Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 50 of 322
Found at i:15264646 original size:22 final size:23
Alignment explanation
Indices: 15264604--15264648 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
15264594 ATCTTAAAAC
*
15264604 TAAAATTTTATTAGTATTTTTAT
1 TAAAATATTATTAGTATTTTTAT
*
15264627 TAAAATATT-TTATTATTTTTAT
1 TAAAATATTATTAGTATTTTTAT
15264649 AGCTCGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TAAAATATTATTAGTATTTTTAT
Found at i:15273161 original size:26 final size:27
Alignment explanation
Indices: 15273132--15273191 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
15273122 TATCATCCCT
15273132 ATTTTACCTC-CAAT-AATTTTTTGATG
1 ATTTTACC-CACAATAAATTTTTTGATG
* *
15273158 ATTTAACCCACAGTAAATTTTTTGATG
1 ATTTTACCCACAATAAATTTTTTGATG
15273185 ATTTTAC
1 ATTTTAC
15273192 ACTTGGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.34
27 18 0.62
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (27 bp):
ATTTTACCCACAATAAATTTTTTGATG
Found at i:15276060 original size:27 final size:27
Alignment explanation
Indices: 15276030--15276211 Score: 152
Period size: 27 Copynumber: 6.7 Consensus size: 27
15276020 ACGGGGTTTT
* *
15276030 CCATAAAGGCTTCATTTTCATAGACCG
1 CCATAAAGGCTTCCTTTTCATAGATCG
* ** *
15276057 CCATAAAGGTTTATTTTTAATAGATCG
1 CCATAAAGGCTTCCTTTTCATAGATCG
** ** *
15276084 CCATAAATTCTTTATTTTTTCATAGATTG
1 CCATAAAGGC-TT-CCTTTTCATAGATCG
* * *
15276113 CCACAAAAGCTTCCTTTTAATAGATCG
1 CCATAAAGGCTTCCTTTTCATAGATCG
* *
15276140 CCACAAAGGCTTCCTTTTCATAGATCA
1 CCATAAAGGCTTCCTTTTCATAGATCG
* *
15276167 CCACAACA-ACTTCCTTTTCATAGATCG
1 CCATAA-AGGCTTCCTTTTCATAGATCG
15276194 CC-TCAAAGGCTTCCTTTT
1 CCAT-AAAGGCTTCCTTTT
15276212 TCTAGAGTGT
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.80
28 5 0.04
29 19 0.15
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (27 bp):
CCATAAAGGCTTCCTTTTCATAGATCG
Found at i:15276171 original size:54 final size:54
Alignment explanation
Indices: 15276100--15276211 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
15276090 ATTCTTTATT
**
15276100 TTTTCATAGATTGCCACAA-AAGCTTCCTTTTAATAGATCGCCACAAAGGCTTCC
1 TTTTCATAGATCACCACAACAA-CTTCCTTTTAATAGATCGCCACAAAGGCTTCC
* *
15276154 TTTTCATAGATCACCACAACAACTTCCTTTTCATAGATCGCCTCAAAGGCTTCC
1 TTTTCATAGATCACCACAACAACTTCCTTTTAATAGATCGCCACAAAGGCTTCC
15276208 TTTT
1 TTTT
15276212 TCTAGAGTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (54 bp):
TTTTCATAGATCACCACAACAACTTCCTTTTAATAGATCGCCACAAAGGCTTCC
Found at i:15276718 original size:18 final size:19
Alignment explanation
Indices: 15276695--15276743 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
15276685 AAGTTTTATT
*
15276695 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
15276713 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
15276732 TTTAATTTTTAT
1 TTT-ATTTTTAT
15276744 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:15276723 original size:22 final size:22
Alignment explanation
Indices: 15276686--15276743 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
15276676 CAAGTTGTAA
* *
15276686 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
15276708 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
15276730 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
15276744 GTAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:15300386 original size:28 final size:28
Alignment explanation
Indices: 15300323--15300420 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
15300313 ATATTAAGTC
*
15300323 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15300350 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
15300378 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
15300407 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15300421 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15303643 original size:21 final size:21
Alignment explanation
Indices: 15303611--15303652 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15303601 GCACACAATT
15303611 AACAATAAAAATTAAAACAAAA
1 AACAATAAAAATTAAAA-AAAA
15303633 AACAA-AAAAATTAAAAAAAA
1 AACAATAAAAATTAAAAAAAA
15303653 TTCTATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (21 bp):
AACAATAAAAATTAAAAAAAA
Found at i:15317294 original size:25 final size:25
Alignment explanation
Indices: 15317266--15317324 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
15317256 AGCAAATTGT
15317266 TTGGAAAGCCTTTATGGA-GATTTAG
1 TTGGAAAGCCTTTAT-GACGATTTAG
*
15317291 TTGGAAAGCCTTTATGACGATTTAT
1 TTGGAAAGCCTTTATGACGATTTAG
*
15317316 TTGGGAAGC
1 TTGGAAAGC
15317325 TTTTTTGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (25 bp):
TTGGAAAGCCTTTATGACGATTTAG
Found at i:15322506 original size:25 final size:25
Alignment explanation
Indices: 15322468--15322579 Score: 127
Period size: 25 Copynumber: 4.5 Consensus size: 25
15322458 AAACCAAACC
* *
15322468 AAGCTTTTGTGGTGAATTATTTGGG
1 AAGCCTTTGTGGCGAATTATTTGGG
* * * *
15322493 AAGTCTTTGTGGTGATTTACTT-GG
1 AAGCCTTTGTGGCGAATTATTTGGG
*
15322517 AAGCCTTTGTGGCGAATTGTTTGGG
1 AAGCCTTTGTGGCGAATTATTTGGG
* *
15322542 AAACCTTTGTGGCGATTTATTTGGG
1 AAGCCTTTGTGGCGAATTATTTGGG
*
15322567 AAGCTTTTGTGGC
1 AAGCCTTTGTGGC
15322580 TAGTTACTTG
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
24 19 0.26
25 53 0.74
ACGTcount: A:0.18, C:0.10, G:0.31, T:0.41
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAATTATTTGGG
Found at i:15322534 original size:49 final size:50
Alignment explanation
Indices: 15322468--15322579 Score: 154
Period size: 49 Copynumber: 2.3 Consensus size: 50
15322458 AAACCAAACC
* ** *
15322468 AAGCTTTTGTGGTGAATTATTTGGGAAGTCTTTGTGGTGATTTACTT-GG
1 AAGCTTTTGTGGCGAATTATTTGGGAAACCTTTGTGGCGATTTACTTGGG
* * *
15322517 AAGCCTTTGTGGCGAATTGTTTGGGAAACCTTTGTGGCGATTTATTTGGG
1 AAGCTTTTGTGGCGAATTATTTGGGAAACCTTTGTGGCGATTTACTTGGG
15322567 AAGCTTTTGTGGC
1 AAGCTTTTGTGGC
15322580 TAGTTACTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
49 40 0.74
50 14 0.26
ACGTcount: A:0.18, C:0.10, G:0.31, T:0.41
Consensus pattern (50 bp):
AAGCTTTTGTGGCGAATTATTTGGGAAACCTTTGTGGCGATTTACTTGGG
Found at i:15330045 original size:51 final size:51
Alignment explanation
Indices: 15329978--15330177 Score: 244
Period size: 51 Copynumber: 3.9 Consensus size: 51
15329968 TTAATGATAC
* * * *
15329978 TGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATC
1 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATT
* * * * *
15330029 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTAATCA-AAGCTATT
1 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATT
* * * *
15330080 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-T-ATTATTT
1 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTA-TT
15330130 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
15330178 TTCACTTTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 43 0.35
51 76 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATT
Found at i:15330167 original size:101 final size:102
Alignment explanation
Indices: 15329985--15330167 Score: 307
Period size: 101 Copynumber: 1.8 Consensus size: 102
15329975 TACTGGTTCA
15329985 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
15330050 CATAGTACTACACACGTAATCAAAGCTATTTGGTACG
66 CATAGTACTACACACGTAATCAAAGCTATTTGGTACG
* ** *
15330087 CATAGTAGCCTGCACATAGTACTACACATGTGACC-T-ATTATTTTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTA-TCCGATACACGTAGTAGCCTGC
15330150 ACATAGTACTACACACGT
65 ACATAGTACTACACACGT
15330168 GACCATCACT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 3 0.04
101 38 0.50
102 35 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTAATCAAAGCTATTTGGTACG
Found at i:15330192 original size:101 final size:102
Alignment explanation
Indices: 15329980--15330207 Score: 275
Period size: 101 Copynumber: 2.2 Consensus size: 102
15329970 AATGATACTG
15329980 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
* **
15330045 CTGCACATAGTACTACACACGTAATCAAAGCTATTTG
66 CTGCACATAGTACTACACACGTAACCAAAGCTATTAC
* * * ** *
15330082 GTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-T-ATTATTTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTA-TCCGATACACGTAGTAG
* *
15330145 CCTGCACATAGTACTACACACGTGACCATCA-CT-TTCAC
65 CCTGCACATAGTACTACACACGTAACCA-AAGCTATT-AC
* * *
15330183 TTTCACATAGTGGCCTACACATAGT
1 GTTCACATAGTAGCCTGCACATAGT
15330208 CCATGCCACA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
100 5 0.05
101 63 0.59
102 39 0.36
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTAACCAAAGCTATTAC
Found at i:15345834 original size:131 final size:131
Alignment explanation
Indices: 15345511--15346004 Score: 645
Period size: 131 Copynumber: 3.8 Consensus size: 131
15345501 CTTTACACTT
* * * * *
15345511 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAACATCTGCAATTTC
1 GAAGATAAGATCCGCCGTCCTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGCAATTTC
* * * * * *
15345576 CAAACTATTTCACTACTGGTCAGGGACATAGGACTTGTGGCTTAAATTTGCTTCCTTAC-ACT--
66 CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTACTGG
*
15345638 T
131 G
* * * *
15345639 GAAGATAAGATTCGCCGTCCTCGATCTGCTCTACTACTGCTTCTA-GAGACAAGATCTGCGATTT
1 GAAGATAAGATCCGCCGTCCTCGATCTGCTCCACTACTGCTT-AAGGAGACAAGATCTGCAATTT
*
15345703 CCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTG
65 CCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTACTG
15345768 GG
130 GG
* * * *
15345770 GAAGATAAGATCCGCCATCTTCGATCTGCTCCACTATTGCTTAAGGAGATAAGATCTGCAATTTC
1 GAAGATAAGATCCGCCGTCCTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGCAATTTC
* * *
15345835 CAACCTATTCTACTGCTGGTCAAGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTTCTGG
66 CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTACTGG
15345900 G
131 G
* * * * *
15345901 GAAGATAAGATCTGCCGTCCTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGTAATTTC
1 GAAGATAAGATCCGCCGTCCTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGCAATTT-
* * * *
15345966 CCAACCTATTCCAGTGTTGGCCAGGGATATAGGACTTGT
65 CCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGT
15346005 AATCTTCGAT
Statistics
Matches: 321, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
128 110 0.34
129 2 0.01
130 1 0.00
131 175 0.55
132 33 0.10
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
GAAGATAAGATCCGCCGTCCTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGCAATTTC
CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTACTGG
G
Found at i:15346108 original size:87 final size:87
Alignment explanation
Indices: 15346009--15346403 Score: 583
Period size: 87 Copynumber: 4.5 Consensus size: 87
15345999 ACTTGTAATC
* * * * * *
15346009 TTCGATCTGCTTCACTGTCGACGTAGAAAGGCAAGATTTGCTATCTTTAACCTGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
*
15346074 CCGAGGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * **
15346096 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCAATCTTTAACTTGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
*
15346161 CCGATGGAGGCAAGGCTTTTTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
15346183 TTCGATCTGTTTCGCTGTCAATGCAGGAAGGCAAGATTTGCTATCTTTAACCCGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
*
15346248 CTGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
15346270 TTCGATCTGCTTCGCTGTCAATGTAAGAAGGCAAGATCTACTATCTTTAACCCGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
* *
15346335 CCAATGGAGGCAAGGCTTTGCT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
15346357 TTCGATCTGTTTTGCTGTCGATGTAGGAAGGCAAGATCTGCTATCTT
1 TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTT
15346404 CACTGATCTG
Statistics
Matches: 278, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 278 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:15348151 original size:14 final size:15
Alignment explanation
Indices: 15348132--15348164 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15348122 TCTCATTTTC
*
15348132 TTTTTCTTTTC-CTT
1 TTTTTCTTCTCTCTT
15348146 TTTTTCTTCTCTCTT
1 TTTTTCTTCTCTCTT
15348161 TTTT
1 TTTT
15348165 CATTTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTTCTCTCTT
Found at i:15353373 original size:4 final size:4
Alignment explanation
Indices: 15353364--15353390 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15353354 TAAAATATAA
15353364 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
15353391 AGGTATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:15361780 original size:16 final size:17
Alignment explanation
Indices: 15361751--15361785 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15361741 ATTTATATTA
*
15361751 TTTTTTTAACATTTTAC
1 TTTTTTTAACATTTAAC
15361768 TTTTTTTAA-ATTTAAC
1 TTTTTTTAACATTTAAC
15361784 TT
1 TT
15361786 CGATCACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTTAACATTTAAC
Found at i:15364674 original size:100 final size:100
Alignment explanation
Indices: 15364501--15364700 Score: 303
Period size: 100 Copynumber: 2.0 Consensus size: 100
15364491 GTAAGATAGG
* *
15364501 GCGAAGAGCCGTCTACTAGGGTGGTCGGAATAGAAGATAGGGAGGAGCAAGTGGAACTTGGAGTA
1 GCGAAGAGCCATCTACTAGGGTGGTCGGAATAGAAGATAGGGAGGAGAAAGTGGAACTTGGAGTA
* *
15364566 AGGAAGTAGGAGAGGAAATAGAGGTTGCTTGCCTT
66 AGGAAGTAGGAAAGGAAATAGAGGTTGCCTGCCTT
* *
15364601 GCGAAGAGCCATCTACTAGGGTGGT-TGAAGTAGAAGATAGGGAGGAGAAAGTGGAACTTGGGGT
1 GCGAAGAGCCATCTACTAGGGTGGTCGGAA-TAGAAGATAGGGAGGAGAAAGTGGAACTTGGAGT
* * *
15364665 AAGGAAGTAGGAAAGGCAATATAGGTTTCCTGCCTT
65 AAGGAAGTAGGAAAGGAAATAGAGGTTGCCTGCCTT
15364701 TGACCTGAGG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 3 0.03
100 87 0.97
ACGTcount: A:0.32, C:0.11, G:0.38, T:0.20
Consensus pattern (100 bp):
GCGAAGAGCCATCTACTAGGGTGGTCGGAATAGAAGATAGGGAGGAGAAAGTGGAACTTGGAGTA
AGGAAGTAGGAAAGGAAATAGAGGTTGCCTGCCTT
Found at i:15383367 original size:18 final size:19
Alignment explanation
Indices: 15383328--15383390 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
15383318 ATTTTTTTGT
*
15383328 TTTTCTTTT-TTTCTACTC-
1 TTTTCTTTTCTCTCT-CTCA
*
15383346 TTTTCTTTAT-TCT-TTTCA
1 TTTTCTTT-TCTCTCTCTCA
15383364 TTTT-TTTTCTCTCTCTCA
1 TTTTCTTTTCTCTCTCTCA
15383382 TTTTCTTTT
1 TTTTCTTTT
15383391 GATTTTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.03
17 8 0.22
18 21 0.57
19 7 0.19
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTTTTCTCTCTCTCA
Found at i:15385535 original size:12 final size:13
Alignment explanation
Indices: 15385518--15385550 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
15385508 ATATATATCC
15385518 TTTTTTTTCA-AA
1 TTTTTTTTCACAA
15385530 TTTTTTTTCACGAA
1 TTTTTTTTCAC-AA
15385544 TTTTTTT
1 TTTTTTT
15385551 CTTCGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:15386957 original size:44 final size:44
Alignment explanation
Indices: 15386894--15386980 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
15386884 TTCAAAGAAG
15386894 TTGAAAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTT
1 TTGAAAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTT
*
15386938 TTGAAAATGTTTAGCTCGTCTCTAAGCTCTTTGCTATCATTTT
1 TTGAAAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTT
15386981 CCTCAATTCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (44 bp):
TTGAAAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTT
Found at i:15395368 original size:12 final size:12
Alignment explanation
Indices: 15395351--15395377 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15395341 AGTCCGAAGT
15395351 ATATATATATAC
1 ATATATATATAC
15395363 ATATATATATAC
1 ATATATATATAC
15395375 ATA
1 ATA
15395378 AGTATGCCCA
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:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:15395855 original size:29 final size:29
Alignment explanation
Indices: 15395820--15395944 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
15395810 GTTGTGAGAT
* *
15395820 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
15395849 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
**
15395878 TGGCACTAAGTGTGC-A--TG---GTTGA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
* *
15395901 T-TCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
15395929 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
15395945 TGGTTGATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
22 12 0.16
23 5 0.06
25 1 0.01
26 1 0.01
28 10 0.13
29 48 0.62
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:15395928 original size:51 final size:51
Alignment explanation
Indices: 15395852--15395953 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
15395842 AAATGCATGG
15395852 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATT
*
15395903 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATT
15395954 ATTAAGCACT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (51 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATT
Found at i:15398162 original size:29 final size:29
Alignment explanation
Indices: 15398096--15398265 Score: 218
Period size: 29 Copynumber: 5.9 Consensus size: 29
15398086 TACATACTTG
* *
15398096 CATATGGCCCA-CTTGGCCCAA-TCTCATT
1 CATATGGCCCATC-AGGCCCAATTCACATT
*
15398124 TATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAATTCACATT
*
15398153 CATATGGCCCATCAGGCCCAATTCATATT
1 CATATGGCCCATCAGGCCCAATTCACATT
*
15398182 CATATGGCCCATCAGGCCCAATTCATATT
1 CATATGGCCCATCAGGCCCAATTCACATT
* *
15398211 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATCAGGCCCAATTCACATT
* * * *
15398240 TATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATCAGGCCCAATTCAC
15398266 CTTATATTCA
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 17 0.13
29 113 0.87
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTCACATT
Found at i:15399768 original size:9 final size:8
Alignment explanation
Indices: 15399722--15399764 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
15399712 AAAAAAAGAA
*
15399722 TTTAAGAT
1 TTTAGGAT
15399730 TTTAGGAT
1 TTTAGGAT
* *
15399738 TTTGGGGT
1 TTTAGGAT
15399746 TTTAGGAT
1 TTTAGGAT
15399754 TTTAGGAT
1 TTTAGGAT
15399762 TTT
1 TTT
15399765 TAGGGCGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (8 bp):
TTTAGGAT
Found at i:15401283 original size:20 final size:22
Alignment explanation
Indices: 15401254--15401293 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
15401244 ATTGATTTAT
*
15401254 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
15401274 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
15401294 CGTATTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:15403374 original size:19 final size:19
Alignment explanation
Indices: 15403352--15403388 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15403342 TTATTATAGG
15403352 CCAACTGTATTAAAATGGC
1 CCAACTGTATTAAAATGGC
* *
15403371 CCAACTGTGTTAATATGG
1 CCAACTGTATTAAAATGG
15403389 GCAAGGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
CCAACTGTATTAAAATGGC
Found at i:15405510 original size:25 final size:24
Alignment explanation
Indices: 15405481--15405530 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
15405471 CTTCAAAGTC
15405481 TGCAACACAATCCTTAAGTGATGCA
1 TGCAACACAATCCTTAAGTG-TGCA
*
15405506 TGCAACACAATTCTTAAGTGTGCA
1 TGCAACACAATCCTTAAGTGTGCA
15405530 T
1 T
15405531 CATACTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (24 bp):
TGCAACACAATCCTTAAGTGTGCA
Found at i:15413036 original size:300 final size:300
Alignment explanation
Indices: 15412440--15413037 Score: 672
Period size: 300 Copynumber: 2.0 Consensus size: 300
15412430 GGGGGAAAAG
* * * * *
15412440 TTGTAACATCCCGAATTAGGGCCTAGTTGAAACAGTGGTTTTGAGACCAAAAATCTGTGTTAGAA
1 TTGTAACATCCCGAATTAGGGCCTAATCGAAACAGTGGTTTCGAGACCAAAAATCTGAGATAGAA
* * * *
15412505 ATAACTATTTTATGATTATGATGAGGTTTATCTTATGAATGCATGCTTGTGTGAAAGTTTCATGA
66 ATAACTATTTTATGATTATGATGAGGTCTATCATATGAATGCATGATTGTGTGAAAATTTCATGA
* **
15412570 AGAAATTCTATGCATAAAATATCTAATTGCATTTTAGGGACGAAACTAAATAAAGCGCAAAACTT
131 AGAAATTATATGCATAAAATATCTAATTGCAAGTTAGGGACGAAACTAAATAAAGCGCAAAACTT
* * *
15412635 GCATTCTAGAAACTTTAAGCATGAAACTGCATTAGATTATGAATTATAAGGTCCTAATTAACAAT
196 GCATTCTAGAAACTTTAAGCATGAAACTGCATTAGAATATGAATTAGAAGGTCCTAAATAACAAT
15412700 TTGACCAATTTCTAAAATTTTGGACAAAAATGGACATGCA
261 TTGACCAATTTCTAAAATTTTGGACAAAAATGGACATGCA
* * * * *
15412740 TTGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCTGAGATAGAA
1 TTGTAACATCCCGAATTAGGGCCTAATCGAAACAGTGGTTTCGAGACCAAAAATCTGAGATAGAA
** * * *
15412805 ATAA-TAATTTTATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTG
66 ATAACT-ATTTTATGATTATGATGAGGTCTATCATATGAATGCATGATTGTGTGAAAATTTCATG
* * * * * * *
15412869 AAGAAATTATATGCATAAAGT-GCTTAATTTG-AAGTTATGGACTAAATTGAAT-AAGTTGCAAA
130 AAGAAATTATATGCATAAAATATC-TAA-TTGCAAGTTAGGGACGAAACTAAATAAAG-CGCAAA
* * * * * * * * *
15412931 ACTTTCATTCTAG-AAGTTTCTAGTATGAAATTGC-TTTGAAATATTAATTAGGAGGTCTTAAAT
192 ACTTGCATTCTAGAAACTTT-AAGCATGAAACTGCATTAG-AATATGAATTAGAAGGTCCTAAAT
* * *
15412994 -ATAATTTTACCAATTTCT-AAGTTTATGGACAAAAATTGGACATG
255 AACAATTTGACCAATTTCTAAAATTT-TGGACAAAAA-TGGACATG
15413038 GATGGAATTT
Statistics
Matches: 246, Mismatches: 44, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
298 5 0.02
299 39 0.16
300 199 0.81
301 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (300 bp):
TTGTAACATCCCGAATTAGGGCCTAATCGAAACAGTGGTTTCGAGACCAAAAATCTGAGATAGAA
ATAACTATTTTATGATTATGATGAGGTCTATCATATGAATGCATGATTGTGTGAAAATTTCATGA
AGAAATTATATGCATAAAATATCTAATTGCAAGTTAGGGACGAAACTAAATAAAGCGCAAAACTT
GCATTCTAGAAACTTTAAGCATGAAACTGCATTAGAATATGAATTAGAAGGTCCTAAATAACAAT
TTGACCAATTTCTAAAATTTTGGACAAAAATGGACATGCA
Found at i:15416302 original size:53 final size:54
Alignment explanation
Indices: 15416218--15416323 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 54
15416208 TAAAATTACC
*
15416218 AAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCTGTAAGGTAGAATTATT
1 AAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCAGTAAGGTAGAATTATT
* * *
15416272 AAAATACCCGT-TAGGGTAGAATT-ACTGAAATACCCCAGTAGGGTAGAATTAT
1 AAAATACCCCTGTAAGGTAGAATTAAC-GAAATACCCCAGTAAGGTAGAATTAT
15416324 CGAGATACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
52 2 0.04
53 35 0.74
54 10 0.21
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (54 bp):
AAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCAGTAAGGTAGAATTATT
Found at i:15416331 original size:27 final size:27
Alignment explanation
Indices: 15416219--15416333 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
15416209 AAAATTACCA
*
15416219 AAATACCCCTGTAAGGTAGAATTAACG
1 AAATACCCCTGTAAGGTAGAATTATCG
**
15416246 AAATACCCCTGTAAGGTAGAATTATTA
1 AAATACCCCTGTAAGGTAGAATTATCG
* *
15416273 AAATACCCGT-TAGGGTAGAATTA-CTG
1 AAATACCCCTGTAAGGTAGAATTATC-G
* *
15416299 AAATACCCCAGTAGGGTAGAATTATCG
1 AAATACCCCTGTAAGGTAGAATTATCG
*
15416326 AGATACCC
1 AAATACCC
15416334 TTGTGCGGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 20 0.27
27 54 0.72
28 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAAGGTAGAATTATCG
Found at i:15416332 original size:53 final size:53
Alignment explanation
Indices: 15416211--15416333 Score: 149
Period size: 53 Copynumber: 2.3 Consensus size: 53
15416201 TAAGTTGTAA
* * * *
15416211 AATTACCAAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCTGTAAGGTAG
1 AATTATCAAAATACCCGT-TAGGGTAGAATTAACGAAATACCCCAGTAAGGTAG
* *
15416265 AATTATTAAAATACCCGTTAGGGTAGAATT-ACTGAAATACCCCAGTAGGGTAG
1 AATTATCAAAATACCCGTTAGGGTAGAATTAAC-GAAATACCCCAGTAAGGTAG
* *
15416318 AATTATCGAGATACCC
1 AATTATCAAAATACCC
15416334 TTGTGCGGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.03
53 42 0.71
54 15 0.25
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (53 bp):
AATTATCAAAATACCCGTTAGGGTAGAATTAACGAAATACCCCAGTAAGGTAG
Found at i:15417046 original size:27 final size:26
Alignment explanation
Indices: 15417002--15417053 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15416992 CTCGCTGCAA
*
15417002 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
15417029 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
15417054 CCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:15419259 original size:43 final size:43
Alignment explanation
Indices: 15419147--15419261 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
15419137 TTTGAACTCA
* *
15419147 TTGAGTGGTCC-AGGTTCGTGA-GGTATGT-AGTATCCAAGCTCG
1 TTGAGTGGTCCGA-GTTCATGATGG-ATGTGAGCATCCAAGCTCG
* * * * * * *
15419189 TTGAGAGGTCTGAGTTTATTATAGATGTGAGCATCCGAGCTTG
1 TTGAGTGGTCCGAGTTCATGATGGATGTGAGCATCCAAGCTCG
15419232 TTGAGTGGTCCGAGTTCATGATGGATGTGA
1 TTGAGTGGTCCGAGTTCATGATGGATGTGA
15419262 TTCATGTAAC
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
42 18 0.32
43 38 0.68
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (43 bp):
TTGAGTGGTCCGAGTTCATGATGGATGTGAGCATCCAAGCTCG
Found at i:15419299 original size:51 final size:51
Alignment explanation
Indices: 15419220--15419319 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
15419210 TAGATGTGAG
* * * * *
15419220 CATCCGAGCTTGTTGAGTGGTCCGAGTTCATGATGGATGTGATT-CATGTAA
1 CATCCAAGCTCGTTGAGAGGCCCAAGTTCATGATGGATGTG-TTACATGTAA
*
15419271 CATCCAAGCTCGTTGAGAGGCCCAAGTTCATTATGGATGTGTTACATGT
1 CATCCAAGCTCGTTGAGAGGCCCAAGTTCATGATGGATGTGTTACATGT
15419320 TATGCAGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (51 bp):
CATCCAAGCTCGTTGAGAGGCCCAAGTTCATGATGGATGTGTTACATGTAA
Found at i:15421448 original size:28 final size:28
Alignment explanation
Indices: 15421407--15421481 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
15421397 TCTCGAAGTT
* * *
15421407 TCGCACACTCAGTGCCTTCAGGGATGTA
1 TCGCACACTAAGTGCCATCAGAGATGTA
** *
15421435 TCGCACACTAAGTGCCATCCTAGATGTC
1 TCGCACACTAAGTGCCATCAGAGATGTA
15421463 TCGCACACTAAGTGCCATC
1 TCGCACACTAAGTGCCATC
15421482 TTCAATAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCAGAGATGTA
Found at i:15421496 original size:28 final size:28
Alignment explanation
Indices: 15421465--15421561 Score: 124
Period size: 28 Copynumber: 3.4 Consensus size: 28
15421455 TAGATGTCTC
15421465 GCACACTAAGTGCCATCTTCAATAATTT
1 GCACACTAAGTGCCATCTTCAATAATTT
* **
15421493 GCACACTAAGTGCTAT-TTCTAGATGTTTT
1 GCACACTAAGTGCCATCTTC-A-ATAATTT
* *
15421522 GCACACTAAGTGCCATCCTCAATAATTA
1 GCACACTAAGTGCCATCTTCAATAATTT
15421550 GCACACTAAGTG
1 GCACACTAAGTG
15421562 TCGTTTTCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.05
28 32 0.55
29 21 0.36
30 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATCTTCAATAATTT
Found at i:15421531 original size:29 final size:29
Alignment explanation
Indices: 15421437--15421537 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 29
15421427 GGGATGTATC
* * *
15421437 GCACACTAAGTGCCA-TCCTAGATGTCTC
1 GCACACTAAGTGCCATTTCTAGATGTTTT
**
15421465 GCACACTAAGTGCCATCTTC-A-ATAATTT
1 GCACACTAAGTGCCAT-TTCTAGATGTTTT
*
15421493 GCACACTAAGTGCTATTTCTAGATGTTTT
1 GCACACTAAGTGCCATTTCTAGATGTTTT
15421522 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
15421538 CCTCAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.05
28 34 0.57
29 21 0.35
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
GCACACTAAGTGCCATTTCTAGATGTTTT
Found at i:15421532 original size:57 final size:56
Alignment explanation
Indices: 15421437--15421561 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 56
15421427 GGGATGTATC
* *
15421437 GCACACTAAGTGCCATCCTAGATGTCTCGCACACTAAGTGCCATCTTCAATAATTT
1 GCACACTAAGTGCCATCCTAGATGTCTCGCACACTAAGTGCCATCCTCAATAATTA
* * * *
15421493 GCACACTAAGTGCTATTTCTAGATGTTTTGCACACTAAGTGCCATCCTCAATAATTA
1 GCACACTAAGTGCCA-TCCTAGATGTCTCGCACACTAAGTGCCATCCTCAATAATTA
15421550 GCACACTAAGTG
1 GCACACTAAGTG
15421562 TCGTTTTCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 14 0.23
57 48 0.77
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (56 bp):
GCACACTAAGTGCCATCCTAGATGTCTCGCACACTAAGTGCCATCCTCAATAATTA
Found at i:15423649 original size:23 final size:23
Alignment explanation
Indices: 15423613--15423658 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15423603 CTATCTCCTG
*
15423613 TTTAGTTTTATTTTTACTTGTAA
1 TTTAGGTTTATTTTTACTTGTAA
* *
15423636 TTTAGGTTTCTTTTTAGTTGTAA
1 TTTAGGTTTATTTTTACTTGTAA
15423659 GTATATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.63
Consensus pattern (23 bp):
TTTAGGTTTATTTTTACTTGTAA
Found at i:15424365 original size:32 final size:32
Alignment explanation
Indices: 15424324--15424387 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15424314 ACTTAGTTTA
*
15424324 ATCTCGCCTCCTTTGGGTATGATTGTAACAAC
1 ATCTCGCCTCATTTGGGTATGATTGTAACAAC
15424356 ATCTCGCCTCATTTGGGTATGATTGTAACAAC
1 ATCTCGCCTCATTTGGGTATGATTGTAACAAC
15424388 CCGTTTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (32 bp):
ATCTCGCCTCATTTGGGTATGATTGTAACAAC
Found at i:15424717 original size:17 final size:18
Alignment explanation
Indices: 15424692--15424734 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
15424682 TAAATTTTGA
15424692 TTAAGTAATAAGGTTAAT
1 TTAAGTAATAAGGTTAAT
**
15424710 TT-AGTAATTTGGTTAAT
1 TTAAGTAATAAGGTTAAT
15424727 TTAAGTAA
1 TTAAGTAA
15424735 AAAGAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (18 bp):
TTAAGTAATAAGGTTAAT
Found at i:15425642 original size:29 final size:29
Alignment explanation
Indices: 15425608--15425685 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
15425598 GGGTTATACC
*
15425608 GATTTGGCTTTGAGCCATGAATATAAGCT
1 GATTTGGCTTCGAGCCATGAATATAAGCT
* * *
15425637 GATTTGGCTTCGAGGCATGAATATCATCT
1 GATTTGGCTTCGAGCCATGAATATAAGCT
*
15425666 GATTTGGCTTCGGGCCATGA
1 GATTTGGCTTCGAGCCATGA
15425686 TATCAGTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (29 bp):
GATTTGGCTTCGAGCCATGAATATAAGCT
Found at i:15431600 original size:14 final size:14
Alignment explanation
Indices: 15431581--15431610 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15431571 ACCAGAGTTA
15431581 AATAATAAAGAAAC
1 AATAATAAAGAAAC
15431595 AATAATAAAGAAAC
1 AATAATAAAGAAAC
15431609 AA
1 AA
15431611 CCCAAACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (14 bp):
AATAATAAAGAAAC
Found at i:15434616 original size:47 final size:47
Alignment explanation
Indices: 15434562--15434657 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
15434552 TGACAAAGGT
*
15434562 AACCCACTCACAAAGTCCATTGTTACTCTTTCCCACTTCCATAGCGG
1 AACCCACTCACAAAGCCCATTGTTACTCTTTCCCACTTCCATAGCGG
* *
15434609 AACCCACTCACAAAGCCCATTGTTCCTCTTTCCCACTTCCATAGTGG
1 AACCCACTCACAAAGCCCATTGTTACTCTTTCCCACTTCCATAGCGG
15434656 AA
1 AA
15434658 TTTTCACAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.36, G:0.10, T:0.27
Consensus pattern (47 bp):
AACCCACTCACAAAGCCCATTGTTACTCTTTCCCACTTCCATAGCGG
Found at i:15439645 original size:70 final size:70
Alignment explanation
Indices: 15439532--15439670 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
15439522 TGATTTCCAT
15439532 GCAATCTAGTGCAGATTTATCCTTAGAACAATGGTAAAACCTGAATCCAGGGGTTGAAGAAGTTT
1 GCAATCTAGTGCAGATTTATCCTTAGAACAATGGTAAAACCTGAATCCAGGGGTTGAAGAAGTTT
15439597 CGGCC
66 CGGCC
*
15439602 GCAATCTGGTGCAGATTTATCCTTAGAACAATGGTAAAACCTGAATCCAGGGGTTGAAGAAGTTT
1 GCAATCTAGTGCAGATTTATCCTTAGAACAATGGTAAAACCTGAATCCAGGGGTTGAAGAAGTTT
15439667 CGGC
66 CGGC
15439671 TATAAGCCCC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (70 bp):
GCAATCTAGTGCAGATTTATCCTTAGAACAATGGTAAAACCTGAATCCAGGGGTTGAAGAAGTTT
CGGCC
Found at i:15440437 original size:68 final size:68
Alignment explanation
Indices: 15440328--15440462 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
15440318 GCCTAGTGGC
*
15440328 GTCACCCTTGCCACTCTACTAAGGCTCTTTTTGTGATGCCATTTACCCATAACTCTATATAAGGG
1 GTCACCCTTACCACTCTACTAAGGCTCTTTTTGTGATGCCATTTACCCATAACTCTATATAAGGG
15440393 CCT
66 CCT
15440396 GTCACCCTTACCACTCTACTAAGGCTCTTTTTGTGATGCCATTTACCCATAACTCTATATAAGGG
1 GTCACCCTTACCACTCTACTAAGGCTCTTTTTGTGATGCCATTTACCCATAACTCTATATAAGGG
15440461 CC
66 CC
15440463 ATCTATCCAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (68 bp):
GTCACCCTTACCACTCTACTAAGGCTCTTTTTGTGATGCCATTTACCCATAACTCTATATAAGGG
CCT
Found at i:15441570 original size:56 final size:54
Alignment explanation
Indices: 15441451--15441606 Score: 156
Period size: 56 Copynumber: 2.8 Consensus size: 54
15441441 CATGACATAG
* * * * *
15441451 CACGCCTCTCAACAGGGCTACATATGAGCACTCGGACCTCGCATGCATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGTACCACATTAC
*
15441507 CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCAC---ATTAC
* * *
15441563 CATGCCTCTCAA-TGGGCTACACAAGCTCCCGGA-CTCAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCT-AGCATGTA
15441607 TCATGTCATC
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
54 21 0.24
55 26 0.30
56 35 0.41
57 4 0.05
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATTAC
Found at i:15449321 original size:49 final size:49
Alignment explanation
Indices: 15449265--15449363 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
15449255 TGTAGGACAT
* *
15449265 CGGAAGAGATCTCAGTAGCAGTCGTCACGAATCAAGTGTGTACCGAACA
1 CGGAAGAGATCTCAGTAGCAGTCATCACGAAACAAGTGTGTACCGAACA
** *
15449314 CGGAAGAGATCTCAGTAGCAGTCATCGTGAAACAGGTGTGTACCGAACA
1 CGGAAGAGATCTCAGTAGCAGTCATCACGAAACAAGTGTGTACCGAACA
15449363 C
1 C
15449364 CCTTTCTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.18
Consensus pattern (49 bp):
CGGAAGAGATCTCAGTAGCAGTCATCACGAAACAAGTGTGTACCGAACA
Found at i:15449855 original size:80 final size:80
Alignment explanation
Indices: 15449722--15449886 Score: 285
Period size: 80 Copynumber: 2.1 Consensus size: 80
15449712 CTAGGGTTTA
*
15449722 AATTGGCTAAACTGTATGATTGATTAATACTATATTTTACATGATATGCTTTTATTAATATCTGT
1 AATTGGCTAAACTGCATGATTGATTAATACTATATTTTACATGATATGCTTTTATTAATATCTGT
15449787 TGCATGGGATTGGGG
66 TGCATGGGATTGGGG
* * *
15449802 AATTGGCTAAGCTGCATGATTGATTAATTCTGTATTTTACATGATATGCTTTTATTAATATCTGT
1 AATTGGCTAAACTGCATGATTGATTAATACTATATTTTACATGATATGCTTTTATTAATATCTGT
15449867 TGCATGGGATTGGGG
66 TGCATGGGATTGGGG
*
15449882 TATTG
1 AATTG
15449887 ATGGAGGAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (80 bp):
AATTGGCTAAACTGCATGATTGATTAATACTATATTTTACATGATATGCTTTTATTAATATCTGT
TGCATGGGATTGGGG
Found at i:15457302 original size:43 final size:43
Alignment explanation
Indices: 15457254--15457339 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
15457244 ATCGGAAGAG
*
15457254 ATCTCAGTAGCAGTCGTCACGAATCAAGTGTGTACCGAACACC
1 ATCTCAGTAGCAGTCGTCACGAAACAAGTGTGTACCGAACACC
* *
15457297 ATCTCAGTAGCAGTCGTCGCGAAACAGGTGTGTACCGAACACC
1 ATCTCAGTAGCAGTCGTCACGAAACAAGTGTGTACCGAACACC
15457340 CTTTCTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (43 bp):
ATCTCAGTAGCAGTCGTCACGAAACAAGTGTGTACCGAACACC
Found at i:15467676 original size:19 final size:18
Alignment explanation
Indices: 15467642--15467680 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
15467632 GATATGATAC
*
15467642 TAAAATTATTTTAAAAAA
1 TAAAATTATATTAAAAAA
15467660 TAAAATATATATTAAAAAA
1 TAAAAT-TATATTAAAAAA
15467679 TA
1 TA
15467681 GGGATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATTATATTAAAAAA
Found at i:15479448 original size:79 final size:78
Alignment explanation
Indices: 15479346--15479568 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
15479336 GCTCCTCGTT
* *
15479346 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
15479411 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
15479426 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
15479489 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
15479504 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
15479567 GA
63 GA
15479569 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:15479463 original size:39 final size:40
Alignment explanation
Indices: 15479346--15479568 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
15479336 GCTCCTCGTT
* *
15479346 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
15479386 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
15479426 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
15479465 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
15479504 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
15479545 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15479569 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:15484845 original size:24 final size:24
Alignment explanation
Indices: 15484799--15484846 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15484789 TATGTAGAGG
*
15484799 AAATCAAGGAGAAGATTGGGGAGA
1 AAATCAAGGAGAAGATTAGGGAGA
* * *
15484823 AAATCAATGAGAGGATTATGGAGA
1 AAATCAAGGAGAAGATTAGGGAGA
15484847 GATTTTAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.04, G:0.33, T:0.17
Consensus pattern (24 bp):
AAATCAAGGAGAAGATTAGGGAGA
Found at i:15485713 original size:30 final size:30
Alignment explanation
Indices: 15485679--15485740 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15485669 CGTTCGTTCA
15485679 AGGTGAGTAGTGAGCGACGATTTGGGTTTT
1 AGGTGAGTAGTGAGCGACGATTTGGGTTTT
* *
15485709 AGGTGAGTAGTGAGTGATGATTTGGGTTTT
1 AGGTGAGTAGTGAGCGACGATTTGGGTTTT
15485739 AG
1 AG
15485741 TATAAAGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.40, T:0.35
Consensus pattern (30 bp):
AGGTGAGTAGTGAGCGACGATTTGGGTTTT
Found at i:15486517 original size:26 final size:26
Alignment explanation
Indices: 15486487--15486560 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
15486477 CTGCCACATA
* *
15486487 TACTGATACTGGCAGTTTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTACGT
15486513 TACTGTTACTGGCAGCTTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
15486539 TACTGTTACTGGCAGCTCTGCT
1 TACTGTTACTGGCAGCTTTGCT
15486561 GTGATATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:15492639 original size:24 final size:24
Alignment explanation
Indices: 15492585--15492640 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
15492575 GGGAGTGTTA
*
15492585 TATGGAGGAAATCAAGGAGAGGAT
1 TATGGAGAAAATCAAGGAGAGGAT
** *
15492609 TGGGGAGAAAATCAATGAGAGGAT
1 TATGGAGAAAATCAAGGAGAGGAT
15492633 TATGGAGA
1 TATGGAGA
15492641 GATTTTAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.38, T:0.18
Consensus pattern (24 bp):
TATGGAGAAAATCAAGGAGAGGAT
Found at i:15494123 original size:27 final size:27
Alignment explanation
Indices: 15494093--15494146 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
15494083 ATGACCAAAA
15494093 TACCCCTAAAGGGTAAAATGACT-ATTT
1 TACCCCTAAAGGGT-AAATGACTGATTT
**
15494120 TACCCCTTGAGGGTAAATGACTGATTT
1 TACCCCTAAAGGGTAAATGACTGATTT
15494147 GTGTTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAAAGGGTAAATGACTGATTT
Found at i:15494337 original size:26 final size:26
Alignment explanation
Indices: 15494308--15494357 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15494298 TACGTTACTG
15494308 TTACTGGCAGCTGTGCTGCAATATTA
1 TTACTGGCAGCTGTGCTGCAATATTA
* * *
15494334 TTACTGGTAGCTTTGCTGCGATAT
1 TTACTGGCAGCTGTGCTGCAATAT
15494358 CGGTGTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTGTGCTGCAATATTA
Found at i:15495544 original size:47 final size:47
Alignment explanation
Indices: 15495475--15495568 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
15495465 AAGGTGAACA
*
15495475 TCCCTATATCACCGTCATATCCACCTTTTTTGGTCTTAGTATCAACG
1 TCCCTATATCACCGTCATATCCACCTTGTTTGGTCTTAGTATCAACG
*
15495522 TCCCTATATCACCGTCATATCCACCTTGTTTGGTTTTAGTATCAACG
1 TCCCTATATCACCGTCATATCCACCTTGTTTGGTCTTAGTATCAACG
15495569 AGCTTATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (47 bp):
TCCCTATATCACCGTCATATCCACCTTGTTTGGTCTTAGTATCAACG
Found at i:15497646 original size:16 final size:18
Alignment explanation
Indices: 15497624--15497663 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
15497614 GTCAAGAGTT
15497624 TCTTCCATTT-TTCCTCA
1 TCTTCCATTTCTTCCTCA
*
15497641 -CTTCCATTTCTTTCTCA
1 TCTTCCATTTCTTCCTCA
15497658 TCTTCC
1 TCTTCC
15497664 TCACTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.53
Consensus pattern (18 bp):
TCTTCCATTTCTTCCTCA
Found at i:15504935 original size:30 final size:30
Alignment explanation
Indices: 15504879--15504951 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
15504869 ACTTTTACAT
* * *
15504879 TTGCCAAGTGCAAGGACCAAAATGGACCTAG
1 TTGCCAAGTTC-AGGACCAAAATGGACCCAA
* *
15504910 TTGCCAAGTTCAGTACCAAAGTGGACCCAA
1 TTGCCAAGTTCAGGACCAAAATGGACCCAA
*
15504940 TTGCCAGGTTCA
1 TTGCCAAGTTCA
15504952 CAGACTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (30 bp):
TTGCCAAGTTCAGGACCAAAATGGACCCAA
Found at i:15507039 original size:8 final size:8
Alignment explanation
Indices: 15507035--15507061 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15507025 TTCTTTTTTC
15507035 TTTTTCTT
1 TTTTTCTT
15507043 TTTTTCTT
1 TTTTTCTT
15507051 TTTTTCTT
1 TTTTTCTT
15507059 TTT
1 TTT
15507062 GTCCTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:15510314 original size:17 final size:16
Alignment explanation
Indices: 15510280--15510324 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
15510270 GCGTGTCAAC
*
15510280 TTTTAATTA-TTTTTA
1 TTTTTATTATTTTTTA
15510295 TTTTTATTATTTTGTTA
1 TTTTTATTATTTT-TTA
15510312 TTTTTATTTATTT
1 TTTTTA-TTATTT
15510325 AATTTTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 3 0.12
17 9 0.35
18 6 0.23
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTATTATTTTTTA
Found at i:15510329 original size:23 final size:23
Alignment explanation
Indices: 15510286--15510330 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15510276 CAACTTTTAA
*
15510286 TTATTTTTATTTTTATTATTTTG
1 TTATTTTTATTTTTATAATTTTG
15510309 TTATTTTTATTTATT-TAATTTT
1 TTATTTTTATTT-TTATAATTTT
15510331 TTGGAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
TTATTTTTATTTTTATAATTTTG
Found at i:15513381 original size:46 final size:46
Alignment explanation
Indices: 15513314--15513483 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
15513304 AACCCGCCCC
*
15513314 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
15513360 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
15513408 TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
15513453 TAGGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
15513484 AGATGCTCAA
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:15513426 original size:93 final size:93
Alignment explanation
Indices: 15513319--15513489 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
15513309 GCCCCTAAGT
* *
15513319 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15513384 CGAGTTCGGATGCCTAGTTACATCTTAC
66 CGAGTTCAGATGCCTAGTTACATCTTAC
* *
15513412 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15513477 CGAGTTCAGATGC
66 CGAGTTCAGATGC
15513490 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTTAC
Found at i:15513944 original size:30 final size:30
Alignment explanation
Indices: 15513910--15513969 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15513900 ATTTAATACG
15513910 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15513940 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15513970 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15516590 original size:78 final size:78
Alignment explanation
Indices: 15516461--15516774 Score: 601
Period size: 78 Copynumber: 4.0 Consensus size: 78
15516451 TTGTGACATC
* * *
15516461 AAGTATTTAAGACTTTTGTGATCGGTATATACTCGGCACTTTTCACCATACAAATAATGTCGCCA
1 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
15516526 AATCCTCAAAGCA
66 AATCCTCAAAGCA
15516539 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
1 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
15516604 AATCCTCAAAGCA
66 AATCCTCAAAGCA
15516617 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
1 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
15516682 AATCCTCAAAGCA
66 AATCCTCAAAGCA
15516695 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
1 AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
15516760 AATCCTCAAAGCA
66 AATCCTCAAAGCA
15516773 AA
1 AA
15516775 CACCACTGCA
Statistics
Matches: 233, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 233 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (78 bp):
AAGTATTTAAGTCTTTTGTGATCGGTATATACTCGGCACATTACACCATACAAATAATGTCGCCA
AATCCTCAAAGCA
Found at i:15517693 original size:39 final size:41
Alignment explanation
Indices: 15517598--15517781 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
15517588 TTGAATGATG
*
15517598 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
15517637 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
15517677 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
15517716 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
15517756 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15517782 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:15517733 original size:79 final size:81
Alignment explanation
Indices: 15517598--15517781 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
15517588 TTGAATGATG
15517598 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
15517661 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
15517676 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
15517737 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
15517756 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15517782 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:15517803 original size:79 final size:79
Alignment explanation
Indices: 15517650--15517814 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
15517640 GGACTAAGAT
* ** *
15517650 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
15517715 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
15517729 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
15517791 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
15517808 CCGAAGG
1 CCGAAGG
15517815 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:15521870 original size:144 final size:144
Alignment explanation
Indices: 15521610--15521899 Score: 519
Period size: 144 Copynumber: 2.0 Consensus size: 144
15521600 TTCATAGTTG
*
15521610 TGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTG
1 TGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTA
*
15521675 GTGTTGAAAATTTTGTGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAG
66 GTGTTGAAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAG
15521740 AGAGGTTAGCTTCT
131 AGAGGTTAGCTTCT
* * *
15521754 TGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCATCTGAGGCTA
1 TGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTA
15521819 GTGTT-ACAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAA
66 GTGTTGA-AAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAA
15521883 GAGAGGTTAGCTTCT
130 GAGAGGTTAGCTTCT
15521898 TG
1 TG
15521900 GGTCATGTGG
Statistics
Matches: 140, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
143 1 0.01
144 139 0.99
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (144 bp):
TGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTA
GTGTTGAAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAG
AGAGGTTAGCTTCT
Found at i:15525393 original size:39 final size:41
Alignment explanation
Indices: 15525298--15525481 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
15525288 TTGAATGATG
*
15525298 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
15525337 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
15525377 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
15525416 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
15525456 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15525482 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:15525433 original size:79 final size:81
Alignment explanation
Indices: 15525298--15525481 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
15525288 TTGAATGATG
15525298 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
15525361 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
15525376 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
15525437 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
15525456 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15525482 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:15525503 original size:79 final size:79
Alignment explanation
Indices: 15525350--15525514 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
15525340 GGACTAAGAT
* ** *
15525350 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
15525415 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
15525429 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
15525491 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
15525508 CCGAAGG
1 CCGAAGG
15525515 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:15530388 original size:46 final size:46
Alignment explanation
Indices: 15530321--15530492 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
15530311 AACCCGCCCC
*
15530321 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
* *
15530367 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCATCCA
* * ** *
15530415 TCA-CGAACTCAAACTCAACTCAACGAGTTC-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCA
*
15530460 TAGGTGAACTCGGACTCAACTCAACGAGTTCAG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAG
15530493 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 54 0.54
47 25 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
Found at i:15530952 original size:30 final size:30
Alignment explanation
Indices: 15530918--15530977 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15530908 ATTTAATACG
15530918 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15530948 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15530978 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15532918 original size:7 final size:7
Alignment explanation
Indices: 15532908--15532940 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
15532898 AATGTTGAAT
*
15532908 GATGATG
1 GATGAGG
15532915 GATGAGG
1 GATGAGG
15532922 GATGAGG
1 GATGAGG
15532929 GATGAGG
1 GATGAGG
15532936 GATGA
1 GATGA
15532941 TGAATAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.52, T:0.18
Consensus pattern (7 bp):
GATGAGG
Found at i:15533659 original size:25 final size:25
Alignment explanation
Indices: 15533607--15533663 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
15533597 CTTATTTTAT
* *
15533607 TAAATAAA-A-ATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
15533630 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
15533656 -AAATAAAT
1 TAAATAAAT
15533664 TAAAACAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 5 0.17
26 12 0.41
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:15535905 original size:23 final size:23
Alignment explanation
Indices: 15535861--15535912 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
15535851 TAATCACAGT
*
15535861 TCGCATATCAAATTAGTATAGGC
1 TCGCATATCAAATTAGCATAGGC
** * *
15535884 TCGCATATCACTTTAGCGTAGGT
1 TCGCATATCAAATTAGCATAGGC
15535907 TCGCAT
1 TCGCAT
15535913 GATATATAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (23 bp):
TCGCATATCAAATTAGCATAGGC
Found at i:15536051 original size:24 final size:25
Alignment explanation
Indices: 15536019--15536086 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
15536009 GTATGTACCG
* * *
15536019 AGTGGTAGGGGTTTCCT-TGTATCT
1 AGTGATAGGGGTTTCATAGGTATCT
*
15536043 GGTGATAGGGG-TTCATAGGTATCT
1 AGTGATAGGGGTTTCATAGGTATCT
15536067 AGTGATAGGGG-TTCATAGGT
1 AGTGATAGGGGTTTCATAGGT
15536087 CTAACACCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
23 4 0.11
24 34 0.89
ACGTcount: A:0.19, C:0.09, G:0.37, T:0.35
Consensus pattern (25 bp):
AGTGATAGGGGTTTCATAGGTATCT
Found at i:15538222 original size:20 final size:20
Alignment explanation
Indices: 15538197--15538244 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
15538187 TCCAGCACAT
*
15538197 TTTTTCATAAAATTTTAGAA
1 TTTTTCATAAAATTTTACAA
15538217 TTTTTCATAAAATTTTACAA
1 TTTTTCATAAAATTTTACAA
*
15538237 CTTTTCAT
1 TTTTTCAT
15538245 TTTAGTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTTCATAAAATTTTACAA
Found at i:15539012 original size:24 final size:24
Alignment explanation
Indices: 15538985--15539055 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
15538975 ATGAATTCAT
15538985 ACATGTCTAGTGATAGGGGTTCGC
1 ACATGTCTAGTGATAGGGGTTCGC
* * * *
15539009 ACATGACAAGTGATAAGGGTTCAC
1 ACATGTCTAGTGATAGGGGTTCGC
** * *
15539033 AGGTATCTTGTGATAGGGGTTCG
1 ACATGTCTAGTGATAGGGGTTCG
15539056 TAGTTTCTGG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.28
Consensus pattern (24 bp):
ACATGTCTAGTGATAGGGGTTCGC
Found at i:15540183 original size:17 final size:17
Alignment explanation
Indices: 15540161--15540194 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15540151 CCCTTTTCCA
*
15540161 AATTGAACCTTAGTTTC
1 AATTGAAACTTAGTTTC
*
15540178 AATTGAAACTTATTTTC
1 AATTGAAACTTAGTTTC
15540195 TAAATTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (17 bp):
AATTGAAACTTAGTTTC
Found at i:15540349 original size:31 final size:31
Alignment explanation
Indices: 15540286--15540350 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
15540276 CCCAAAATTT
* *
15540286 TTAATTCTAATTATTTTAATATTTTACTTAA
1 TTAATTCTAATTATTTTAATATTCTACCTAA
15540317 TTAATTCCTAATTA-TTTAAT-TATCTACCTAA
1 TTAATT-CTAATTATTTTAATAT-TCTACCTAA
15540348 TTA
1 TTA
15540351 CGGTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 1 0.03
31 22 0.73
32 7 0.23
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (31 bp):
TTAATTCTAATTATTTTAATATTCTACCTAA
Found at i:15541911 original size:25 final size:26
Alignment explanation
Indices: 15541868--15541921 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
15541858 TACAACAGTA
*
15541868 TTTTAAAAAATATTTTTTAA-TATAT
1 TTTTAAAAAATATTGTTTAACTATAT
*
15541893 TTTTAAAAAATCA-TGTTTAACTCTAT
1 TTTTAAAAAAT-ATTGTTTAACTATAT
15541919 TTT
1 TTT
15541922 ATAGTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTAAAAAATATTGTTTAACTATAT
Found at i:15548626 original size:15 final size:15
Alignment explanation
Indices: 15548594--15548622 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15548584 TTTTTCTATG
15548594 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
15548609 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
15548623 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:15562600 original size:69 final size:69
Alignment explanation
Indices: 15562489--15562626 Score: 217
Period size: 69 Copynumber: 2.0 Consensus size: 69
15562479 GAGTATAGCG
*
15562489 CCTGATCCTACGTAAGGGACAACGCCGGTTGATTCTTGACCGACTTTGAGTAACCAAGAGGGAGA
1 CCTGATCCCACGTAAGGGACAACGCCGGTTGATTCTTGACCGACTTTGAGTAACCAAGAGGGAGA
15562554 GGCC
66 GGCC
* *
15562558 CCTGATCCCGCGTAAGGGACAGA-GCTGGTTGATTCTAT-ACCGACTTTGAGTAACCAAGAGGGA
1 CCTGATCCCACGTAAGGGACA-ACGCCGGTTGATTCT-TGACCGACTTTGAGTAACCAAGAGGGA
15562621 GAGGCC
64 GAGGCC
15562627 AAGTAAGCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
69 62 0.97
70 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (69 bp):
CCTGATCCCACGTAAGGGACAACGCCGGTTGATTCTTGACCGACTTTGAGTAACCAAGAGGGAGA
GGCC
Found at i:15580988 original size:42 final size:42
Alignment explanation
Indices: 15580929--15581020 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
15580919 TAGTCTCCCC
* ** *
15580929 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
15580971 AAATGGGTTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
15581013 AAATGGGC
1 AAATGGGC
15581021 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:15581079 original size:31 final size:31
Alignment explanation
Indices: 15581044--15581124 Score: 146
Period size: 31 Copynumber: 2.6 Consensus size: 31
15581034 CGTTTACAGT
15581044 AAAGGCTTCGGCCCAGTGAA-ATGATTTATGA
1 AAAGGCTTCGGCCCAGT-AATATGATTTATGA
15581075 AAAGGCTTCGGCCCAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAATATGATTTATGA
15581106 AAAGGCTTCGGCCCAGTAA
1 AAAGGCTTCGGCCCAGTAA
15581125 CCGTTAAACG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 2 0.04
31 47 0.96
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGATTTATGA
Found at i:15584181 original size:26 final size:26
Alignment explanation
Indices: 15584145--15584197 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15584135 GGTCGAAACG
15584145 ATTGTATGAACATAGTTAACATTCTT
1 ATTGTATGAACATAGTTAACATTCTT
15584171 ATTGTATGAACATAGTTAACATTCTT
1 ATTGTATGAACATAGTTAACATTCTT
15584197 A
1 A
15584198 CACATTCGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTGTATGAACATAGTTAACATTCTT
Found at i:15589968 original size:20 final size:20
Alignment explanation
Indices: 15589943--15589981 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15589933 ATGATAGGGT
15589943 TTGTTTTAAATGTGAATCAC
1 TTGTTTTAAATGTGAATCAC
*
15589963 TTGTTTTAAATGTGGATCA
1 TTGTTTTAAATGTGAATCA
15589982 TTATATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (20 bp):
TTGTTTTAAATGTGAATCAC
Found at i:15596688 original size:27 final size:27
Alignment explanation
Indices: 15596657--15596834 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15596647 TAAATTGTAC
15596657 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15596684 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15596710 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15596738 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15596766 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15596793 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15596820 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15596835 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15596771 original size:82 final size:81
Alignment explanation
Indices: 15596658--15596813 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15596648 AAATTGTACA
* *
15596658 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15596722 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15596739 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15596804 TGCGAGTTGA
65 TGCGAATTGA
15596814 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15596825 original size:82 final size:81
Alignment explanation
Indices: 15596654--15596834 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15596644 GATTAAATTG
* *
15596654 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15596719 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15596735 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15596799 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15596817 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15596835 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15608389 original size:14 final size:14
Alignment explanation
Indices: 15608367--15608409 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15608357 TTTCATTTTG
15608367 TAACATAAAATTAT
1 TAACATAAAATTAT
*
15608381 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
15608394 TAACACAAAATAAT
1 TAACATAAAATTAT
15608408 TA
1 TA
15608410 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:15608403 original size:13 final size:13
Alignment explanation
Indices: 15608367--15608405 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15608357 TTTCATTTTG
15608367 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
15608381 TAGCATAAAATAT
1 TAACATAAAATAT
*
15608394 TAACACAAAATA
1 TAACATAAAATA
15608406 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:15618005 original size:53 final size:53
Alignment explanation
Indices: 15617830--15618033 Score: 131
Period size: 53 Copynumber: 3.8 Consensus size: 53
15617820 AGGGTTTAAG
* * * * * * * *
15617830 GATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGAAAA
* * * * * ** ** * *
15617884 GAAATCATGTAAAACCATGTCAAGACATGGCCTTAATAAACTATGATAAGGAAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGAAAA
* * * * *
15617939 GATCCCATGTAAGACCATGCCAACG-CATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAA-GACATGGCAATGGTAAGTTCATAAGGAAAA
* *
15617992 GATACCACGTAAGATCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
15618034 TAAAAAGGAA
Statistics
Matches: 114, Mismatches: 32, Indels: 9
0.74 0.21 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.39
54 32 0.28
55 36 0.32
56 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAA
Found at i:15621779 original size:26 final size:26
Alignment explanation
Indices: 15621748--15621855 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15621738 TGAAATGCCC
*
15621748 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
15621774 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
15621800 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
15621826 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15621852 ATCA
1 ATCA
15621856 ATTTATACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15623548 original size:17 final size:17
Alignment explanation
Indices: 15623526--15623568 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
15623516 ATTTCATTTA
**
15623526 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
15623543 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
15623560 AAAT-TCAAT
1 AAATGTCAAT
15623569 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:15628102 original size:19 final size:19
Alignment explanation
Indices: 15628075--15628115 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
15628065 CTATAGCCTA
*
15628075 ATTTGCATGATAGAATCAG
1 ATTTACATGATAGAATCAG
*
15628094 ATTTACATGCTAGAATCAG
1 ATTTACATGATAGAATCAG
15628113 ATT
1 ATT
15628116 GATACAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (19 bp):
ATTTACATGATAGAATCAG
Found at i:15629014 original size:20 final size:20
Alignment explanation
Indices: 15628942--15629014 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
15628932 TTGGTAAAAC
*
15628942 TTTTATATATTTATTTC-CAT
1 TTTTATATATTT-TTTCAAAT
* * *
15628962 TTTTATA-ATCTTCT-AAAA
1 TTTTATATATTTTTTCAAAT
* *
15628980 TTATATATAACTTTTTCAAAT
1 TTTTATAT-ATTTTTTCAAAT
15629001 TTTTATATATTTTT
1 TTTTATATATTTTT
15629015 ATTTCCATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
18 9 0.24
19 3 0.08
20 16 0.42
21 10 0.26
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATATATTTTTTCAAAT
Found at i:15629585 original size:27 final size:28
Alignment explanation
Indices: 15629543--15629601 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
15629533 ATTAGTAAAA
15629543 AGGGCCACTTTAAAAAAAATAGCGATTT
1 AGGGCCACTTTAAAAAAAATAGCGATTT
15629571 AGGGCCACTTTAAAAAAAATAGCGATTT
1 AGGGCCACTTTAAAAAAAATAGCGATTT
15629599 AGG
1 AGG
15629602 TTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (28 bp):
AGGGCCACTTTAAAAAAAATAGCGATTT
Found at i:15630174 original size:15 final size:16
Alignment explanation
Indices: 15630151--15630188 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
15630141 AAATATCAAC
*
15630151 TAATTTTTTTT-GATA
1 TAATTTTTTTTATATA
15630166 T-ATTTTTTTTATATA
1 TAATTTTTTTTATATA
15630181 TAATTTTT
1 TAATTTTT
15630189 ATACGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 5 0.25
16 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TAATTTTTTTTATATA
Found at i:15630574 original size:19 final size:17
Alignment explanation
Indices: 15630538--15630593 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
15630528 CCCGAGATTG
15630538 AAAATATATAATACTAA
1 AAAATATATAATACTAA
**
15630555 AAAATATATAAATA-TTT
1 AAAATATAT-AATACTAA
*
15630572 AAAATATATAATGCTAA
1 AAAATATATAATACTAA
15630589 AAAAT
1 AAAAT
15630594 CATTTCAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 3 0.09
17 25 0.78
18 4 0.12
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATATATAATACTAA
Found at i:15630880 original size:69 final size:67
Alignment explanation
Indices: 15630803--15630933 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 67
15630793 TTATGTACTC
* * *
15630803 AAAAATAATTATATTTGAACTAATTGATTGACTTTAT-ATATTAG-ATTTACCATACCCACGATG
1 AAAAATAATGATATTTGAAATAATT-ATT---TTTATAATATTAGAATTTACCATACCCACAATG
15630866 TAGGTG
62 TAGGTG
*
15630872 AAAAATAATGATATTTGAAATAATTATTTTTATAATATTAGAATTTACCATACTCACAATGT
1 AAAAATAATGATATTTGAAATAATTATTTTTATAATATTAGAATTTACCATACCCACAATGT
15630934 GTATGAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
65 5 0.09
66 7 0.12
67 18 0.32
68 3 0.05
69 23 0.41
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (67 bp):
AAAAATAATGATATTTGAAATAATTATTTTTATAATATTAGAATTTACCATACCCACAATGTAGG
TG
Found at i:15630953 original size:67 final size:67
Alignment explanation
Indices: 15630803--15630956 Score: 163
Period size: 67 Copynumber: 2.2 Consensus size: 67
15630793 TTATGTACTC
* *
15630803 AAAAATAATTATATTTGAACTAATTGATTGACTTTATATATTAGATTTACCATACCCACGATGTA
1 AAAAATAA--ATATTTGAAATAATTGATT-A-TTTATATATTAGATTTACCATACCCACAATGTA
*
15630868 GGTGAA
62 GATGAA
* *
15630874 AAATAAT-GATATTTGAAATAATT-ATT-TTTATAATATTAGAATTTACCATACTCACAATGT-G
1 AAA-AATAAATATTTGAAATAATTGATTATTTAT-ATATTAG-ATTTACCATACCCACAATGTAG
15630935 TATGAA
63 -ATGAA
15630941 AAAAATAAATATTTGA
1 AAAAATAAATATTTGA
15630957 CATATAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
65 5 0.07
66 11 0.15
67 33 0.46
68 3 0.04
69 14 0.19
71 3 0.04
72 3 0.04
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (67 bp):
AAAAATAAATATTTGAAATAATTGATTATTTATATATTAGATTTACCATACCCACAATGTAGATG
AA
Found at i:15632867 original size:6 final size:6
Alignment explanation
Indices: 15632858--15632898 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
15632848 ATACAGTTTT
*
15632858 AGATTC AGATTC AGATATC AGATTC AGATTC AAATTC AGAT
1 AGATTC AGATTC AGAT-TC AGATTC AGATTC AGATTC AGAT
15632899 AGCAGATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (6 bp):
AGATTC
Found at i:15632882 original size:19 final size:18
Alignment explanation
Indices: 15632858--15632898 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
15632848 ATACAGTTTT
*
15632858 AGATTCAGATTCAGATATC
1 AGATTCAGATTCAAAT-TC
15632877 AGATTCAGATTCAAATTC
1 AGATTCAGATTCAAATTC
15632895 AGAT
1 AGAT
15632899 AGCAGATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (18 bp):
AGATTCAGATTCAAATTC
Found at i:15632888 original size:25 final size:24
Alignment explanation
Indices: 15632845--15632905 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
15632835 CAGTCTGAAA
* * *
15632845 CAGATACAGTTTTAGATTCAGATT
1 CAGATACAGATTCAGATTCAAATT
15632869 CAGATATCAGATTCAGATTCAAATT
1 CAGATA-CAGATTCAGATTCAAATT
15632894 CAGATAGCAGAT
1 CAGATA-CAGAT
15632906 ATGCAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (24 bp):
CAGATACAGATTCAGATTCAAATT
Found at i:15632904 original size:19 final size:19
Alignment explanation
Indices: 15632858--15632905 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
15632848 ATACAGTTTT
* *
15632858 AGATTCAGATTCAGATATC
1 AGATGCAGATTCAAATATC
*
15632877 AGATTCAGATTCAAAT-TC
1 AGATGCAGATTCAAATATC
15632895 AGATAGCAGAT
1 AGAT-GCAGAT
15632906 ATGCAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (19 bp):
AGATGCAGATTCAAATATC
Found at i:15644914 original size:17 final size:17
Alignment explanation
Indices: 15644892--15644933 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
15644882 GGTTGGGCCG
15644892 TGTGGGCCACATGAGCA
1 TGTGGGCCACATGAGCA
15644909 TGTGGGCCACATGAGCA
1 TGTGGGCCACATGAGCA
*
15644926 TGTAGGCC
1 TGTGGGCC
15644934 CATTTTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.19
Consensus pattern (17 bp):
TGTGGGCCACATGAGCA
Found at i:15647837 original size:26 final size:28
Alignment explanation
Indices: 15647784--15647843 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
15647774 TATATTTTTA
15647784 ATTTTTTAAATAAATAAAAAATAAAAAAT
1 ATTTTTTAAATAAAT-AAAAATAAAAAAT
*
15647813 ATTTTTTAAA-AAAT-AAAATAGAAAAT
1 ATTTTTTAAATAAATAAAAATAAAAAAT
15647839 ATTTT
1 ATTTT
15647844 CAGAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 16 0.53
28 4 0.13
29 10 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTTTTTAAATAAATAAAAATAAAAAAT
Found at i:15647972 original size:18 final size:18
Alignment explanation
Indices: 15647946--15647981 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15647936 GGAATTAAAT
*
15647946 TTAAATAAAAATATTTTG
1 TTAAATAAAAATAATTTG
*
15647964 TTAATTAAAAATAATTTG
1 TTAAATAAAAATAATTTG
15647982 AATCAAACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TTAAATAAAAATAATTTG
Found at i:15650695 original size:22 final size:24
Alignment explanation
Indices: 15650654--15650697 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
15650644 TAAAATGATG
*
15650654 ATAATTTTTCTTTTTTAAAATACA
1 ATAATTTTTCTTTTTGAAAATACA
15650678 ATAA-TTTT-TTTTTGAAAATA
1 ATAATTTTTCTTTTTGAAAATA
15650698 ATGGAGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (24 bp):
ATAATTTTTCTTTTTGAAAATACA
Done.