Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 14 of 109
Found at i:4853127 original size:16 final size:16
Alignment explanation
Indices: 4853108--4853141 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4853098 ATATAAATTC
4853108 AATAACAATTAATTTT
1 AATAACAATTAATTTT
*
4853124 AATAACAATTAGTTTT
1 AATAACAATTAATTTT
4853140 AA
1 AA
4853142 CTTTTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:4854904 original size:80 final size:81
Alignment explanation
Indices: 4854798--4854961 Score: 321
Period size: 80 Copynumber: 2.0 Consensus size: 81
4854788 TATCATGATG
4854798 AAATTAATGATTTATCTGTTATCACGAATGGTATTTTGGATTTAAATTTTTTATTCATTTATTAT
1 AAATTAATGATTTATCTGTTATCACGAATGGTATTTTGGATTTAAATTTTTTATTCATTTATTAT
4854863 ATATAAAAAAAAGATA
66 ATATAAAAAAAAGATA
4854879 AAATTAATGATTT-TCTGTTATCACGAATGGTATTTTGGATTTAAATTTTTTATTCATTTATTAT
1 AAATTAATGATTTATCTGTTATCACGAATGGTATTTTGGATTTAAATTTTTTATTCATTTATTAT
4854943 ATATAAAAAAAAGATA
66 ATATAAAAAAAAGATA
4854959 AAA
1 AAA
4854962 ACACTATTAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 70 0.84
81 13 0.16
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (81 bp):
AAATTAATGATTTATCTGTTATCACGAATGGTATTTTGGATTTAAATTTTTTATTCATTTATTAT
ATATAAAAAAAAGATA
Found at i:4855550 original size:14 final size:16
Alignment explanation
Indices: 4855517--4855553 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4855507 AATATTTATT
4855517 TAATATTTTACTTAAAG
1 TAATATTTTAC-TAAAG
4855534 TAATATTTTA-T-AAG
1 TAATATTTTACTAAAG
4855548 TAATAT
1 TAATAT
4855554 AATAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
17 10 0.50
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (16 bp):
TAATATTTTACTAAAG
Found at i:4861777 original size:43 final size:42
Alignment explanation
Indices: 4861681--4861863 Score: 125
Period size: 43 Copynumber: 4.3 Consensus size: 42
4861671 CTAGCATCAC
** * * * * * *
4861681 AGTGCATCATCGGATAAACCGAAGGAAATATACTGGTACACA
1 AGTGCATCATCGGACGAACCAAAGCAAATGTAATGGCACAGA
* * * *
4861723 TAGTGCTTCATCGGAC-AAGTCAAAGCAATTGTATTGGCACACGA
1 -AGTGCATCATCGGACGAA-CCAAAGCAAATGTAATGGCACA-GA
* * * *
4861767 GGTGCATCATCTGACGAACCAAAGCAAATGTAATGGTACATA
1 AGTGCATCATCGGACGAACCAAAGCAAATGTAATGGCACAGA
* * * * * * *
4861809 AGTGCATCATCGAATGAACCGAAGCAAATATATTGACACATA
1 AGTGCATCATCGGACGAACCAAAGCAAATGTAATGGCACAGA
4861851 AGTGCATCATCGG
1 AGTGCATCATCGG
4861864 TTAAACCGAA
Statistics
Matches: 109, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
42 48 0.44
43 58 0.53
44 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (42 bp):
AGTGCATCATCGGACGAACCAAAGCAAATGTAATGGCACAGA
Found at i:4861871 original size:42 final size:42
Alignment explanation
Indices: 4861681--4861918 Score: 165
Period size: 42 Copynumber: 5.6 Consensus size: 42
4861671 CTAGCATCAC
* *
4861681 AGTGCATCATCGGATAAACCGAAGGAAATATACTGGTACACAT-
1 AGTGCATCATCGGATAAACCGAAGCAAATATA-TTG-ACACATA
* * ** * * * * *
4861724 AGTGCTTCATCGGACAAGTCAAAGCAATTGTATTGGCACACGA
1 AGTGCATCATCGGATAAACCGAAGCAAATATATTGACACA-TA
* * ** * * * **
4861767 GGTGCATCATCTGACGAACCAAAGCAAATGTAATGGTACATA
1 AGTGCATCATCGGATAAACCGAAGCAAATATATTGACACATA
* *
4861809 AGTGCATCATCGAATGAACCGAAGCAAATATATTGACACATA
1 AGTGCATCATCGGATAAACCGAAGCAAATATATTGACACATA
* * *
4861851 AGTGCATCATCGGTTAAACCGAAGTAAATATACTGGTACACATA
1 AGTGCATCATCGGATAAACCGAAGCAAATATA-TTG-ACACATA
* *
4861895 AGTGCATTA-CCGACTAAACCGAAG
1 AGTGCATCATCGGA-TAAACCGAAG
4861919 TATAAACCCA
Statistics
Matches: 152, Mismatches: 38, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
41 4 0.03
42 64 0.42
43 59 0.39
44 25 0.16
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (42 bp):
AGTGCATCATCGGATAAACCGAAGCAAATATATTGACACATA
Found at i:4861915 original size:86 final size:87
Alignment explanation
Indices: 4861681--4861918 Score: 218
Period size: 86 Copynumber: 2.8 Consensus size: 87
4861671 CTAGCATCAC
* * **
4861681 AGTGCATCATCGGATAAACCGAAGGAAATATACTGGTACACAT-AGTGC-TTCATCGGAC-AAGT
1 AGTGCATCATCGGATAAACCGAAGCAAATATACTGGTACACATAAGTGCATT-A-CCGACTAAAC
* * * *
4861743 CAAAGCAATTGTATTGGCACACGA
64 CGAAGCAAATATATTGACACACGA
* * ** * * * * * * *
4861767 GGTGCATCATCTGACGAACCAAAGCAAATGTAATGGT--ACATAAGTGCATCATCGAATGAACCG
1 AGTGCATCATCGGATAAACCGAAGCAAATATACTGGTACACATAAGTGCATTACCGACTAAACCG
*
4861830 AAGCAAATATATTGACACA-TA
66 AAGCAAATATATTGACACACGA
* *
4861851 AGTGCATCATCGGTTAAACCGAAGTAAATATACTGGTACACATAAGTGCATTACCGACTAAACCG
1 AGTGCATCATCGGATAAACCGAAGCAAATATACTGGTACACATAAGTGCATTACCGACTAAACCG
4861916 AAG
66 AAG
4861919 TATAAACCCA
Statistics
Matches: 114, Mismatches: 33, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
84 35 0.31
85 24 0.21
86 55 0.48
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (87 bp):
AGTGCATCATCGGATAAACCGAAGCAAATATACTGGTACACATAAGTGCATTACCGACTAAACCG
AAGCAAATATATTGACACACGA
Found at i:4864653 original size:17 final size:17
Alignment explanation
Indices: 4864631--4864663 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4864621 GCCTTTTCTA
4864631 ATTAAAAATTTATAATG
1 ATTAAAAATTTATAATG
*
4864648 ATTAAAATTTTATAAT
1 ATTAAAAATTTATAAT
4864664 TTAGTCCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTAAAAATTTATAATG
Found at i:4864875 original size:13 final size:14
Alignment explanation
Indices: 4864850--4864891 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
4864840 TTGTACTTTA
4864850 ATTTGATTAATTTT
1 ATTTGATTAATTTT
* *
4864864 TTTTGA-TAATTTA
1 ATTTGATTAATTTT
4864877 ATTTGATTAATTTT
1 ATTTGATTAATTTT
4864891 A
1 A
4864892 ATCCTTGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
ATTTGATTAATTTT
Found at i:4864876 original size:27 final size:26
Alignment explanation
Indices: 4864837--4864890 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
4864827 GTCGTTAAAA
*
4864837 TTTTTGTACTTTAATTTGATTAATTT
1 TTTTTGTAATTTAATTTGATTAATTT
4864863 TTTTTGATAATTTAATTTGATTAATTT
1 TTTTTG-TAATTTAATTTGATTAATTT
4864890 T
1 T
4864891 AATCCTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (26 bp):
TTTTTGTAATTTAATTTGATTAATTT
Found at i:4871445 original size:3 final size:3
Alignment explanation
Indices: 4871437--4871464 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4871427 GCATATGAGA
4871437 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
4871465 CTTTGCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:4883051 original size:14 final size:12
Alignment explanation
Indices: 4883031--4883072 Score: 59
Period size: 11 Copynumber: 3.4 Consensus size: 12
4883021 TTACCCTTTG
4883031 TTTTTTGTTCTT
1 TTTTTTGTTCTT
4883043 TATTATTTGTTCTT
1 T-TT-TTTGTTCTT
4883057 TTTTTT-TTCTT
1 TTTTTTGTTCTT
4883068 TTTTT
1 TTTTT
4883073 GTGCTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.36
12 4 0.14
13 4 0.14
14 10 0.36
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.83
Consensus pattern (12 bp):
TTTTTTGTTCTT
Found at i:4885580 original size:178 final size:179
Alignment explanation
Indices: 4885280--4885610 Score: 556
Period size: 178 Copynumber: 1.9 Consensus size: 179
4885270 TTAAAATAAT
* * * *
4885280 ATTGTAAAAATAGGTAGTCATAAATCCTAAATATGAACCGTAAATTAGATATGTATTAAGAAAAC
1 ATTGTAAAAATAGGTAGTCATAAACCCCAAATATGAACCGTAAATTAAAGATGTATTAAGAAAAC
*
4885345 ACATAAACTTGAACTATTATTTTTTGTTAATTTGTTGTATATAAATTGTTGAACGATGACATTAT
66 ACATAAACTTGAACTATTAATTTTTGTTAATTTGTTGTATATAAATTGTTGAACGATGACATTAT
* *
4885410 TAGGAGGAACAGTTATGAACCCCTAAAAAGTTCAAGCCTTAAAAATGAC
131 TAGAAGGAACAGTTATAAACCCCTAAAAAGTTCAAGCCTTAAAAATGAC
* *
4885459 ATTGTAAAAATAGGTAGTCATGAACCCCAAATATGAACCGTAAATTAAAGATGTATT-AGTAAAC
1 ATTGTAAAAATAGGTAGTCATAAACCCCAAATATGAACCGTAAATTAAAGATGTATTAAGAAAAC
*
4885523 ACATAAACTTGAACTATTAATTTTTGTTAATTTGTTGTATATAAATTGTTGAACGATGACATTGT
66 ACATAAACTTGAACTATTAATTTTTGTTAATTTGTTGTATATAAATTGTTGAACGATGACATTAT
*
4885588 TAGAAGGGACAGTTATAAACCCC
131 TAGAAGGAACAGTTATAAACCCC
4885611 AAATTTGAAC
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
178 89 0.63
179 52 0.37
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (179 bp):
ATTGTAAAAATAGGTAGTCATAAACCCCAAATATGAACCGTAAATTAAAGATGTATTAAGAAAAC
ACATAAACTTGAACTATTAATTTTTGTTAATTTGTTGTATATAAATTGTTGAACGATGACATTAT
TAGAAGGAACAGTTATAAACCCCTAAAAAGTTCAAGCCTTAAAAATGAC
Found at i:4886865 original size:13 final size:13
Alignment explanation
Indices: 4886829--4886867 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
4886819 TCGAGTCATA
4886829 AATTATATTTAATT
1 AATTAT-TTTAATT
*
4886843 AATATATTTTTATT
1 AAT-TATTTTAATT
4886857 AATTATTTTAA
1 AATTATTTTAA
4886868 ATAAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 7 0.32
14 12 0.55
15 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTATTTTAATT
Found at i:4889560 original size:19 final size:20
Alignment explanation
Indices: 4889521--4889568 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4889511 TTAAATTTTG
**
4889521 TTAATTTTAATAATGTTAAA
1 TTAATTTTTTTAATGTTAAA
*
4889541 TTTATTTTTTTAAT-TTAAA
1 TTAATTTTTTTAATGTTAAA
4889560 TTAATTTTT
1 TTAATTTTT
4889569 ATTGTGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTAATTTTTTTAATGTTAAA
Found at i:4899423 original size:16 final size:18
Alignment explanation
Indices: 4899393--4899426 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4899383 TTTCATCTTC
4899393 TTTTATTTATAAAATATT
1 TTTTATTTATAAAATATT
4899411 TTTTATTT-T-AAATATT
1 TTTTATTTATAAAATATT
4899427 ACTTACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTTATAAAATATT
Found at i:4908722 original size:27 final size:27
Alignment explanation
Indices: 4908691--4908747 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
4908681 GCAATGTTGA
* * *
4908691 TTTTTGTATATTTACGTTGGATTTTTT
1 TTTTTGTAAATTCACGGTGGATTTTTT
*
4908718 TTTTTGTAAATTCATGGTGGATTTTTT
1 TTTTTGTAAATTCACGGTGGATTTTTT
4908745 TTT
1 TTT
4908748 AGATTTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.65
Consensus pattern (27 bp):
TTTTTGTAAATTCACGGTGGATTTTTT
Found at i:4913549 original size:10 final size:11
Alignment explanation
Indices: 4913501--4913550 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
4913491 AATTGACCAA
4913501 AACAAAACAAG
1 AACAAAACAAG
*
4913512 AAC-TAACATAG
1 AACAAAACA-AG
4913523 ATA-AAAACAAG
1 A-ACAAAACAAG
4913534 AACAAAACAA-
1 AACAAAACAAG
4913544 AACAAAA
1 AACAAAA
4913551 AATCATTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
10 12 0.36
11 16 0.48
12 5 0.15
ACGTcount: A:0.72, C:0.16, G:0.06, T:0.06
Consensus pattern (11 bp):
AACAAAACAAG
Found at i:4915328 original size:2 final size:2
Alignment explanation
Indices: 4915323--4915358 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4915313 ACACACAGAG
4915323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4915359 TTGTATGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4915798 original size:36 final size:36
Alignment explanation
Indices: 4915758--4915830 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
4915748 CATGGCCAAA
4915758 TGTGTTGGACCATATAAATACAATAAATACTAATTT
1 TGTGTTGGACCATATAAATACAATAAATACTAATTT
4915794 TGTGTTGGACCATATAAATACAATAAATACTAATTT
1 TGTGTTGGACCATATAAATACAATAAATACTAATTT
4915830 T
1 T
4915831 ACATCCTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (36 bp):
TGTGTTGGACCATATAAATACAATAAATACTAATTT
Found at i:4924114 original size:29 final size:29
Alignment explanation
Indices: 4924080--4924147 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
4924070 GGTTAATTGT
4924080 GTTGTGTGGGTCATACGGGCGTGTGT-AA
1 GTTGTGTGGGTCATACGGGCGTGTGTGAA
4924108 GGTTGTGTGGGTCATACGGGCGTGTGTGAA
1 -GTTGTGTGGGTCATACGGGCGTGTGTGAA
*
4924138 GTCGTGTGGG
1 GTTGTGTGGG
4924148 CCACCCGACT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.12, C:0.10, G:0.47, T:0.31
Consensus pattern (29 bp):
GTTGTGTGGGTCATACGGGCGTGTGTGAA
Found at i:4927688 original size:29 final size:28
Alignment explanation
Indices: 4927656--4927730 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
4927646 GTCATGTGGT
* * *
4927656 TCACACGACCATGTGGCTTACACGGTTTG
1 TCACA-GACCATGTGGCTCACACGGTCTA
* *
4927685 TCACATAGCCGTGTGGCTCACACGGTCTA
1 TCACAGA-CCATGTGGCTCACACGGTCTA
*
4927714 TCACATGATCATGTGGC
1 TCACA-GACCATGTGGC
4927731 GTCGACAGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 1 0.03
29 34 0.94
30 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (28 bp):
TCACAGACCATGTGGCTCACACGGTCTA
Found at i:4929821 original size:50 final size:50
Alignment explanation
Indices: 4929706--4929895 Score: 308
Period size: 50 Copynumber: 3.8 Consensus size: 50
4929696 GATCATAACA
* * *
4929706 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC-CTCTCATCTCGG
* * *
4929757 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
4929807 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
4929857 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC
4929896 ATGTCCCAGA
Statistics
Matches: 128, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 94 0.73
51 34 0.27
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:4929907 original size:29 final size:29
Alignment explanation
Indices: 4929865--4930067 Score: 406
Period size: 29 Copynumber: 7.0 Consensus size: 29
4929855 GGTGCCAATG
4929865 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4929894 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4929923 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4929952 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4929981 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4930010 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4930039 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
4930068 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 174 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (29 bp):
CCATGTCCCAGACATGGTCTTACATGGGA
Found at i:4934053 original size:34 final size:34
Alignment explanation
Indices: 4934015--4934084 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
4934005 ATTGTTTACC
* *
4934015 ACTGTATTGTTTTGTTA-AAGACATATTAAATGCT
1 ACTGTATTGATCTGTTACAAG-CATATTAAATGCT
* *
4934049 ACTGTATTGATCTGTTACATGCATATTAATTGCT
1 ACTGTATTGATCTGTTACAAGCATATTAAATGCT
4934083 AC
1 AC
4934085 CATTTGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (34 bp):
ACTGTATTGATCTGTTACAAGCATATTAAATGCT
Found at i:4945269 original size:17 final size:17
Alignment explanation
Indices: 4945228--4945283 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
4945218 AAAGCAATTA
4945228 AAATAAAA-AATTAAGAT
1 AAATAAAATAATTAA-AT
4945245 -AA-AAAATAATTAAAT
1 AAATAAAATAATTAAAT
* *
4945260 AAATAAAATATTTGAAT
1 AAATAAAATAATTAAAT
*
4945277 AATTAAA
1 AAATAAA
4945284 TAAGAGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.18
16 10 0.30
17 17 0.52
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (17 bp):
AAATAAAATAATTAAAT
Found at i:4949905 original size:24 final size:24
Alignment explanation
Indices: 4949878--4949927 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
4949868 TGACGTGATG
4949878 GGTGGAGATGTAGGTAGATTGCTA
1 GGTGGAGATGTAGGTAGATTGCTA
*
4949902 GGTGGAGGTGTAGGTAGATTGCTA
1 GGTGGAGATGTAGGTAGATTGCTA
4949926 GG
1 GG
4949928 ACACGGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.46, T:0.28
Consensus pattern (24 bp):
GGTGGAGATGTAGGTAGATTGCTA
Found at i:4955685 original size:10 final size:11
Alignment explanation
Indices: 4955670--4955709 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
4955660 TTTATATTTT
4955670 TTTTA-TTTCA
1 TTTTATTTTCA
4955680 TTTTATTTTC-
1 TTTTATTTTCA
4955690 TTTTATTTTCA
1 TTTTATTTTCA
*
4955701 TTTTGTTTT
1 TTTTATTTT
4955710 ACCTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:4955687 original size:5 final size:5
Alignment explanation
Indices: 4955664--4955710 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
4955654 TTTTTGTTTA
* * *
4955664 TATTT T-TTT TATTT CATTT TATTT TCTTT TATTT TCATTT TGTTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T-ATTT TATTT TA
4955711 CCTAAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:4955693 original size:21 final size:20
Alignment explanation
Indices: 4955664--4955709 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
4955654 TTTTTGTTTA
4955664 TATTTTTTTTA-TTTCATTT
1 TATTTTTTTTATTTTCATTT
4955683 TATTTTCTTTTATTTTCATTT
1 TATTTT-TTTTATTTTCATTT
*
4955704 TGTTTT
1 TATTTT
4955710 ACCTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 5 0.21
21 13 0.54
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (20 bp):
TATTTTTTTTATTTTCATTT
Found at i:4956319 original size:15 final size:15
Alignment explanation
Indices: 4956301--4956329 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4956291 TATTTGACAT
4956301 TTTATTATTATATTA
1 TTTATTATTATATTA
4956316 TTTATTATTATATT
1 TTTATTATTATATT
4956330 TTCTATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTATTATATTA
Found at i:4961359 original size:7 final size:7
Alignment explanation
Indices: 4961330--4961375 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
4961320 TGAGTCGTAA
4961330 AAAAATG
1 AAAAATG
*
4961337 ATGAAAT-
1 A-AAAATG
4961344 AAAAATG
1 AAAAATG
*
4961351 AAAAGTG
1 AAAAATG
4961358 -AAAATG
1 AAAAATG
4961364 AAAAATG
1 AAAAATG
4961371 AAAAA
1 AAAAA
4961376 CGGAAAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 9 0.28
7 19 0.59
8 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:4961361 original size:13 final size:13
Alignment explanation
Indices: 4961340--4961374 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4961330 AAAAATGATG
*
4961340 AAATAAAAATGAA
1 AAATGAAAATGAA
*
4961353 AAGTGAAAATGAA
1 AAATGAAAATGAA
4961366 AAATGAAAA
1 AAATGAAAA
4961375 ACGGAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:4963968 original size:44 final size:43
Alignment explanation
Indices: 4962686--4963976 Score: 1381
Period size: 44 Copynumber: 29.3 Consensus size: 43
4962676 TGAAAAGCAG
*
4962686 CAGATCTTGTCTTCATGTATTGACATGAAGTATATCAGAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* *
4962730 CAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAAGGATAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAA-GAAAA
* *
4962774 TAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* * *
4962818 TAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAAGGATAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAA-GAAAA
*
4962862 TAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* * * * * *
4962906 TAGATCTTATCTTTATGTATTGACATGGAGTGGATCAATGATAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAA-GAAAA
* * *
4962950 TAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAAGGATAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAA-GAAAA
* * **
4962994 TAGATCTTGTCTTCATGTATTGACATGAAGTAGATTAGAGGTAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* *
4963038 -TGTATCTTGTATTCATGTATTGACATGAAGTAGATCAGAGAAAA
1 CAG-ATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* * *
4963082 CAGATTTTGTCTTCATGTATTGACATGACGTAGATCAAAAATAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAGAA-AA
** **
4963126 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
** *
4963170 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGGGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* * *
4963214 CAAATCTTGTCTTCATGTATTGATATGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAGAAAA
** *
4963258 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAAAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAGAAAA
* * * *
4963302 CGGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGAT-CAAGAAAA
** * *
4963346 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* *
4963390 CAGATCTTGTCTTCATGTATT-AGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATC-AAGAAAA
* * *
4963434 CAGACCTTGTCTTCATGTATT-AGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATC-AAGAAAA
*
4963478 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAAAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAGAAAA
* *
4963522 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGAT-CAAGAAAA
** *
4963566 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAAAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAGAAAA
* * * *
4963610 CGGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGAT-CAAGAAAA
** *
4963654 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAAAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAGAAAA
* * * *
4963698 CGGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAA
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGAT-CAAGAAAA
** * *
4963742 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCA-AGAAAA
* *
4963786 CAGATCTTGTCTTCATGTATT-AGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATC-AAGAAAA
* * * *
4963830 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAGAAAA
* * ** * *
4963874 CAGATATTGTCTTCCCATACTGGTGGC--GAAATAGATCGAAGAAAA
1 CAGATCTTGTCTT--CAT-GTATTGACATGAAGTAGATC-AAGAAAA
* * * *
4963919 CAGATATTGTCTTCATGTACT-AGCATGAAGTAGATCAATGATAG
1 CAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATCAA-GAAAA
*
4963963 CAGATATTGTCTTC
1 CAGATCTTGTCTTC
4963977 CCATATTGGT
Statistics
Matches: 1094, Mismatches: 121, Indels: 64
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.00
43 20 0.02
44 1022 0.93
45 41 0.04
46 3 0.00
47 5 0.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (43 bp):
CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAGAAAA
Found at i:4964929 original size:12 final size:12
Alignment explanation
Indices: 4964908--4964944 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
4964898 TTTCTTTTTG
4964908 TTTATATTTCTT
1 TTTATATTTCTT
*
4964920 TTTTTATTTCTT
1 TTTATATTTCTT
4964932 TTTAT-TTTCTT
1 TTTATATTTCTT
4964943 TT
1 TT
4964945 ATTTTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTATATTTCTT
Found at i:4964940 original size:11 final size:11
Alignment explanation
Indices: 4964908--4964960 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
4964898 TTTCTTTTTG
4964908 TTTATATTTCTT
1 TTTAT-TTTCTT
*
4964920 TTTTTATTTCTT
1 TTTAT-TTTCTT
4964932 TTTATTTTC-T
1 TTTATTTTCTT
*
4964942 TTTATTTTCAT
1 TTTATTTTCTT
*
4964953 TTTGTTTT
1 TTTATTTT
4964961 ACCTAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.27
11 12 0.32
12 15 0.41
ACGTcount: A:0.11, C:0.08, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTATTTTCTT
Found at i:4968366 original size:18 final size:19
Alignment explanation
Indices: 4968340--4968386 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
4968330 CAACCCATTT
*
4968340 TATTAATGT-TGCTTGGAA
1 TATTGATGTCTGCTTGGAA
*
4968358 TATTGATGTGCTTCTTGGAA
1 TATTGATGT-CTGCTTGGAA
4968378 TATTGATGT
1 TATTGATGT
4968387 GAAGCCTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
20 17 0.68
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.47
Consensus pattern (19 bp):
TATTGATGTCTGCTTGGAA
Found at i:4969687 original size:39 final size:42
Alignment explanation
Indices: 4969603--4969690 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 42
4969593 TTAAAAATAT
*
4969603 TTATATTAAAAAAACACTACCATAAATATAATAAATGATTTA
1 TTATATTAAAAAAACACTACAATAAATATAATAAATGATTTA
4969645 TTATATT-AAAAAACAC-A-AATAAATATAATAAAT-ATTTTA
1 TTATATTAAAAAAACACTACAATAAATATAATAAATGA-TTTA
4969684 TTATATT
1 TTATATT
4969691 GCATATATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 1 0.02
39 26 0.59
40 1 0.02
41 9 0.20
42 7 0.16
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.38
Consensus pattern (42 bp):
TTATATTAAAAAAACACTACAATAAATATAATAAATGATTTA
Found at i:4970029 original size:21 final size:20
Alignment explanation
Indices: 4969991--4970029 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4969981 AAATTTTTCG
* *
4969991 AATTAAGTCGAGTGAAATGA
1 AATTAAGTCGACTCAAATGA
4970011 AATTCAAGTCGACTCAAAT
1 AATT-AAGTCGACTCAAAT
4970030 CGAGTGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
AATTAAGTCGACTCAAATGA
Found at i:4970322 original size:18 final size:19
Alignment explanation
Indices: 4970284--4970324 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4970274 TCTTTACAAC
*
4970284 TTTTTTTAAAAATTTATAA
1 TTTTTTTAAAAATATATAA
*
4970303 TTTTTTTTAAAATATA-AA
1 TTTTTTTAAAAATATATAA
4970321 TTTT
1 TTTT
4970325 GAAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTTAAAAATATATAA
Found at i:4970339 original size:18 final size:17
Alignment explanation
Indices: 4970318--4970356 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 17
4970308 TTTAAAATAT
4970318 AAATTTTGAAAATTTTAAA
1 AAATTTTG--AATTTTAAA
4970337 AATATTTTGAATTTTAAA
1 AA-ATTTTGAATTTTAAA
4970355 AA
1 AA
4970357 TTATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 2 0.11
20 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
AAATTTTGAATTTTAAA
Found at i:4970370 original size:19 final size:18
Alignment explanation
Indices: 4970327--4970369 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4970317 TAAATTTTGA
4970327 AAATTTTAAAAATATTTT
1 AAATTTTAAAAATATTTT
*
4970345 GAATTTTAAAAAT-TATTT
1 AAATTTTAAAAATAT-TTT
4970363 AAATTTT
1 AAATTTT
4970370 TTGATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AAATTTTAAAAATATTTT
Found at i:4970391 original size:11 final size:11
Alignment explanation
Indices: 4970368--4970401 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
4970358 TATTTAAATT
4970368 TTTTGATATTTA
1 TTTTGA-ATTTA
4970380 TTTTGAATTTA
1 TTTTGAATTTA
4970391 TTTTGTAATTT
1 TTTTG-AATTT
4970402 TTTACGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (11 bp):
TTTTGAATTTA
Found at i:4978781 original size:20 final size:21
Alignment explanation
Indices: 4978756--4978801 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4978746 AAAAAGCAGC
4978756 CCACC-GGAGAAG-CCCATTGA
1 CCACCGGGA-AAGCCCCATTGA
*
4978776 CCACCGGGAAAGCCCCTTTGA
1 CCACCGGGAAAGCCCCATTGA
4978797 CCACC
1 CCACC
4978802 ACTTTAACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.26, C:0.41, G:0.22, T:0.11
Consensus pattern (21 bp):
CCACCGGGAAAGCCCCATTGA
Found at i:4986235 original size:17 final size:17
Alignment explanation
Indices: 4986213--4986246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4986203 CTCTGAATTG
*
4986213 GGGCAATGCAGAAGGAA
1 GGGCAATGCAAAAGGAA
4986230 GGGCAATGCAAAAGGAA
1 GGGCAATGCAAAAGGAA
4986247 CAATGACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.38, T:0.06
Consensus pattern (17 bp):
GGGCAATGCAAAAGGAA
Found at i:4986478 original size:6 final size:6
Alignment explanation
Indices: 4986467--4986511 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
4986457 TTTTACATCG
4986467 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAAT ATAAAT ATAAAT AT
1 ATAAAT ATAAAT ATAAAT ATAAAT AT-AAAT ATAAAT ATAAAT AT
4986512 TCTTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:4991684 original size:6 final size:6
Alignment explanation
Indices: 4991673--4991708 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4991663 CGGTAACGGA
* *
4991673 TTGCTG TTGCTG TTGCTG TTGTTG TTGCTG CTGCTG
1 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG
4991709 ATGGTGAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.17, G:0.33, T:0.50
Consensus pattern (6 bp):
TTGCTG
Found at i:4995160 original size:21 final size:20
Alignment explanation
Indices: 4995135--4995200 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
4995125 AGCAATTTAA
4995135 TTCTTTTATGTTCTTTTAACT
1 TTCTTTTAT-TTCTTTTAACT
* **
4995156 TTCTTTCTATTTTTTTTTTCT
1 TTCTTT-TATTTCTTTTAACT
*
4995177 TTTTTTTCATTCTCTTTTAACT
1 TTCTTTT-ATT-TCTTTTAACT
4995199 TT
1 TT
4995201 ATGTTCTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.63
22 12 0.34
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.73
Consensus pattern (20 bp):
TTCTTTTATTTCTTTTAACT
Found at i:4996319 original size:19 final size:20
Alignment explanation
Indices: 4996297--4996339 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
4996287 TAAATAAAAA
*
4996297 TTAATAAAAATATTAAAT-T
1 TTAATAAAAATATAAAATAT
4996316 TTAATAAAAATATAAAATAT
1 TTAATAAAAATATAAAATAT
4996336 TTAA
1 TTAA
4996340 AATTTACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATAAAAATATAAAATAT
Found at i:4996339 original size:27 final size:29
Alignment explanation
Indices: 4996280--4996365 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 29
4996270 CATGTGACAA
4996280 AAAATTATAAATAAAAATTAATAAAAATATT
1 AAAATT-T-AATAAAAATTAATAAAAATATT
*
4996311 AAATTTTAATAAAAA-T-AT-AAAATATTT
1 AAAATTTAATAAAAATTAATAAAAATA-TT
* *
4996338 AAAATTTACTAAAAAATAGA-AAAAATAT
1 AAAATTTAATAAAAATTA-ATAAAAATAT
4996366 AAGAATCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
26 6 0.13
27 17 0.36
28 2 0.04
29 9 0.19
30 8 0.17
31 5 0.11
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAATTTAATAAAAATTAATAAAAATATT
Found at i:4999663 original size:14 final size:14
Alignment explanation
Indices: 4999644--4999675 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4999634 GGGTCTAGGA
4999644 ATAACAATGTGATT
1 ATAACAATGTGATT
4999658 ATAACAATGTGATT
1 ATAACAATGTGATT
4999672 ATAA
1 ATAA
4999676 GATATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (14 bp):
ATAACAATGTGATT
Found at i:4999761 original size:12 final size:12
Alignment explanation
Indices: 4999734--4999768 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4999724 CACTTTTATA
*
4999734 TTTGAGAATATCT
1 TTTGAAAAT-TCT
4999747 TTTGAAAATTCT
1 TTTGAAAATTCT
4999759 TTTGAAAATT
1 TTTGAAAATT
4999769 ATTAACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (12 bp):
TTTGAAAATTCT
Found at i:5002178 original size:8 final size:8
Alignment explanation
Indices: 5002165--5002189 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5002155 AAGAAGGAAC
5002165 ACACATAG
1 ACACATAG
5002173 ACACATAG
1 ACACATAG
5002181 ACACATAG
1 ACACATAG
5002189 A
1 A
5002190 ATATATGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (8 bp):
ACACATAG
Found at i:5003260 original size:36 final size:36
Alignment explanation
Indices: 5003212--5003284 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
5003202 CACATAACTT
* *
5003212 AAAAAATGAACGATAGGTTGATATTTATGTTTGATA
1 AAAAAATAAACGATAGGTTGATATTTATGGTTGATA
5003248 AAAAAATAAACGATAGGTTGATATTTATGGTTGATA
1 AAAAAATAAACGATAGGTTGATATTTATGGTTGATA
5003284 A
1 A
5003285 TATCGATAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (36 bp):
AAAAAATAAACGATAGGTTGATATTTATGGTTGATA
Found at i:5003292 original size:30 final size:32
Alignment explanation
Indices: 5003215--5003300 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 32
5003205 ATAACTTAAA
* *
5003215 AAATGAACGATAGGTTGATATTTATGTTTGAT
1 AAATAAACGATAGGTTGATATTTATGGTTGAT
5003247 AAAAAAATAAACGATAGGTTGATATTTATGGTTGAT
1 ----AAATAAACGATAGGTTGATATTTATGGTTGAT
*
5003283 -AAT-ATCGATAGGTTGATA
1 AAATAAACGATAGGTTGATA
5003301 AAATGAACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 14 0.30
31 3 0.06
36 30 0.64
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (32 bp):
AAATAAACGATAGGTTGATATTTATGGTTGAT
Found at i:5006160 original size:14 final size:15
Alignment explanation
Indices: 5006133--5006161 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5006123 CGTGGCATCC
5006133 TTCTTATATCTTTTT
1 TTCTTATATCTTTTT
5006148 TTCTTAT-TCTTTTT
1 TTCTTATATCTTTTT
5006162 ATTTCCCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTATATCTTTTT
Found at i:5009346 original size:132 final size:137
Alignment explanation
Indices: 5009182--5009460 Score: 417
Period size: 144 Copynumber: 2.0 Consensus size: 137
5009172 CCTACGTTCC
5009182 ATTCAAACCGAAATCCAATTCAATATTATAATT-C-C-AA-CAAC-AATTCATTTCCAAAAATAG
1 ATTCAAACCGAAATCCAATTCAATATTATAATTCCACTAATCAACAAATTCATTTCCAAAAATAG
*
5009242 AATAAATAAATAATACCATTCATCAATTTATACAAAA-TATTAAATTTTAACCGTAAGAACTTAC
66 AATAAATAAATAATACCATTCATAAATTTATA-AAAATTATTAAATTTTAACCGTAAGAACTTAC
5009306 CTGGCTAA
130 CTGGCTAA
5009314 ATTCAAACCGAAATCCAATTCAATATTATAATTCCAACTATAATTCCAACAATAATTCATTTCCA
1 ATTCAAACCGAAATCCAATTCAATATTATAATTCC-AC--TAA-T-CAAC-A-AATTCATTTCCA
* *
5009379 ACAATAGAATAAATAAATAATACCATTCATAAATTTATAAAAATTATTAAATTTTAACTGTAAGA
59 AAAATAGAATAAATAAATAATACCATTCATAAATTTATAAAAATTATTAAATTTTAACCGTAAGA
5009444 ACTTACCTGGCTAA
124 ACTTACCTGGCTAA
5009458 ATT
1 ATT
5009461 GCAGAAATAT
Statistics
Matches: 131, Mismatches: 3, Indels: 14
0.89 0.02 0.09
Matches are distributed among these distances:
132 33 0.25
133 1 0.01
135 1 0.01
138 2 0.02
141 4 0.03
143 4 0.03
144 86 0.66
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (137 bp):
ATTCAAACCGAAATCCAATTCAATATTATAATTCCACTAATCAACAAATTCATTTCCAAAAATAG
AATAAATAAATAATACCATTCATAAATTTATAAAAATTATTAAATTTTAACCGTAAGAACTTACC
TGGCTAA
Found at i:5009357 original size:12 final size:12
Alignment explanation
Indices: 5009340--5009371 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
5009330 AATTCAATAT
5009340 TATAATTCCAAC
1 TATAATTCCAAC
5009352 TATAATTCCAAC
1 TATAATTCCAAC
*
5009364 AATAATTC
1 TATAATTC
5009372 ATTTCCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (12 bp):
TATAATTCCAAC
Found at i:5012024 original size:23 final size:23
Alignment explanation
Indices: 5011998--5012055 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
5011988 CTTAATAGTG
**
5011998 ATCATATAACCAGAATGACACAA
1 ATCATATAACCAGAACAACACAA
*
5012021 ATCACATAACCAGAACAACACAA
1 ATCATATAACCAGAACAACACAA
*
5012044 ATCGTATAACCA
1 ATCATATAACCA
5012056 AAAGAGAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.16
Consensus pattern (23 bp):
ATCATATAACCAGAACAACACAA
Found at i:5016782 original size:2 final size:2
Alignment explanation
Indices: 5016771--5016809 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
5016761 TGTAGCCAAA
5016771 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5016810 TTACCTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5017985 original size:2 final size:2
Alignment explanation
Indices: 5017978--5018010 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5017968 TTATTTGTAG
5017978 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5018011 GTTTAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5025030 original size:2 final size:2
Alignment explanation
Indices: 5025023--5025059 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
5025013 TAGTTATCAC
5025023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5025060 CATAACGCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5027749 original size:521 final size:517
Alignment explanation
Indices: 5026750--5027788 Score: 1862
Period size: 521 Copynumber: 2.0 Consensus size: 517
5026740 GTCAAGTAGA
5026750 ATTATTCAAACTTAGTAACAGAAAAAATTAAATGACAGCAATCTTAAACACATGATCTCAACACT
1 ATTATTCAAACTTAGTAACAGAAAAAATTAAATGACAGCAATCTTAAACACATGATCTCAACACT
*
5026815 CCTCCTTGTTTAGATGCTGCAAACTCCAATTATCTTTCTGTCCAGTGGTCGATCAACCAACTCCC
66 CCTCCTTGTTTAGATGCTGCAAACTCCAATTATCTTTCTGTCCAGAGGTCGATCAACCAACTCCC
* *
5026880 AAGTTTTGTTTTTTCTCGATCATCGAGAGCTCCTCCTTCATTGCAGCCATCCAATGTTGATTGTT
131 AAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCATTGCAGCCATCCAATGTTGACTGTT
5026945 TTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTTACATCTTTGGTAAATGTCGAAGA
196 TTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTTACATCTTTGGTAAATGTCGAAGA
* *
5027010 GCAGCCTTGTACCTCTGACAGGTGCATCATCAGCCAATACATCTTGCCCTTCATCTTCAAGCTCT
261 GCAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACATCTTGCCCTTCATCTTCAAGCTCT
* * *
5027075 TCTAATGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAAGTTTGGTTCGTCTTGGTCGAGTC
326 TCTAACGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAACTTTGGTTCGTCTTGATCGAGTC
5027140 TTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCTGCTCACAATAACACGTCCAGTGT
391 TTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCTGCTCACAATAACACGTCCAGTGT
5027205 GTGGTTGAAAGACTCTGTAAGCTTTAGACACAGTGCTATACCCAACAAAAATGCCAGCTTCT
456 GTGGTTGAAAGACTCTGTAAGCTTTAGACACAGTGCTATACCCAACAAAAATGCCAGCTTCT
5027267 ATTATTCAAACTTAGTAACAGAAAAAAATTAAATGACAGCAATCTTAAACACATGATCTCAACAC
1 ATTATTCAAACTTAGTAACAG-AAAAAATTAAATGACAGCAATCTTAAACACATGATCTCAACAC
5027332 TCCTCCTTGTTTAGATGCTGCAAATTACTCCAATTATCTTTCTGTCCAGAGGTCGATCAACCAAC
65 TCCTCCTTGTTTAGATGCTGC-AA--ACTCCAATTATCTTTCTGTCCAGAGGTCGATCAACCAAC
5027397 TCCCAAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCATTGCAGCCATCCAATGTTGAC
127 TCCCAAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCATTGCAGCCATCCAATGTTGAC
* * *
5027462 TGTTTTTTGCATCATGATACCCTGCAGGCTTACAAATAGCCATGTTACATCTTTGGTAAATGTCG
192 TGTTTTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTTACATCTTTGGTAAATGTCG
* *
5027527 GAGAGTAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACATCTTGCCCTTCATCTTCAAG
257 AAGAGCAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACATCTTGCCCTTCATCTTCAAG
* * * *
5027592 CTCTTCTAACGTGCTGCCAATTGTAGAACGATTTGGTGCACTAGACCTTTGGTTTGTCTTGATCG
322 CTCTTCTAACGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAACTTTGGTTCGTCTTGATCG
* *
5027657 AGTCTTCCCAATTCCATTGCTTATTTTCAACAAAATAAACATCTCTGCTCACAATAACACGTCCA
387 AGTCTTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCTGCTCACAATAACACGTCCA
*
5027722 GTGTGTGGTTGAAAGACTCTGTAAGCTTTAGATACAGTGCTATACCCAACAAAAATGCCAGCTTC
452 GTGTGTGGTTGAAAGACTCTGTAAGCTTTAGACACAGTGCTATACCCAACAAAAATGCCAGCTTC
5027787 T
517 T
5027788 A
1 A
5027789 CCTTTTTGTC
Statistics
Matches: 498, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
517 21 0.04
518 64 0.13
519 2 0.00
521 411 0.83
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (517 bp):
ATTATTCAAACTTAGTAACAGAAAAAATTAAATGACAGCAATCTTAAACACATGATCTCAACACT
CCTCCTTGTTTAGATGCTGCAAACTCCAATTATCTTTCTGTCCAGAGGTCGATCAACCAACTCCC
AAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCATTGCAGCCATCCAATGTTGACTGTT
TTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTTACATCTTTGGTAAATGTCGAAGA
GCAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACATCTTGCCCTTCATCTTCAAGCTCT
TCTAACGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAACTTTGGTTCGTCTTGATCGAGTC
TTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCTGCTCACAATAACACGTCCAGTGT
GTGGTTGAAAGACTCTGTAAGCTTTAGACACAGTGCTATACCCAACAAAAATGCCAGCTTCT
Found at i:5028650 original size:677 final size:679
Alignment explanation
Indices: 5027312--5028669 Score: 2497
Period size: 677 Copynumber: 2.0 Consensus size: 679
5027302 ACAGCAATCT
5027312 TAAACACATGATCTCAACACTCCTCCTTGTTTAGATGCTGCAAATTACTCCAATTATCTTTCTGT
1 TAAACACATGATCTCAACACTCCTCCTTGTTTAGATGCTGCAAA-TACTCCAATTATCTTTCTGT
5027377 CCAGAGGTCGATCAACCAACTCCCAAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCAT
65 CCAGAGGTCGATCAACCAACTCCCAAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCAT
* * *
5027442 TGCAGCCATCCAATGTTGACTGTTTTTTGCATCATGATACCCTGCAGGCTTACAAATAGCCATGT
130 TGCAGCCATCCAATGTTGACTGTTTTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGT
* *
5027507 TACATCTTTGGTAAATGTCGGAGAGTAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACA
195 TACATCTTTGGTAAATGTCGAAGAGCAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACA
* *
5027572 TCTTGCCCTTCATCTTCAAGCTCTTCTAACGTGCTGCCAATTGTAGAACGATTTGGTGCACTAGA
260 TCTTGCCCTTCATCTTCAAGCTCTTCTAACGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGA
* * * *
5027637 CCTTTGGTTTGTCTTGATCGAGTCTTCCCAATTCCATTGCTTATTTTCAACAAAATAAACATCTC
325 ACTTTGGTTCGTCTTGATCGAGTCTTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTC
*
5027702 TGCTCACAATAACACGTCCAGTGTGTGGTTGAAAGACTCTGTAAGCTTTAGATACAGTGCTATAC
390 TGCTCACAATAACACGTCCAGTGTGTGGTTGAAAGACTCTGTAAGCTTTAGACACAGTGCTATAC
5027767 CCAACAAAAATGCCAGCTTCTACCTTTTTGTCAAGCTTACCACGCTTGACCTGTGGAATGTAAGT
455 CCAACAAAAATGCCAGCTTCTACCTTTTTGTCAAGCTTACCACGCTTGACCTGTGGAATGTAAGT
5027832 GAAACACAGGCAGGCAAACACTCTAAGAAACTTTAAAGAAGTTTTGTAACCATACCAAGCTTCAA
520 GAAACACAGGCAGGCAAACACTCTAAGAAACTTTAAAGAAGTTTTGTAACCATACCAAGCTTCAA
5027897 ATGGCGTCTGATCCTTCACAGCTTTTGTTGAAATCCGATTTTGCAAGAATACAGCAGTGTTTGTA
585 ATGGCGTCTGATCCTTCACAGCTTTTGTTGAAATCCGATTTTGCAAGAATACAGCAGTGTTTGTA
5027962 GCTTCTCCCCAAAAGCTTTTTGGAAGATTC
650 GCTTCTCCCCAAAAGCTTTTTGGAAGATTC
5027992 TAAACACATGATCTCAACACTCCTCCTTGTTTAGATGCTGC-AA-ACTCCAATTATCTTTCTGTC
1 TAAACACATGATCTCAACACTCCTCCTTGTTTAGATGCTGCAAATACTCCAATTATCTTTCTGTC
* *
5028055 CAGTGGTCGATCAACCAACTCCCAAGTTTTGTTTTTTCTCGATCATCGAGAGCTCCTCCTTCATT
66 CAGAGGTCGATCAACCAACTCCCAAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCATT
*
5028120 GCAGCCATCCAATGTTGATTGTTTTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTT
131 GCAGCCATCCAATGTTGACTGTTTTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTT
* *
5028185 ACATCTTTGGTAAATGTCGAAGAGCAGCCTTGTACCTCTGACAGGTGCATCATCAGCCAATACAT
196 ACATCTTTGGTAAATGTCGAAGAGCAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACAT
*
5028250 CTTGCCCTTCATCTTCAAGCTCTTCTAATGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAA
261 CTTGCCCTTCATCTTCAAGCTCTTCTAACGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAA
* *
5028315 GTTTGGTTCGTCTTGGTCGAGTCTTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCT
326 CTTTGGTTCGTCTTGATCGAGTCTTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCT
5028380 GCTCACAATAACACGTCCAGTGTGTGGTTGAAAGACTCTGTAAGCTTTAGACACAGGTGCTATA-
391 GCTCACAATAACACGTCCAGTGTGTGGTTGAAAGACTCTGTAAGCTTTAGACACA-GTGCTATAC
5028444 CCAACAAAAATGCCAGCTTCTACCTTTTTGTCAAGCTTACCACGCTTGACCTGTGGAATGTAAGT
455 CCAACAAAAATGCCAGCTTCTACCTTTTTGTCAAGCTTACCACGCTTGACCTGTGGAATGTAAGT
5028509 GAAACACAGGCAGGCAAACACTCTAAGAAACTTTAAAGAAGTTTTGTAACCATACCAAGCTTCAA
520 GAAACACAGGCAGGCAAACACTCTAAGAAACTTTAAAGAAGTTTTGTAACCATACCAAGCTTCAA
5028574 ATGGCGTCTGATCCTTCACAGCTTTTGTTGAAATCCGATTTTGCAAGAATACAGCAGTGTTTGTA
585 ATGGCGTCTGATCCTTCACAGCTTTTGTTGAAATCCGATTTTGCAAGAATACAGCAGTGTTTGTA
5028639 GCTTCTCCCCAAAAGCTTTTTGGAAGATTC
650 GCTTCTCCCCAAAAGCTTTTTGGAAGATTC
5028669 T
1 T
5028670 TCTCATGAAG
Statistics
Matches: 657, Mismatches: 20, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
677 606 0.92
678 8 0.01
679 2 0.00
680 41 0.06
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (679 bp):
TAAACACATGATCTCAACACTCCTCCTTGTTTAGATGCTGCAAATACTCCAATTATCTTTCTGTC
CAGAGGTCGATCAACCAACTCCCAAGTTTTGTTTTTTCTCGATCATCGAAAGCTCCTCCTTCATT
GCAGCCATCCAATGTTGACTGTTTTTTGCATCAGGATACACTGCAGGCTCACAAATAGCCATGTT
ACATCTTTGGTAAATGTCGAAGAGCAGCCTTGTACCTCTGACAGGCGCATCATCAGCCAAAACAT
CTTGCCCTTCATCTTCAAGCTCTTCTAACGTGCTGCCAATGGTAAAACGATTTGGTGCACTAGAA
CTTTGGTTCGTCTTGATCGAGTCTTCCCAATCCCATTGCTCATTTTCAACAAAATAAACATCTCT
GCTCACAATAACACGTCCAGTGTGTGGTTGAAAGACTCTGTAAGCTTTAGACACAGTGCTATACC
CAACAAAAATGCCAGCTTCTACCTTTTTGTCAAGCTTACCACGCTTGACCTGTGGAATGTAAGTG
AAACACAGGCAGGCAAACACTCTAAGAAACTTTAAAGAAGTTTTGTAACCATACCAAGCTTCAAA
TGGCGTCTGATCCTTCACAGCTTTTGTTGAAATCCGATTTTGCAAGAATACAGCAGTGTTTGTAG
CTTCTCCCCAAAAGCTTTTTGGAAGATTC
Found at i:5028974 original size:43 final size:43
Alignment explanation
Indices: 5028927--5029014 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
5028917 CTTCAACAAA
*
5028927 AAAATCCAACACATTCTTGTTAGATCATTGATAAAGGCTATGT
1 AAAATCCAACACATTCTTGTTAGATCATTGATAAAGACTATGT
5028970 AAAATCCAACACATTCTTGTTAGATCATTGATAAAGACTATGT
1 AAAATCCAACACATTCTTGTTAGATCATTGATAAAGACTATGT
5029013 AA
1 AA
5029015 TAGAGGTTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (43 bp):
AAAATCCAACACATTCTTGTTAGATCATTGATAAAGACTATGT
Found at i:5036208 original size:15 final size:16
Alignment explanation
Indices: 5036183--5036226 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
5036173 AAAACTCTTT
5036183 AAAATTCAAAAATAAA
1 AAAATTCAAAAATAAA
* *
5036199 AAAATT-AAAATTTAA
1 AAAATTCAAAAATAAA
*
5036214 AAAATTCCAAAAT
1 AAAATTCAAAAAT
5036227 TTAATGTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTCAAAAATAAA
Found at i:5036400 original size:21 final size:22
Alignment explanation
Indices: 5036374--5036414 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5036364 CAAGTGGACA
*
5036374 GATTTTATAAT-TTTTATTTTT
1 GATTTTATAATAATTTATTTTT
*
5036395 GATTTTTTAATAATTTATTT
1 GATTTTATAATAATTTATTT
5036415 GCTTTGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
GATTTTATAATAATTTATTTTT
Found at i:5041664 original size:45 final size:45
Alignment explanation
Indices: 5041570--5041749 Score: 231
Period size: 45 Copynumber: 4.0 Consensus size: 45
5041560 CAGATACACG
* * * * * *
5041570 GTGG-ATCAGCACATAGC-ACTACCCTTATAGTCAATGATACTCG
1 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCA
* *
5041613 GTGGAATCAGCACATAGCAACCACCTTCATAATCAAT-AGTACCCA
1 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGA-TACCCA
* *
5041658 GTGGAATCAGCACACAACAACCACCTTTATAATCAATGATACCTA
1 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCA
*
5041703 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGGTACCCA
1 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCA
5041748 GT
1 GT
5041750 ACACGTAGTA
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
43 4 0.03
44 14 0.12
45 101 0.84
46 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (45 bp):
GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCA
Found at i:5046955 original size:7 final size:7
Alignment explanation
Indices: 5046943--5046982 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
5046933 AACGTTATGA
5046943 GTTTAGG
1 GTTTAGG
5046950 GTTTAGG
1 GTTTAGG
*
5046957 GTTTAGA
1 GTTTAGG
5046964 GTTTAGG
1 GTTTAGG
5046971 GTTTAGG
1 GTTTAGG
5046978 GTTTA
1 GTTTA
5046983 TGAGTTTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:5046967 original size:21 final size:22
Alignment explanation
Indices: 5046937--5046989 Score: 99
Period size: 21 Copynumber: 2.5 Consensus size: 22
5046927 TTCATCAACG
5046937 TTATGAGTTTAGGGTTTAGGGT
1 TTATGAGTTTAGGGTTTAGGGT
5046959 TTA-GAGTTTAGGGTTTAGGGT
1 TTATGAGTTTAGGGTTTAGGGT
5046980 TTATGAGTTT
1 TTATGAGTTT
5046990 CAGATGGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (22 bp):
TTATGAGTTTAGGGTTTAGGGT
Found at i:5055580 original size:72 final size:72
Alignment explanation
Indices: 5055463--5055682 Score: 422
Period size: 72 Copynumber: 3.1 Consensus size: 72
5055453 AAAACAAAAG
5055463 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
5055528 AATATGA
66 AATATGA
5055535 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
5055600 AATATGA
66 AATATGA
* *
5055607 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGAAAGCACCATATATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
5055672 AATATGA
66 AATATGA
5055679 AAAT
1 AAAT
5055683 ATATAGCCTA
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 146 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (72 bp):
AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
AATATGA
Found at i:5058099 original size:7 final size:8
Alignment explanation
Indices: 5058083--5058108 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5058073 ATTACCACTA
5058083 TTTTATTT
1 TTTTATTT
5058091 TTTTATTT
1 TTTTATTT
5058099 TTTTATTT
1 TTTTATTT
5058107 TT
1 TT
5058109 GTCTTTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:5058398 original size:29 final size:28
Alignment explanation
Indices: 5058366--5058450 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
5058356 ATTAAAATCA
5058366 ATAAAAATTATTAAATTTTAATAAAAAAT
1 ATAAAAATTATTAAATTTT-ATAAAAAAT
* *
5058395 ATAAGAAA-TATTTAATTTTTATTAAAAAT
1 ATAA-AAATTA-TTAAATTTTATAAAAAAT
* * *
5058424 TTAAAAGATTGTAAAATTTTATAAAAA
1 ATAAAA-ATTATTAAATTTTATAAAAA
5058451 TCNNNNNNNN
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
28 2 0.04
29 31 0.69
30 12 0.27
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (28 bp):
ATAAAAATTATTAAATTTTATAAAAAAT
Found at i:5058565 original size:9 final size:9
Alignment explanation
Indices: 5058517--5058566 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
5058507 AAAATAAGTA
5058517 TTTTATAAT
1 TTTTATAAT
*
5058526 ATTTCTATGAT
1 -TTT-TATAAT
5058537 TTTTATAGAT
1 TTTTATA-AT
5058547 TTTTAT--T
1 TTTTATAAT
5058554 TTTTATAAT
1 TTTTATAAT
5058563 TTTT
1 TTTT
5058567 CGTCACATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
7 7 0.21
9 8 0.24
10 14 0.41
11 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:5058717 original size:29 final size:28
Alignment explanation
Indices: 5058685--5058837 Score: 122
Period size: 29 Copynumber: 5.5 Consensus size: 28
5058675 TTTTGATGCA
*
5058685 TTTTATAATATTTATAAATTTTTACAATT
1 TTTTATAATTTTTATAAATTTTTA-AATT
* *
5058714 TTTTAT-ATTTTTATACTATTTTTATATTT
1 TTTTATAATTTTTATA-AATTTTTA-AATT
* * *
5058743 TTTTCTAATTTGTAGTAAATTTTAAATATT
1 TTTTATAATTTTTA-TAAATTTTTAA-ATT
* *
5058773 TTTTAT-ATTTTTATTAAA-GTTT-AATA
1 TTTTATAATTTTTA-TAAATTTTTAAATT
5058799 TTTTATAATTTTTATAAATTTTT--A-T
1 TTTTATAATTTTTATAAATTTTTAAATT
5058824 TTTTATAAATTTTT
1 TTTTAT-AATTTTT
5058838 TTGTCACATG
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
25 6 0.06
26 20 0.20
27 11 0.11
28 10 0.10
29 32 0.32
30 19 0.19
31 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTATAATTTTTATAAATTTTTAAATT
Found at i:5058733 original size:11 final size:10
Alignment explanation
Indices: 5058685--5058823 Score: 82
Period size: 10 Copynumber: 14.6 Consensus size: 10
5058675 TTTTGATGCA
5058685 TTTTATA-AT
1 TTTTATATAT
* *
5058694 ATTTATAAAT
1 TTTTATATAT
*
5058704 TTTTACA-AT
1 TTTTATATAT
5058713 TTTT-TATAT
1 TTTTATATAT
5058722 TTTTATACTAT
1 TTTTATA-TAT
*
5058733 TTTTATATTT
1 TTTTATATAT
*
5058743 TTTTCTA-AT
1 TTTTATATAT
* *
5058752 TTGTAGTA-AA
1 TTTTA-TATAT
*
5058762 TTTTAAATAT
1 TTTTATATAT
5058772 TTTT-TATAT
1 TTTTATATAT
*
5058781 TTTTAT-TAAA
1 TTTTATAT-AT
*
5058791 GTTTA-ATA-
1 TTTTATATAT
5058799 TTTTATA-AT
1 TTTTATATAT
*
5058808 TTTTATAAAT
1 TTTTATATAT
5058818 TTTTAT
1 TTTTAT
5058824 TTTTATAAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.06
9 41 0.41
10 44 0.44
11 10 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATATAT
Found at i:5058810 original size:26 final size:25
Alignment explanation
Indices: 5058772--5058837 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
5058762 TTTTAAATAT
5058772 TTTTTAT-ATTTTTATTAAAGTTTAA
1 TTTTTATAATTTTTA-TAAAGTTTAA
* *
5058797 TATTTTATAATTTTTATAAATTTTTA
1 T-TTTTATAATTTTTATAAAGTTTAA
5058823 TTTTTATAAATTTTT
1 TTTTTAT-AATTTTT
5058838 TTGTCACATG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 7 0.19
26 22 0.61
27 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTATAATTTTTATAAAGTTTAA
Found at i:5058813 original size:9 final size:9
Alignment explanation
Indices: 5058685--5058837 Score: 75
Period size: 9 Copynumber: 16.4 Consensus size: 9
5058675 TTTTGATGCA
5058685 TTTTATAAT
1 TTTTATAAT
*
5058694 ATTTATAAAT
1 TTTTAT-AAT
*
5058704 TTTTACAAT
1 TTTTATAAT
5058713 TTTT-TATAT
1 TTTTATA-AT
5058722 TTTTATACTAT
1 TTTTATA--AT
*
5058733 TTTTATATTT
1 TTTTATA-AT
*
5058743 TTTTCTAAT
1 TTTTATAAT
* *
5058752 TTGTAGTAAA
1 TTTTA-TAAT
5058762 TTTTA-AAT
1 TTTTATAAT
*
5058770 ATTTTTTATAT
1 -TTTTATA-AT
5058781 TTTTATTAA-
1 TTTTA-TAAT
**
5058790 AGTT-TAAT
1 TTTTATAAT
5058798 ATTTTATAAT
1 -TTTTATAAT
*
5058808 TTTTATAAA
1 TTTTATAAT
5058817 TTTT-T-AT
1 TTTTATAAT
5058824 TTTTATAAAT
1 TTTTAT-AAT
5058834 TTTT
1 TTTT
5058838 TTGTCACATG
Statistics
Matches: 109, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
7 8 0.07
8 5 0.05
9 42 0.39
10 40 0.37
11 14 0.13
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:5058821 original size:19 final size:19
Alignment explanation
Indices: 5058685--5058837 Score: 97
Period size: 19 Copynumber: 8.2 Consensus size: 19
5058675 TTTTGATGCA
*
5058685 TTTTATAATATTTATAAAT
1 TTTTATAATTTTTATAAAT
* *
5058704 TTTTACAATTTTT-TATAT
1 TTTTATAATTTTTATAAAT
**
5058722 TTTTATACTATTTTTATATTT
1 TTTTATA--ATTTTTATAAAT
* *
5058743 TTTTCTAATTTGTAGTAAA-
1 TTTTATAATTTTTA-TAAAT
* *
5058762 TTTTA-AATATTTTTTATAT
1 TTTTATAAT-TTTTATAAAT
** *
5058781 TTTTATTAAAGTTTA-ATA-
1 TTTTA-TAATTTTTATAAAT
5058799 TTTTATAATTTTTATAAA-
1 TTTTATAATTTTTATAAAT
5058817 TTTT-T-ATTTTTATAAAT
1 TTTTATAATTTTTATAAAT
5058834 TTTT
1 TTTT
5058838 TTGTCACATG
Statistics
Matches: 105, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
16 11 0.10
17 12 0.11
18 27 0.26
19 32 0.30
20 11 0.10
21 12 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTATAAAT
Found at i:5058827 original size:16 final size:16
Alignment explanation
Indices: 5058806--5058837 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5058796 ATATTTTATA
5058806 ATTTTTATAAATTTTT
1 ATTTTTATAAATTTTT
5058822 ATTTTTATAAATTTTT
1 ATTTTTATAAATTTTT
5058838 TTGTCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTATAAATTTTT
Found at i:5067820 original size:16 final size:16
Alignment explanation
Indices: 5067787--5067819 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5067777 TGTTCTTTTA
5067787 TTGTTTTCATTTGCTT
1 TTGTTTTCATTTGCTT
*
5067803 TTGTTTTCCTTTG-TT
1 TTGTTTTCATTTGCTT
5067818 TT
1 TT
5067820 TTTGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.03, C:0.12, G:0.12, T:0.73
Consensus pattern (16 bp):
TTGTTTTCATTTGCTT
Found at i:5069433 original size:25 final size:25
Alignment explanation
Indices: 5069373--5069463 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
5069363 TGAGCACTTA
*
5069373 AACAGGAAGCTC-TCCCTCGAGCCATAT
1 AACAGGAAGCTCAT--CT-GAGTCATAT
* * *
5069400 AACAAGAAGCTCATGTGAGTCATGT
1 AACAGGAAGCTCATCTGAGTCATAT
* * * *
5069425 AACGGGAAGCTTATCTGGGTTATAT
1 AACAGGAAGCTCATCTGAGTCATAT
5069450 AACAGGAAGCTCAT
1 AACAGGAAGCTCAT
5069464 AAGAGCCATA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
25 37 0.74
26 1 0.02
27 11 0.22
28 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
AACAGGAAGCTCATCTGAGTCATAT
Found at i:5069535 original size:25 final size:25
Alignment explanation
Indices: 5069505--5069645 Score: 78
Period size: 25 Copynumber: 5.6 Consensus size: 25
5069495 AATAACGGGT
5069505 AGCTCCGAAGAGCCATTAATCAAGA
1 AGCTCCGAAGAGCCATTAATCAAGA
* *
5069530 AGCTCCGAATAGTCA-TATATCGAA-A
1 AGCTCCGAAGAGCCATTA-ATC-AAGA
* * **
5069555 A-TTTC-AAGCGAGCCA-T-ATCGGGA
1 AGCTCCGAA--GAGCCATTAATCAAGA
* * *
5069578 AACTCTGGAGAGCCATTAATCAAGA
1 AGCTCCGAAGAGCCATTAATCAAGA
* * *
5069603 AGCTCACAAAGAGCCTTTAATCAGGA
1 AGCTC-CGAAGAGCCATTAATCAAGA
5069629 AGCTCACGAAGAGCCAT
1 AGCTC-CGAAGAGCCAT
5069646 ATATCAGGAT
Statistics
Matches: 84, Mismatches: 22, Indels: 19
0.67 0.18 0.15
Matches are distributed among these distances:
23 13 0.15
24 6 0.07
25 33 0.39
26 32 0.38
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCAAGA
Found at i:5069651 original size:26 final size:26
Alignment explanation
Indices: 5069586--5069660 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
5069576 GAAACTCTGG
*
5069586 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
5069612 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
5069638 AGAGCCA-TATATCAGGATGCTCA
1 AGAGCCATTA-ATCAGGAAGCTCA
5069661 TAAGAGCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 2 0.05
26 41 0.95
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:5071042 original size:12 final size:12
Alignment explanation
Indices: 5071025--5071049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5071015 GGTGTTCATT
5071025 CGGTTAACCGAC
1 CGGTTAACCGAC
5071037 CGGTTAACCGAC
1 CGGTTAACCGAC
5071049 C
1 C
5071050 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:5071223 original size:9 final size:9
Alignment explanation
Indices: 5071209--5071271 Score: 81
Period size: 9 Copynumber: 6.9 Consensus size: 9
5071199 TTTGGTTAAA
5071209 AATTACCCG
1 AATTACCCG
5071218 AATTACCCG
1 AATTACCCG
5071227 AATTACCCG
1 AATTACCCG
*
5071236 AATTAACCG
1 AATTACCCG
**
5071245 AATTACCTAA
1 AATTACC-CG
*
5071255 AAATACCCG
1 AATTACCCG
5071264 AATTACCC
1 AATTACCC
5071272 AAAAATTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
9 39 0.87
10 6 0.13
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:5071434 original size:13 final size:13
Alignment explanation
Indices: 5071416--5071444 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5071406 TTTTAGTTTT
5071416 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
5071429 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
5071442 ATT
1 ATT
5071445 AAGTTTGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:5072189 original size:23 final size:23
Alignment explanation
Indices: 5072159--5072204 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5072149 CCTGGAGGCT
5072159 CATCTACATAGTAAGGGGTGGCA
1 CATCTACATAGTAAGGGGTGGCA
5072182 CATCTACATAGTAAGGGGTGGCA
1 CATCTACATAGTAAGGGGTGGCA
5072205 ACCATAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (23 bp):
CATCTACATAGTAAGGGGTGGCA
Found at i:5077570 original size:15 final size:15
Alignment explanation
Indices: 5077550--5077585 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
5077540 ATATTTAAGA
5077550 AAAAATGGATGTTGT
1 AAAAATGGATGTTGT
*
5077565 AAAAATGGATGTTTT
1 AAAAATGGATGTTGT
5077580 AAAAAT
1 AAAAAT
5077586 ATTAGTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (15 bp):
AAAAATGGATGTTGT
Found at i:5080371 original size:10 final size:11
Alignment explanation
Indices: 5080350--5080382 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
5080340 AACCTGCCCG
5080350 TATTAATTTTTA
1 TATT-ATTTTTA
5080362 TATT-TTTTTA
1 TATTATTTTTA
5080372 TATTATTTTTA
1 TATTATTTTTA
5080383 AATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:5083929 original size:22 final size:23
Alignment explanation
Indices: 5083898--5083942 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
5083888 AAAGAAAAGG
5083898 AAAAATAAATTATACCTATATTT
1 AAAAATAAATTATACCTATATTT
*
5083921 AAAAA-AAATTATACTTATATTT
1 AAAAATAAATTATACCTATATTT
5083943 CTTTAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAATAAATTATACCTATATTT
Found at i:5084084 original size:88 final size:88
Alignment explanation
Indices: 5083985--5084188 Score: 256
Period size: 88 Copynumber: 2.3 Consensus size: 88
5083975 TTTAAAGGTA
* ** *
5083985 CAAAAAGCTCTCAAATTTTTTCAAAAATAAATAAATAAACCCCTA-TTTTT-TTTTA-TCATTTT
1 CAAAAAGCTCTCAAACTTTTTCAAAAA-AAATAAATAAACCCCTACTTTTTCTTGCACTCA-ATT
5084047 GGGTACTTGAACTTTT-AAAATGTAT
64 GGGTACTTGAA-TTTTCAAAATGTAT
* * *
5084072 CAAAAAAGCTCTCAAACCTTTT-AAAAAAAATAATTAAGCCCCTACTTTTTCTTGCACTCAATTG
1 C-AAAAAGCTCTCAAACTTTTTCAAAAAAAATAAATAAACCCCTACTTTTTCTTGCACTCAATTG
5084136 GGTACTTGAATTTTCAAAATGTAT
65 GGTACTTGAATTTTCAAAATGTAT
*
5084160 CAAAAAGACCCTCAAACTTTTTCAAAAAA
1 CAAAAAG-CTCTCAAACTTTTTCAAAAAA
5084189 TCAATTAGGC
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
86 15 0.15
87 21 0.21
88 56 0.55
89 9 0.09
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (88 bp):
CAAAAAGCTCTCAAACTTTTTCAAAAAAAATAAATAAACCCCTACTTTTTCTTGCACTCAATTGG
GTACTTGAATTTTCAAAATGTAT
Found at i:5084195 original size:88 final size:88
Alignment explanation
Indices: 5084045--5084208 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 88
5084035 TTTTATCATT
*
5084045 TTGGGTACTTGAACTTTTAAAATGTATCAAAAAAGCTCTCAAACCTTTTAAAAAAAATAATTAAG
1 TTGGGTACTTGAACTTTTAAAATGTATCAAAAAAGCCCTCAAACCTTTTAAAAAAAATAATTAAG
5084110 CCCCTACTTTTTCTTGCACTCAA
66 CCCCTACTTTTTCTTGCACTCAA
**
5084133 TTGGGTACTTGAA-TTTTCAAAATGTATC-AAAAAGACCCTCAAA-CTTTTTCAAAAAATCAATT
1 TTGGGTACTTGAACTTTT-AAAATGTATCAAAAAAG-CCCTCAAACCTTTTAAAAAAAAT-AATT
* *
5084195 AGGCCCCTGCTTTT
63 AAGCCCCTACTTTT
5084209 ATTAAAAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
87 22 0.32
88 46 0.68
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (88 bp):
TTGGGTACTTGAACTTTTAAAATGTATCAAAAAAGCCCTCAAACCTTTTAAAAAAAATAATTAAG
CCCCTACTTTTTCTTGCACTCAA
Found at i:5084351 original size:22 final size:22
Alignment explanation
Indices: 5084295--5084340 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5084285 AAAATTTATG
*
5084295 AAAA-ATTAGAAAAAAAATATA
1 AAAATATTATAAAAAAAATATA
* *
5084316 AAAATATTGTAAAAAAATTATA
1 AAAATATTATAAAAAAAATATA
5084338 AAA
1 AAA
5084341 TTTTATCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATATTATAAAAAAAATATA
Found at i:5084716 original size:91 final size:91
Alignment explanation
Indices: 5084563--5084762 Score: 253
Period size: 91 Copynumber: 2.2 Consensus size: 91
5084553 TAAGAGCATT
*
5084563 GGCTTAATTG-CTTTTTTGAAAAAAATTGAGGGTCTTTTTGATAAATTTTAAAAGTTCAAGTGCC
1 GGCTTAATTGTTTTTTTTGAAAAAAATTGAGGGTCTTTTTGATAAATTTTAAAAGTTCAAGTGCC
5084627 CAATTAAGTGAAAA-AAAAA-AGCAGG
66 CAATTAAGTGAAAATAAAAAGAG-AGG
* ** * ** *
5084652 GGCTTAATTGTTTTTTATTGAAGAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGTGC
1 GGCTTAATTGTTTTTT-TTGAAAAAAATTGAGGGTCTTTTTGATAAATTTTAAAAGTTCAAGTGC
* *
5084717 TCAATTGAGTGAAAATAAAAAGAGAGG
65 CCAATTAAGTGAAAATAAAAAGAGAGG
*
5084744 GGTTTAATTGCTTTTTTTT
1 GGCTTAATTG-TTTTTTTT
5084763 TTTTAAATTC
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
89 10 0.11
90 4 0.04
91 54 0.57
92 19 0.20
93 8 0.08
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (91 bp):
GGCTTAATTGTTTTTTTTGAAAAAAATTGAGGGTCTTTTTGATAAATTTTAAAAGTTCAAGTGCC
CAATTAAGTGAAAATAAAAAGAGAGG
Found at i:5085453 original size:12 final size:12
Alignment explanation
Indices: 5085423--5085454 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
5085413 CATATTTTAT
5085423 TTTTATTTATAA
1 TTTTATTTATAA
5085435 -TTT-TTTATAA
1 TTTTATTTATAA
5085445 TTTTATTTAT
1 TTTTATTTAT
5085455 TTTTTATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.39
11 6 0.33
12 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTATTTATAA
Found at i:5088348 original size:18 final size:19
Alignment explanation
Indices: 5088325--5088361 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5088315 ATTTAAAAAA
5088325 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
5088343 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
5088362 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:5088367 original size:18 final size:21
Alignment explanation
Indices: 5088330--5088373 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
5088320 AAAAATATAA
*
5088330 ATTTTGGAATTTTTATAAA-T
1 ATTTTGGAATTTTGATAAATT
5088350 ATTTT-GAATTTTGA-AAATT
1 ATTTTGGAATTTTGATAAATT
5088369 ATTTT
1 ATTTT
5088374 TATTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (21 bp):
ATTTTGGAATTTTGATAAATT
Found at i:5089286 original size:19 final size:20
Alignment explanation
Indices: 5089262--5089308 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
5089252 ACTAGATCGA
5089262 TTAACCGAATTAAATCAA-T
1 TTAACCGAATTAAATCAATT
* *
5089281 TTAACCG-ATTAATTTAATT
1 TTAACCGAATTAAATCAATT
5089300 TTAACCGAA
1 TTAACCGAA
5089309 ATTTACACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 15 0.62
20 1 0.04
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (20 bp):
TTAACCGAATTAAATCAATT
Found at i:5091652 original size:94 final size:91
Alignment explanation
Indices: 5091551--5091783 Score: 245
Period size: 94 Copynumber: 2.5 Consensus size: 91
5091541 TTTATTATTA
* * ****
5091551 TTTTGCACTCAATTGGGTACTTAAACTTTCAAAATACATCAAAAAGGCCCTTAAACTT-TTTCAA
1 TTTTGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGGCCCTCAAACTTAAAAAAA
* * * * *
5091615 AAAAAGCAATTAAGCTGCTGCTTTTTTTCT
66 AAAAAGCAATTAA-AT-C-ACTGTTCTT-G
* * * * *
5091645 TTTTGCACTCAATTGAGTACTTGAACTGTCAAAATGCATCAAAAAAGTCCTCAAACTTAAAAAAA
1 TTTTGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGGCCCTCAAACTTAAAAAAA
5091710 AAAAAGCAATTAAATCACTGTTCTTG
66 AAAAAGCAATTAAATCACTGTTCTTG
* * *
5091736 TTTTGCAC-AAATTGGGTACTTGAACATCCAAAATACATCAAAAAGGCC
1 TTTTGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGGCC
5091784 TGGGAAGGAT
Statistics
Matches: 114, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
90 32 0.28
91 8 0.07
92 6 0.05
93 1 0.01
94 52 0.46
95 15 0.13
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (91 bp):
TTTTGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGGCCCTCAAACTTAAAAAAA
AAAAAGCAATTAAATCACTGTTCTTG
Found at i:5092497 original size:89 final size:89
Alignment explanation
Indices: 5092395--5092579 Score: 234
Period size: 89 Copynumber: 2.1 Consensus size: 89
5092385 GTTTAAGGGC
* * * *
5092395 ATTTTTTTATGCATTTTGACAA-TTCAAGTACCCAATTGA-TAACAAAATAAAAA-AAGA-CTTA
1 ATTTTTTTATGCATTTT-AAAAGTTCAAATACCCAATTGAGT-ACAAAACAAAAACAAAAGCTTA
* *
5092456 ATTGCTTTTTTTAAAAAGCTTTTAAGA
64 ATTACTTTTTTTAAAAA-ATTTTAAGA
* *
5092483 TTTTTTTTAATGCATTTTAAAAGTTTAAATACCCAATTGAGTACAAAACAAAAACAAAAGCTTAA
1 ATTTTTTT-ATGCATTTTAAAAGTTCAAATACCCAATTGAGTACAAAACAAAAACAAAAGCTTAA
5092548 TTACTTTTTTTAAAAAATTTTAAGA
65 TTACTTTTTTTAAAAAATTTTAAGA
5092573 ATTTTTT
1 ATTTTTT
5092580 ACGCCCTTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
88 10 0.12
89 35 0.42
90 18 0.22
91 20 0.24
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (89 bp):
ATTTTTTTATGCATTTTAAAAGTTCAAATACCCAATTGAGTACAAAACAAAAACAAAAGCTTAAT
TACTTTTTTTAAAAAATTTTAAGA
Found at i:5099784 original size:84 final size:81
Alignment explanation
Indices: 5099689--5099842 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 81
5099679 TTTTTATAAA
5099689 AAAAATTTACAAAATTTATATTTCTTTAC-ATTTTGTATAATTTTCTTATAACTTTATAAAATTT
1 AAAAATTTACAAAATTTATATTTCTTTACGATTTT-TAT-ATTTT-TTATAA-TTTATAAAATTT
5099753 -ATATTTTTTACGATTATTAT
62 GA-ATTTTTTACGATTATTAT
** * * *
5099773 AAAAATTTACAATTTTTATATTTTTTTACGATTTTTATATTTTTTATAATTTTTAATATTTGAAT
1 AAAAATTTACAAAATTTATATTTCTTTACGATTTTTATATTTTTTATAATTTATAAAATTTGAAT
5099838 TTTTT
66 TTTTT
5099843 TAATTAAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
81 17 0.27
82 7 0.11
83 5 0.08
84 29 0.46
85 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (81 bp):
AAAAATTTACAAAATTTATATTTCTTTACGATTTTTATATTTTTTATAATTTATAAAATTTGAAT
TTTTTACGATTATTAT
Found at i:5099800 original size:19 final size:19
Alignment explanation
Indices: 5099778--5099833 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
5099768 ATTATAAAAA
5099778 TTTACAATTTTTATATTTT
1 TTTACAATTTTTATATTTT
*
5099797 TTTACGATTTTTATA-TTT
1 TTTACAATTTTTATATTTT
*
5099815 TTTATAATTTTTAATATTT
1 TTTACAATTTTT-ATATTT
5099834 GAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.41
19 17 0.53
20 2 0.06
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTACAATTTTTATATTTT
Found at i:5099824 original size:37 final size:38
Alignment explanation
Indices: 5099741--5099833 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 38
5099731 TTCTTATAAC
**
5099741 TTTATAAAATTTATA-TTTTTTACGATTATTATAAAAA
1 TTTATAATTTTTATATTTTTTTACGATTATTATAAAAA
* * ***
5099778 TTTACAATTTTTATATTTTTTTACGATTTTTAT-ATTT
1 TTTATAATTTTTATATTTTTTTACGATTATTATAAAAA
5099815 TTTATAATTTTTAATATTT
1 TTTATAATTTTT-ATATTT
5099834 GAATTTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
37 24 0.52
38 22 0.48
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (38 bp):
TTTATAATTTTTATATTTTTTTACGATTATTATAAAAA
Found at i:5100005 original size:87 final size:87
Alignment explanation
Indices: 5099914--5100117 Score: 223
Period size: 87 Copynumber: 2.3 Consensus size: 87
5099904 AGTTTTTAAT
* * *
5099914 AAAAGCAGGTACTTAATTACTTTTTTTTTTAA-GTTTGAGGATCTTTTTGATGCATTTTGAAAGT
1 AAAAGCAGG-ACTTAATT-CTTTTTTTTTTAAGGTTTGAGGACCTTTTTGATACATTTTGAAAAT
* *
5099978 TCAAGTACTCAATTGAGTAC-AAA
64 TCAAGTACCCAAATGAGTACAAAA
* * * *** *
5100001 AAAAGTAGAAGCTTAATTGTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATACATTTTGAAAATT
1 AAAAGCAGGA-CTTAATTCTTTTTTTTTTAAGGTTTGAGGACCTTTTTGATACATTTTGAAAATT
*
5100066 CAAGTACCCAAATGAGTGCAAAA
65 CAAGTACCCAAATGAGTACAAAA
* *
5100089 AAAAGCAGGAGTGTAATTGTTTTTTTTTT
1 AAAAGCAGGACT-TAATTCTTTTTTTTTT
5100118 TATTATTTGA
Statistics
Matches: 94, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
86 10 0.11
87 60 0.64
88 24 0.26
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (87 bp):
AAAAGCAGGACTTAATTCTTTTTTTTTTAAGGTTTGAGGACCTTTTTGATACATTTTGAAAATTC
AAGTACCCAAATGAGTACAAAA
Found at i:5100531 original size:16 final size:18
Alignment explanation
Indices: 5100510--5100545 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5100500 TTTCATATAG
5100510 TATAAAT-TAA-ATAATA
1 TATAAATATAATATAATA
5100526 TATAAATATAATATAATA
1 TATAAATATAATATAATA
5100544 TA
1 TA
5100546 AACTTGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAATATAATATAATA
Found at i:5100787 original size:20 final size:20
Alignment explanation
Indices: 5100758--5100806 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5100748 ACCACTTCAA
*
5100758 TTTAATTTTTGT-TATTTATC
1 TTTAATTTTT-TCTATCTATC
*
5100778 TTTTATTTTTTCTATCTATC
1 TTTAATTTTTTCTATCTATC
5100798 TTTAATTTT
1 TTTAATTTT
5100807 GTTTTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTAATTTTTTCTATCTATC
Found at i:5103920 original size:19 final size:19
Alignment explanation
Indices: 5103896--5103933 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5103886 ATAGTGGGAT
5103896 GAACGATGAACTATTCATC
1 GAACGATGAACTATTCATC
5103915 GAACGATGAACTATTCATC
1 GAACGATGAACTATTCATC
5103934 TTTCTTGTCC
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:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (19 bp):
GAACGATGAACTATTCATC
Found at i:5108039 original size:141 final size:141
Alignment explanation
Indices: 5107781--5108062 Score: 361
Period size: 141 Copynumber: 2.0 Consensus size: 141
5107771 GTGACTCGTA
**
5107781 TACTTTGATGTAAGTAAAAGTTCGAGTTCAAATAGATAAACAACCAAAAGTTGATGCGTCGGGTA
1 TACTTTGATGTAAGTAAAACCTCGAGTTCAAATAGATAAACAACCAAAAGTTGATGCGTCGGGTA
* * * * *
5107846 TACAACTTCTGAAGTATGTAGAGTCATTCATAATAGTAGAATTTATAGCCCGAGAAATGATTAAA
66 TACAACTTCTGAAGTATGTAGAGTCATTCACAACAGTAGAATTCATAACCCGAGAAATGAGTAAA
5107911 TGATATCCTTT
131 TGATATCCTTT
** * * *
5107922 TACTTTGATGTAAGTAAAAACCT-GAGTTCAAATAGATAAGGAATCGAAAA-TTGGTGCGTTGGG
1 TACTTTGATGTAAGT-AAAACCTCGAGTTCAAATAGATAAACAA-CCAAAAGTTGATGCGTCGGG
** * * * * *
5107985 TATATGACTTCTGCAGTATGTAGTGTCATTCACAACAGTGGAATTCATAACCCGAGACATGGGTA
64 TATACAACTTCTGAAGTATGTAGAGTCATTCACAACAGTAGAATTCATAACCCGAGAAATGAGTA
5108050 AATGATATCCTTT
129 AATGATATCCTTT
5108063 CATTAGCATT
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 110 0.92
142 10 0.08
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (141 bp):
TACTTTGATGTAAGTAAAACCTCGAGTTCAAATAGATAAACAACCAAAAGTTGATGCGTCGGGTA
TACAACTTCTGAAGTATGTAGAGTCATTCACAACAGTAGAATTCATAACCCGAGAAATGAGTAAA
TGATATCCTTT
Found at i:5109965 original size:17 final size:18
Alignment explanation
Indices: 5109929--5109972 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
5109919 AATTAATAAT
*
5109929 TTGAAATAGAAAATGGTA
1 TTGAAATAGAAAATGCTA
*
5109947 TTGAAAT-GACAATGCTA
1 TTGAAATAGAAAATGCTA
5109964 TTGAAATAG
1 TTGAAATAG
5109973 CAAGTGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (18 bp):
TTGAAATAGAAAATGCTA
Found at i:5113629 original size:49 final size:50
Alignment explanation
Indices: 5113548--5113747 Score: 225
Period size: 49 Copynumber: 4.1 Consensus size: 50
5113538 CTCTTATTTA
* *
5113548 GCTCTTTTGAGCATCCCATTATATGGCTCTCATGAGCTTCCCGATTAATG
1 GCTCTTTTGAGCTTCCCGTTATATGGCTCTCATGAGCTTCCCGATTAATG
* *
5113598 GCTCTTTTGAGCTTTCCGTT-TATGGCTCTCATGAGCTTCCTGATTAATG
1 GCTCTTTTGAGCTTCCCGTTATATGGCTCTCATGAGCTTCCCGATTAATG
** * *
5113647 GCTC-TCCGAAGCTTCCCGGTAT-TGGCTCGCATGAGCTTCCCGATT-ATG
1 GCTCTTTTG-AGCTTCCCGTTATATGGCTCTCATGAGCTTCCCGATTAATG
* *
5113695 GCT-TTTATGAACTTCCCGTTACATGGCTCAT-ATGAGCTTCCCG-TTATATG
1 GCTCTTT-TGAGCTTCCCGTTATATGGCTC-TCATGAGCTTCCCGATTA-ATG
5113745 GCT
1 GCT
5113748 TAGAAGAGCT
Statistics
Matches: 126, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
48 21 0.17
49 81 0.64
50 24 0.19
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.36
Consensus pattern (50 bp):
GCTCTTTTGAGCTTCCCGTTATATGGCTCTCATGAGCTTCCCGATTAATG
Found at i:5113652 original size:25 final size:25
Alignment explanation
Indices: 5113555--5113766 Score: 172
Period size: 25 Copynumber: 8.6 Consensus size: 25
5113545 TTAGCTCTTT
*
5113555 TGAGCATCCC-ATTATATGGCTCTCA
1 TGAGCTTCCCGATTA-ATGGCTCTCA
**
5113580 TGAGCTTCCCGATTAATGGCTCTTT
1 TGAGCTTCCCGATTAATGGCTCTCA
* *
5113605 TGAGCTTTCCG-TTTATGGCTCTCA
1 TGAGCTTCCCGATTAATGGCTCTCA
*
5113629 TGAGCTTCCTGATTAATGGCTCTC-
1 TGAGCTTCCCGATTAATGGCTCTCA
* * * *
5113653 CGAAGCTTCCCG-GTATTGGCTCGCA
1 TG-AGCTTCCCGATTAATGGCTCTCA
* *
5113678 TGAGCTTCCCGATT-ATGGCTTTTA
1 TGAGCTTCCCGATTAATGGCTCTCA
*
5113702 TGAACTTCCCG-TTACATGGCTCAT-A
1 TGAGCTTCCCGATTA-ATGGCTC-TCA
*
5113727 TGAGCTTCCCG-TTATATGGCT-TAGA
1 TGAGCTTCCCGATTA-ATGGCTCT-CA
*
5113752 AGAGCTTCCCGATTA
1 TGAGCTTCCCGATTA
5113767 CATGCTCATA
Statistics
Matches: 150, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.02
24 54 0.36
25 85 0.57
26 8 0.05
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCCGATTAATGGCTCTCA
Found at i:5113710 original size:73 final size:74
Alignment explanation
Indices: 5113605--5113766 Score: 170
Period size: 73 Copynumber: 2.2 Consensus size: 74
5113595 ATGGCTCTTT
* * * * *
5113605 TGAGCTTTCCGTTTATGGCTCTCATGAGCTTCCTGATTA-ATGGCTC-TCCGAAGCTTCCCGGTA
1 TGAGCTTCCCGATTATGGCTCTCATGAACTTCCCG-TTACATGGCTCATACG-AGCTTCCCGGTA
*
5113668 T-TGGC-TCGCA
64 TATGGCTTAG-A
* * * *
5113678 TGAGCTTCCCGATTATGGCTTTTATGAACTTCCCGTTACATGGCTCATATGAGCTTCCCGTTATA
1 TGAGCTTCCCGATTATGGCTCTCATGAACTTCCCGTTACATGGCTCATACGAGCTTCCCGGTATA
5113743 TGGCTTAGA
66 TGGCTTAGA
*
5113752 AGAGCTTCCCGATTA
1 TGAGCTTCCCGATTA
5113767 CATGCTCATA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
72 3 0.04
73 48 0.65
74 21 0.28
75 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (74 bp):
TGAGCTTCCCGATTATGGCTCTCATGAACTTCCCGTTACATGGCTCATACGAGCTTCCCGGTATA
TGGCTTAGA
Found at i:5113774 original size:50 final size:49
Alignment explanation
Indices: 5113677--5113778 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 49
5113667 ATTGGCTCGC
** *
5113677 ATGAGCTTCCCGATTATGGCTTTTATGAACTTCCCGTTACATGGCTCAT
1 ATGAGCTTCCCGATTATGGCTTAGAAGAACTTCCCGTTACATGGCTCAT
* *
5113726 ATGAGCTTCCCGTTATATGGCTTAGAAGAGCTTCCCGATTACAT-GCTCAT
1 ATGAGCTTCCCGAT-TATGGCTTAGAAGAACTTCCCG-TTACATGGCTCAT
5113776 ATG
1 ATG
5113779 GGCATACCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 13 0.28
50 27 0.59
51 6 0.13
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (49 bp):
ATGAGCTTCCCGATTATGGCTTAGAAGAACTTCCCGTTACATGGCTCAT
Found at i:5115082 original size:39 final size:39
Alignment explanation
Indices: 5114985--5115084 Score: 155
Period size: 39 Copynumber: 2.6 Consensus size: 39
5114975 TTTTTACAAG
* * *
5114985 TTAAGCTTAGACGAGCAACCTGATGTGATGTGTTGTAGT
1 TTAAGCTTGGACGAGCAACTTGATGTGATGTGTTATAGT
* *
5115024 TTAAGCTTGGATGGGCAACTTGATGTGATGTGTTATAGT
1 TTAAGCTTGGACGAGCAACTTGATGTGATGTGTTATAGT
5115063 TTAAGCTTGGACGAGCAACTTG
1 TTAAGCTTGGACGAGCAACTTG
5115085 GTGTAATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (39 bp):
TTAAGCTTGGACGAGCAACTTGATGTGATGTGTTATAGT
Found at i:5119270 original size:14 final size:14
Alignment explanation
Indices: 5119251--5119280 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5119241 TGAGTCTTTC
5119251 TATTTTGATCAATT
1 TATTTTGATCAATT
5119265 TATTTTGATCAATT
1 TATTTTGATCAATT
5119279 TA
1 TA
5119281 GGTATCTGAA
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:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTTTGATCAATT
Found at i:5123381 original size:23 final size:23
Alignment explanation
Indices: 5123355--5123399 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5123345 AGCACATGCA
5123355 AGCTAATACTAGAGATGATGATG
1 AGCTAATACTAGAGATGATGATG
*
5123378 AGCTAATGCTAGAGATGATGAT
1 AGCTAATACTAGAGATGATGAT
5123400 TACTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (23 bp):
AGCTAATACTAGAGATGATGATG
Found at i:5124008 original size:8 final size:8
Alignment explanation
Indices: 5123995--5124019 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5123985 ATTTTACTAT
5123995 ATATAAAA
1 ATATAAAA
5124003 ATATAAAA
1 ATATAAAA
5124011 ATATAAAA
1 ATATAAAA
5124019 A
1 A
5124020 AAACAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATATAAAA
Found at i:5129800 original size:662 final size:662
Alignment explanation
Indices: 5128537--5129860 Score: 2648
Period size: 662 Copynumber: 2.0 Consensus size: 662
5128527 GACTTAGAGA
5128537 TGTTCCTAACTGTTCTGGTCCGCTCTGCCCAATAAAGAAGAAAATATCATAATTGCATTGTTAAG
1 TGTTCCTAACTGTTCTGGTCCGCTCTGCCCAATAAAGAAGAAAATATCATAATTGCATTGTTAAG
5128602 AAAGAAACTAGGAATTAAATGTACTGAACAAAATGAAGGCGGTATCAATCAATTTCTGTTAAAGT
66 AAAGAAACTAGGAATTAAATGTACTGAACAAAATGAAGGCGGTATCAATCAATTTCTGTTAAAGT
5128667 GAGGACAATATCTGATTTAAACCAACCTACTGCTCTATAAAATTCGCCGGAATTCCATTTGTGTG
131 GAGGACAATATCTGATTTAAACCAACCTACTGCTCTATAAAATTCGCCGGAATTCCATTTGTGTG
5128732 GTTGGTTTTTGATCCTCTGCATTGAATGTGAATCAAATCTTTGGCCCGCATCTTTCTTCAGTTTA
196 GTTGGTTTTTGATCCTCTGCATTGAATGTGAATCAAATCTTTGGCCCGCATCTTTCTTCAGTTTA
5128797 TTGAAAAAGGCAAACTCAGAAGTTTTAGGGCCATCAGCTGCATATGAAGAGAATTAAACAGGTAG
261 TTGAAAAAGGCAAACTCAGAAGTTTTAGGGCCATCAGCTGCATATGAAGAGAATTAAACAGGTAG
5128862 AAGTAAAAAAGGAAACGAGCAGCTAATCTAAATAAATTCCATAAAATTATTCAAAACAAACAACT
326 AAGTAAAAAAGGAAACGAGCAGCTAATCTAAATAAATTCCATAAAATTATTCAAAACAAACAACT
5128927 GAAAGAGAATTAAACAGGGCGTGCTCGGATTTAAAAAGATAGAGCCAGCGAAGTTCAAATTAAAC
391 GAAAGAGAATTAAACAGGGCGTGCTCGGATTTAAAAAGATAGAGCCAGCGAAGTTCAAATTAAAC
5128992 TCAATCACGTTTAATAAATGAATAACTGGAAAGGAAAAGAAGGGAGCAAGAGAAAACCTCGATTT
456 TCAATCACGTTTAATAAATGAATAACTGGAAAGGAAAAGAAGGGAGCAAGAGAAAACCTCGATTT
5129057 GATCGCGAATCGGGTAGGGTTACGGGGCTCCTAACTTTGGGGGGAGCTGCAGTAGATGAAATTGG
521 GATCGCGAATCGGGTAGGGTTACGGGGCTCCTAACTTTGGGGGGAGCTGCAGTAGATGAAATTGG
5129122 AATTGGAGATGGATCTTCGGGGTCAATATCCTGATATCTTCTCTTCATTTTGATCCAAATTCTCC
586 AATTGGAGATGGATCTTCGGGGTCAATATCCTGATATCTTCTCTTCATTTTGATCCAAATTCTCC
5129187 CATTTGTTATTG
651 CATTTGTTATTG
5129199 TGTTCCTAACTGTTCTGGTCCGCTCTGCCCAATAAAGAAGAAAATATCATAATTGCATTGTTAAG
1 TGTTCCTAACTGTTCTGGTCCGCTCTGCCCAATAAAGAAGAAAATATCATAATTGCATTGTTAAG
5129264 AAAGAAACTAGGAATTAAATGTACTGAACAAAATGAAGGCGGTATCAATCAATTTCTGTTAAAGT
66 AAAGAAACTAGGAATTAAATGTACTGAACAAAATGAAGGCGGTATCAATCAATTTCTGTTAAAGT
5129329 GAGGACAATATCTGATTTAAACCAACCTACTGCTCTATAAAATTCGCCGGAATTCCATTTGTGTG
131 GAGGACAATATCTGATTTAAACCAACCTACTGCTCTATAAAATTCGCCGGAATTCCATTTGTGTG
5129394 GTTGGTTTTTGATCCTCTGCATTGAATGTGAATCAAATCTTTGGCCCGCATCTTTCTTCAGTTTA
196 GTTGGTTTTTGATCCTCTGCATTGAATGTGAATCAAATCTTTGGCCCGCATCTTTCTTCAGTTTA
5129459 TTGAAAAAGGCAAACTCAGAAGTTTTAGGGCCATCAGCTGCATATGAAGAGAATTAAACAGGTAG
261 TTGAAAAAGGCAAACTCAGAAGTTTTAGGGCCATCAGCTGCATATGAAGAGAATTAAACAGGTAG
5129524 AAGTAAAAAAGGAAACGAGCAGCTAATCTAAATAAATTCCATAAAATTATTCAAAACAAACAACT
326 AAGTAAAAAAGGAAACGAGCAGCTAATCTAAATAAATTCCATAAAATTATTCAAAACAAACAACT
5129589 GAAAGAGAATTAAACAGGGCGTGCTCGGATTTAAAAAGATAGAGCCAGCGAAGTTCAAATTAAAC
391 GAAAGAGAATTAAACAGGGCGTGCTCGGATTTAAAAAGATAGAGCCAGCGAAGTTCAAATTAAAC
5129654 TCAATCACGTTTAATAAATGAATAACTGGAAAGGAAAAGAAGGGAGCAAGAGAAAACCTCGATTT
456 TCAATCACGTTTAATAAATGAATAACTGGAAAGGAAAAGAAGGGAGCAAGAGAAAACCTCGATTT
5129719 GATCGCGAATCGGGTAGGGTTACGGGGCTCCTAACTTTGGGGGGAGCTGCAGTAGATGAAATTGG
521 GATCGCGAATCGGGTAGGGTTACGGGGCTCCTAACTTTGGGGGGAGCTGCAGTAGATGAAATTGG
5129784 AATTGGAGATGGATCTTCGGGGTCAATATCCTGATATCTTCTCTTCATTTTGATCCAAATTCTCC
586 AATTGGAGATGGATCTTCGGGGTCAATATCCTGATATCTTCTCTTCATTTTGATCCAAATTCTCC
5129849 CATTTGTTATTG
651 CATTTGTTATTG
5129861 GATTTCTTGG
Statistics
Matches: 662, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
662 662 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (662 bp):
TGTTCCTAACTGTTCTGGTCCGCTCTGCCCAATAAAGAAGAAAATATCATAATTGCATTGTTAAG
AAAGAAACTAGGAATTAAATGTACTGAACAAAATGAAGGCGGTATCAATCAATTTCTGTTAAAGT
GAGGACAATATCTGATTTAAACCAACCTACTGCTCTATAAAATTCGCCGGAATTCCATTTGTGTG
GTTGGTTTTTGATCCTCTGCATTGAATGTGAATCAAATCTTTGGCCCGCATCTTTCTTCAGTTTA
TTGAAAAAGGCAAACTCAGAAGTTTTAGGGCCATCAGCTGCATATGAAGAGAATTAAACAGGTAG
AAGTAAAAAAGGAAACGAGCAGCTAATCTAAATAAATTCCATAAAATTATTCAAAACAAACAACT
GAAAGAGAATTAAACAGGGCGTGCTCGGATTTAAAAAGATAGAGCCAGCGAAGTTCAAATTAAAC
TCAATCACGTTTAATAAATGAATAACTGGAAAGGAAAAGAAGGGAGCAAGAGAAAACCTCGATTT
GATCGCGAATCGGGTAGGGTTACGGGGCTCCTAACTTTGGGGGGAGCTGCAGTAGATGAAATTGG
AATTGGAGATGGATCTTCGGGGTCAATATCCTGATATCTTCTCTTCATTTTGATCCAAATTCTCC
CATTTGTTATTG
Found at i:5130138 original size:9 final size:9
Alignment explanation
Indices: 5130124--5130206 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
5130114 TAGTTTAATT
5130124 AATTTTATA
1 AATTTTATA
*
5130133 AATTTTTTA
1 AATTTTATA
*
5130142 ATAATTTATTA
1 A-ATTTTA-TA
*
5130153 GATTTT-TA
1 AATTTTATA
*
5130161 TATTTT-TA
1 AATTTTATA
5130169 TAATATTTAT-
1 -AAT-TTTATA
5130179 AATTTTAATA
1 AATTTT-ATA
5130189 AA-TTTA-A
1 AATTTTATA
5130196 AATTTTATA
1 AATTTTATA
5130205 AA
1 AA
5130207 AAATATTAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
7 3 0.05
8 17 0.29
9 22 0.38
10 13 0.22
11 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (9 bp):
AATTTTATA
Found at i:5130177 original size:17 final size:16
Alignment explanation
Indices: 5130157--5130206 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
5130147 TTATTAGATT
5130157 TTTATATTTTTATAATA
1 TTTATATTTTTATAA-A
*
5130174 TTTATAATTTTAATAAA
1 TTTAT-ATTTTTATAAA
* *
5130191 TTTAAAATTTTATAAA
1 TTTATATTTTTATAAA
5130207 AAATATTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.32
17 10 0.36
18 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATATTTTTATAAA
Done.