 8 0.11
43 56 0.79
44 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
ACATGTAAGACCATGTCTGGGACATTGGCATTGTATGAGATA
Found at i:103960835 original size:40 final size:40
Alignment explanation
Indices: 103960789--103960869 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
103960779 AAGTCAGGAC
103960789 TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGGAAA
1 TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGGAAA
* *
103960829 TAAACCGAGTACTCAAAGAATTTTTTGGAAAACATGGAAA
1 TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGGAAA
103960869 T
1 T
103960870 TTTTCAAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (40 bp):
TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGGAAA
Found at i:103963227 original size:120 final size:120
Alignment explanation
Indices: 103963068--103963427 Score: 711
Period size: 120 Copynumber: 3.0 Consensus size: 120
103963058 ATTAAGACAC
*
103963068 ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATAGAAAATTGATATAAT
1 ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATGGAAAATTGATATAAT
103963133 GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
66 GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
103963188 ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATGGAAAATTGATATAAT
1 ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATGGAAAATTGATATAAT
103963253 GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
66 GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
103963308 ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATGGAAAATTGATATAAT
1 ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATGGAAAATTGATATAAT
103963373 GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
66 GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
103963428 TAATAATGCT
Statistics
Matches: 239, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 239 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.36
Consensus pattern (120 bp):
ATTTATATGAAACTCAATGAGATAGTGATACATGGAAACTATGGTACATGGAAAATTGATATAAT
GAAATAAATGATATGTATCATAATATGTATATATATATGATTAGTTTCAATATGT
Found at i:103968317 original size:28 final size:28
Alignment explanation
Indices: 103968285--103968341 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
103968275 TCCCCGAGAT
*
103968285 AGCTAGATTAAGCTATTACGACATCAGA
1 AGCTAGATTAAGCTATCACGACATCAGA
103968313 AGCTAGATTAAGCTATCACGACATCAGA
1 AGCTAGATTAAGCTATCACGACATCAGA
103968341 A
1 A
103968342 ATATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (28 bp):
AGCTAGATTAAGCTATCACGACATCAGA
Found at i:103979241 original size:68 final size:68
Alignment explanation
Indices: 103979156--103979296 Score: 266
Period size: 68 Copynumber: 2.1 Consensus size: 68
103979146 TGGAACTAAC
103979156 TGAA-TCAAAGGAATTCTCCTAGAAAACAAAAATTGAGGAAACATTGCCAAAAGAAAGCACAAAG
1 TGAAGTCAAAGGAATTCTCCTAGAAAACAAAAATTGAGGAAACATTGCCAAAAGAAAGCACAAAG
103979220 TGT
66 TGT
*
103979223 TGAAGTCAAATGAATTCTCCTAGAAAACAAAAATTGAGGAAACATTGCCAAAAGAAAGCACAAAG
1 TGAAGTCAAAGGAATTCTCCTAGAAAACAAAAATTGAGGAAACATTGCCAAAAGAAAGCACAAAG
103979288 TGT
66 TGT
103979291 TGAAGT
1 TGAAGT
103979297 ATATACCTCA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 4 0.06
68 68 0.94
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (68 bp):
TGAAGTCAAAGGAATTCTCCTAGAAAACAAAAATTGAGGAAACATTGCCAAAAGAAAGCACAAAG
TGT
Found at i:103980067 original size:20 final size:19
Alignment explanation
Indices: 103980025--103980076 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
103980015 AAAAAAGTAA
**
103980025 TTTTATAATTTTTATGGTTT
1 TTTTATAATTTTTATGG-AC
103980045 TTTTATAATTTTTGA-GGAC
1 TTTTATAATTTTT-ATGGAC
103980064 TTTTATAATTTTT
1 TTTTATAATTTTT
103980077 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 15 0.52
21 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTATGGAC
Found at i:103980276 original size:21 final size:22
Alignment explanation
Indices: 103980252--103980308 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
103980242 CTTTGTATAT
103980252 TTTTATATTTTTTTAAATAA-A
1 TTTTATATTTTTTTAAATAATA
* * * *
103980273 TTTTAAAATTTTCTAAATAATT
1 TTTTATATTTTTTTAAATAATA
103980295 TTTTACTATTTTTT
1 TTTTA-TATTTTTT
103980309 ATATTTTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 17 0.63
22 5 0.19
23 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATATTTTTTTAAATAATA
Found at i:103980324 original size:19 final size:20
Alignment explanation
Indices: 103980289--103980347 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
103980279 AATTTTCTAA
103980289 ATAATTTTTTACT-ATTTTTT
1 ATAATTTTTTA-TAATTTTTT
**
103980309 AT-ATTTTTTATAATTTTAA
1 ATAATTTTTTATAATTTTTT
* *
103980328 ATAATTTTTAATGATTTTTT
1 ATAATTTTTTATAATTTTTT
103980348 GACCGTGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATAATTTTTTATAATTTTTT
Found at i:103980346 original size:10 final size:10
Alignment explanation
Indices: 103980261--103980346 Score: 61
Period size: 10 Copynumber: 8.5 Consensus size: 10
103980251 TTTTTATATT
103980261 TTTTTAAATAA
1 TTTTT-AATAA
*
103980272 ATTTTAA-AA
1 TTTTTAATAA
103980281 TTTTCTAAATAA
1 TTTT-T-AATAA
*
103980293 TTTTTTACT-A
1 -TTTTTAATAA
*
103980303 TTTTTTAT-A
1 TTTTTAATAA
*
103980312 TTTTTTATAA
1 TTTTTAATAA
*
103980322 TTTTAAATAA
1 TTTTTAATAA
*
103980332 TTTTTAATGA
1 TTTTTAATAA
103980342 TTTTT
1 TTTTT
103980347 TGACCGTGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
9 20 0.33
10 26 0.43
11 8 0.13
12 3 0.05
13 4 0.07
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:103981347 original size:19 final size:18
Alignment explanation
Indices: 103981311--103981390 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 18
103981301 TGACAATTAA
*
103981311 TTAAAAATTA-AAAAAAT
1 TTAAAAATTATAAAGAAT
103981328 TGTAAAAATTATAAAGAAT
1 T-TAAAAATTATAAAGAAT
*
103981347 TT-AAAATTTTCAAAAGAAT
1 TTAAAAATTAT--AAAGAAT
103981366 TGTAAAAATTATAAAGAAT
1 T-TAAAAATTATAAAGAAT
103981385 TTAAAA
1 TTAAAA
103981391 TAAAAAATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
17 8 0.15
18 15 0.28
19 23 0.43
20 1 0.02
21 7 0.13
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (18 bp):
TTAAAAATTATAAAGAAT
Found at i:103993627 original size:50 final size:50
Alignment explanation
Indices: 103993552--103993728 Score: 223
Period size: 50 Copynumber: 3.5 Consensus size: 50
103993542 CCATGGAAAC
*
103993552 AAGTGATAAGTGATAGA-TTCGGCTACACTTATCTGATCAAGGACAAATTA
1 AAGTGATAAGTGATA-ACTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
103993602 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
103993652 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * * *
103993702 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAACTTCGGCTAC
103993729 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.01
50 87 0.78
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:103993744 original size:31 final size:31
Alignment explanation
Indices: 103993706--103993883 Score: 257
Period size: 31 Copynumber: 5.7 Consensus size: 31
103993696 AAATGACAAC
*
103993706 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
103993737 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
103993768 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
103993799 TGAAAAGTGGCAGCTCCGGCTACATGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* **
103993830 TGAAAAATGGTAGCACCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
103993861 TGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
103993884 AAGTGACTAG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:103994018 original size:47 final size:46
Alignment explanation
Indices: 103993914--103994081 Score: 218
Period size: 47 Copynumber: 3.7 Consensus size: 46
103993904 CAAGTGATTT
103993914 CTGTATAAGACCATATCT-GGATATGGCATCGGTGTG--ATTGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATTGCTA
103993957 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATAT-TGCTA
* * * *
103994004 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATAT-TG-CTA
* * *
103994052 C-GTGTAAGACCATAGCTGGGCTATGGCATC
1 CTGTATAAGACCATATCTGGGATATGGCATC
103994082 ATTATGTAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
43 18 0.16
44 18 0.16
46 2 0.02
47 70 0.63
48 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATTGCTA
Found at i:103996033 original size:7 final size:8
Alignment explanation
Indices: 103996017--103996045 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
103996007 GATAGTCTAG
103996017 AAAATAAA
1 AAAATAAA
103996025 AAAATAAA
1 AAAATAAA
103996033 AAAATAAA
1 AAAATAAA
103996041 AAAAT
1 AAAAT
103996046 TCTTGATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:103998438 original size:50 final size:50
Alignment explanation
Indices: 103998363--103998539 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
103998353 CCATGGAAAC
103998363 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
103998413 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
103998463 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
103998513 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
103998540 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:103998555 original size:31 final size:31
Alignment explanation
Indices: 103998517--103998694 Score: 259
Period size: 31 Copynumber: 5.7 Consensus size: 31
103998507 AAATGACAAC
*
103998517 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
103998548 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
103998579 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
103998610 TGAAAAGTGGCAG-TTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTT-CGGCTACCTGATCAG
* **
103998641 TGAAAAATGGTAGCACCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
103998672 TGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
103998695 AAGTGACAAG
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 2 0.02
31 130 0.98
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:103998705 original size:7 final size:7
Alignment explanation
Indices: 103998693--103998721 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
103998683 AGCTTTGGCT
103998693 ACAAGTG
1 ACAAGTG
103998700 ACAAGTG
1 ACAAGTG
103998707 ACAAGTG
1 ACAAGTG
103998714 ACAAGTG
1 ACAAGTG
103998721 A
1 A
103998722 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:103998794 original size:47 final size:47
Alignment explanation
Indices: 103998725--103998897 Score: 240
Period size: 47 Copynumber: 3.7 Consensus size: 47
103998715 CAAGTGATTT
* *
103998725 CTGTATAAGACCATATCTGGGATATGGCATCTGTGTGATAAATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTA
*
103998772 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTA
* * * *
103998819 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATG-CTA
* * *
103998867 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
103998898 TTATGTAAAG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
47 111 0.97
48 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTA
Found at i:104019914 original size:25 final size:25
Alignment explanation
Indices: 104019880--104019935 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
104019870 GACCTCAGCA
104019880 TGCTCTCTGAT-TATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGCCAG
*
104019905 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACGCCAG
104019930 TGCTCT
1 TGCTCT
104019936 GATTAGCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
TGCTCTCTGATATTTAGCACGCCAG
Found at i:104019964 original size:22 final size:22
Alignment explanation
Indices: 104019902--104019981 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
104019892 ATTAGCACGC
*
104019902 CAGTGCTCTCTGATATTTAGCACGT
1 CAGTGCTCTCTG-TA--TAGCACTT
104019927 CAGTG--CTCTG-ATTAGCACATT
1 CAGTGCTCTCTGTA-TAGCAC-TT
*
104019948 -TGTGCTCTCTGTATAGCACTT
1 CAGTGCTCTCTGTATAGCACTT
104019969 CAGTGCTCTCTGT
1 CAGTGCTCTCTGT
104019982 TCATTAGTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
20 10 0.21
21 4 0.09
22 22 0.47
23 6 0.13
25 5 0.11
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (22 bp):
CAGTGCTCTCTGTATAGCACTT
Found at i:104025275 original size:22 final size:22
Alignment explanation
Indices: 104025247--104025299 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
104025237 CGACGGATAC
104025247 GGTTTATGGGTGTTACATTAAG
1 GGTTTATGGGTGTTACATTAAG
104025269 GGTTTATGGGTGTTACATTAAG
1 GGTTTATGGGTGTTACATTAAG
104025291 GGTTTATGG
1 GGTTTATGG
104025300 TTTATGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.42
Consensus pattern (22 bp):
GGTTTATGGGTGTTACATTAAG
Found at i:104025433 original size:16 final size:15
Alignment explanation
Indices: 104025413--104025480 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
104025403 GGGAGGAATG
104025413 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
* *
104025428 GTAATAAAGTTGTAAT
1 G-AATAGAGCTGTAAT
104025444 GGAATAGAGCTGTAAT
1 -GAATAGAGCTGTAAT
*
104025460 AGAATAGACCTGTAAT
1 -GAATAGAGCTGTAAT
104025476 GAATA
1 GAATA
104025481 ATTCAGTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 6 0.13
16 38 0.84
17 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (15 bp):
GAATAGAGCTGTAAT
Found at i:104025474 original size:32 final size:32
Alignment explanation
Indices: 104025409--104025480 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
104025399 GGTTGGGAGG
**
104025409 AATGGAATAGAGCTGTAATGTAATAAAGTTGT
1 AATGGAATAGAGCTGTAATGTAATAAACCTGT
*
104025441 AATGGAATAGAGCTGTAATAG-AATAGACCTGT
1 AATGGAATAGAGCTGTAAT-GTAATAAACCTGT
104025473 AAT-GAATA
1 AATGGAATA
104025481 ATTCAGTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 5 0.14
32 30 0.83
33 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (32 bp):
AATGGAATAGAGCTGTAATGTAATAAACCTGT
Found at i:104029280 original size:14 final size:14
Alignment explanation
Indices: 104029270--104029304 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
104029260 AATGTTTATT
*
104029270 GTTTTTGGTTTAGA
1 GTTTATGGTTTAGA
104029284 GTTTATGGTTTAGA
1 GTTTATGGTTTAGA
104029298 GTTTATG
1 GTTTATG
104029305 ATTTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:104029488 original size:7 final size:7
Alignment explanation
Indices: 104029476--104029532 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
104029466 AATATATATA
104029476 TTTAGGG
1 TTTAGGG
*
104029483 TTTAGGA
1 TTTAGGG
*
104029490 TATA-GG
1 TTTAGGG
**
104029496 TTTATAG
1 TTTAGGG
104029503 TTTAGGG
1 TTTAGGG
104029510 TTTA-GG
1 TTTAGGG
104029516 TTTA-GG
1 TTTAGGG
104029522 TTTAGGG
1 TTTAGGG
104029529 TTTA
1 TTTA
104029533 CTATTGGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
6 16 0.39
7 25 0.61
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:104029499 original size:20 final size:19
Alignment explanation
Indices: 104029476--104029527 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
104029466 AATATATATA
104029476 TTTAGGGTTTAGGATATAGG
1 TTTA-GGTTTAGGATATAGG
* * *
104029496 TTTATAGTTTAGGGTTTAGG
1 TTTA-GGTTTAGGATATAGG
104029516 TTTAGGTTTAGG
1 TTTAGGTTTAGG
104029528 GTTTACTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (19 bp):
TTTAGGTTTAGGATATAGG
Found at i:104029530 original size:13 final size:13
Alignment explanation
Indices: 104029476--104029532 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
104029466 AATATATATA
104029476 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
* *
104029489 ATATA-GGTTTATAG
1 -TTTAGGGTTTA-GG
104029503 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
104029516 TTTA-GGTTTAGGG
1 TTTAGGGTTTA-GG
104029529 TTTA
1 TTTA
104029533 CTATTGGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 20 0.56
14 10 0.28
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:104029760 original size:17 final size:18
Alignment explanation
Indices: 104029738--104029771 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104029728 TATTTGTTTT
104029738 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
104029755 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
104029772 TTAAGAGATA
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:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:104029804 original size:29 final size:27
Alignment explanation
Indices: 104029735--104029806 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
104029725 TAATATTTGT
* *
104029735 TTTAATATATTAAAATTATCAATATAG
1 TTTAATATATTAAAATAATCAATAAAG
104029762 TTTAA-ATTATTTAAGAGATAAT-AATAAAG
1 TTTAATA-TA-TTAA-A-ATAATCAATAAAG
104029791 TTTATATATATTAAAA
1 TTTA-ATATATTAAAA
104029807 CAAAACAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
26 1 0.03
27 8 0.22
28 5 0.14
29 15 0.41
30 7 0.19
31 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (27 bp):
TTTAATATATTAAAATAATCAATAAAG
Found at i:104035119 original size:24 final size:24
Alignment explanation
Indices: 104035087--104035133 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
104035077 TTCAACTTAG
104035087 TAAGAGAAACATAGGAAGAGGCAA
1 TAAGAGAAACATAGGAAGAGGCAA
*
104035111 TAAGGGAAACATAGGAAGAGGCA
1 TAAGAGAAACATAGGAAGAGGCA
104035134 GGTGTTGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.32, T:0.09
Consensus pattern (24 bp):
TAAGAGAAACATAGGAAGAGGCAA
Found at i:104051715 original size:47 final size:47
Alignment explanation
Indices: 104051642--104051738 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
104051632 AAATTTACAC
104051642 GCAAGGTTTTTACCTCTAAACGTGTTGCTTATAAACTGGAGGTTGTT
1 GCAAGGTTTTTACCTCTAAACGTGTTGCTTATAAACTGGAGGTTGTT
* *
104051689 GCAAGGTTTTTACCTCTAAACTTGTTGCTTATAAATTGGAGGTTGTT
1 GCAAGGTTTTTACCTCTAAACGTGTTGCTTATAAACTGGAGGTTGTT
104051736 GCA
1 GCA
104051739 TATATACATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (47 bp):
GCAAGGTTTTTACCTCTAAACGTGTTGCTTATAAACTGGAGGTTGTT
Found at i:104059237 original size:16 final size:16
Alignment explanation
Indices: 104059216--104059257 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
104059206 GTCACATGAC
104059216 AATTAAATTTGTTTAA
1 AATTAAATTTGTTTAA
104059232 AATTAAATTTGTTTAA
1 AATTAAATTTGTTTAA
104059248 AATTAAATTT
1 AATTAAATTT
104059258 AAATATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
AATTAAATTTGTTTAA
Found at i:104059590 original size:19 final size:18
Alignment explanation
Indices: 104059566--104059608 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
104059556 TAAAAGAATT
104059566 ATTTTTA-AATATCTTTACA
1 ATTTTTATAATA--TTTACA
104059585 ATTTTTTATAATATTTACA
1 A-TTTTTATAATATTTACA
104059604 ATTTT
1 ATTTT
104059609 CTTTTACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 8 0.36
20 6 0.27
21 4 0.18
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTATAATATTTACA
Found at i:104059697 original size:18 final size:19
Alignment explanation
Indices: 104059661--104059703 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
104059651 TTGTGAATTT
104059661 TATTTTTATAAATTATATA
1 TATTTTTATAAATTATATA
* * *
104059680 -ATTTTTCTAGATTTTATA
1 TATTTTTATAAATTATATA
104059698 TATTTT
1 TATTTT
104059704 AGTTTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTTATAAATTATATA
Found at i:104060921 original size:23 final size:22
Alignment explanation
Indices: 104060890--104060940 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
104060880 TGGGCTTCAA
*
104060890 TTTTTAATTTGGTACCTGAGTT
1 TTTTTAATTTGATACCTGAGTT
*
104060912 TTTTTCAATTTGATACTTGAGTT
1 TTTTT-AATTTGATACCTGAGTT
104060935 TGTTTT
1 T-TTTT
104060941 GACCCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 16 0.64
24 4 0.16
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (22 bp):
TTTTTAATTTGATACCTGAGTT
Found at i:104067888 original size:14 final size:14
Alignment explanation
Indices: 104067866--104067931 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
104067856 AATTGATGAT
104067866 ACATATATATATAA
1 ACATATATATATAA
*
104067880 AC--ATGTATAT-A
1 ACATATATATATAA
*
104067891 ACATACATATATAA
1 ACATATATATATAA
*
104067905 ACATATATATACATAT
1 ACATATATAT--ATAA
104067921 ACATATATATA
1 ACATATATATA
104067932 AATAAATCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
11 3 0.07
12 7 0.17
13 6 0.14
14 13 0.31
16 13 0.31
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.35
Consensus pattern (14 bp):
ACATATATATATAA
Found at i:104067900 original size:25 final size:26
Alignment explanation
Indices: 104067866--104067929 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
104067856 AATTGATGAT
* *
104067866 ACATATATATATAAACATGTATATA-
1 ACATACATATATAAACATATATATAC
104067891 ACATACATATATAAACATATATATAC
1 ACATACATATATAAACATATATATAC
*
104067917 ATATACATATATA
1 ACATACATATATA
104067930 TAAATAAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 23 0.66
26 12 0.34
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (26 bp):
ACATACATATATAAACATATATATAC
Found at i:104067930 original size:10 final size:10
Alignment explanation
Indices: 104067893--104067931 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
104067883 TGTATATAAC
104067893 ATACATATAT
1 ATACATATAT
*
104067903 AAACATATAT
1 ATACATATAT
*
104067913 ATACATATAC
1 ATACATATAT
*
104067923 ATATATATA
1 ATACATATA
104067932 AATAAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (10 bp):
ATACATATAT
Found at i:104069033 original size:23 final size:23
Alignment explanation
Indices: 104069007--104069054 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 23
104068997 ATGGAGATAA
104069007 GCAGAAGTAGTTCTTTTGGAAGG
1 GCAGAAGTAGTTCTTTTGGAAGG
104069030 GC---AGTAGTTCTTTTGGAAGG
1 GCAGAAGTAGTTCTTTTGGAAGG
104069050 GCAGA
1 GCAGA
104069055 GCGGAGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 20 0.91
23 2 0.09
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.29
Consensus pattern (23 bp):
GCAGAAGTAGTTCTTTTGGAAGG
Done.