Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 196 of 313
Found at i:60133135 original size:17 final size:17
Alignment explanation
Indices: 60133102--60133145 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
60133092 AGTTTTAAAA
60133102 TAATTTATTTATATTTTA-
1 TAATTT-TTT-TATTTTAC
60133120 TAAGTTTTTTTATTTTAC
1 TAA-TTTTTTTATTTTAC
60133138 TAATTTTT
1 TAATTTTT
60133146 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 12 0.50
18 9 0.38
19 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TAATTTTTTTATTTTAC
Found at i:60133151 original size:17 final size:17
Alignment explanation
Indices: 60133109--60133168 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
60133099 AAATAATTTA
60133109 TTTATATTTTATAAGTT
1 TTTATATTTTATAAGTT
*
60133126 TTTTTATTTTACTAA-TT
1 TTTATATTTTA-TAAGTT
* *
60133143 TTTAAATTTT-TAAATT
1 TTTATATTTTATAAGTT
*
60133159 TTTAGATTTT
1 TTTATATTTT
60133169 TTATAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 3 0.08
16 11 0.30
17 20 0.54
18 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATATTTTATAAGTT
Found at i:60133169 original size:17 final size:18
Alignment explanation
Indices: 60133132--60133186 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
60133122 AGTTTTTTTA
*
60133132 TTTTACTAATTTTTA-AAT
1 TTTTA-TAATTTTTAGATT
60133150 TTTTA-AATTTTTAGATT
1 TTTTATAATTTTTAGATT
*
60133167 TTTTATAA-ATTTAGATT
1 TTTTATAATTTTTAGATT
60133184 TTT
1 TTT
60133187 ATCTATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 8 0.24
17 18 0.55
18 7 0.21
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTAGATT
Found at i:60133187 original size:8 final size:8
Alignment explanation
Indices: 60133139--60133169 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
60133129 TTATTTTACT
60133139 AATTTTTA
1 AATTTTTA
60133147 AATTTTTA
1 AATTTTTA
60133155 AATTTTTA
1 AATTTTTA
*
60133163 GATTTTT
1 AATTTTT
60133170 TATAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
AATTTTTA
Found at i:60137104 original size:23 final size:22
Alignment explanation
Indices: 60137077--60137161 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
60137067 TAAAAGAGAA
60137077 ACAAATCCCTAAAGTTGTGGAAG
1 ACAAATCCCTAAA-TTGTGGAAG
* * *
60137100 ACAAATGCCTACAATT-TAGACAA
1 ACAAATCCCTA-AATTGTGGA-AG
60137123 ACAAATCCCTAAAATTGTGGAAG
1 ACAAATCCCT-AAATTGTGGAAG
*
60137146 ACAAATACCTAGAATT
1 ACAAATCCCTA-AATT
60137162 TAGCCAAAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.08
23 40 0.80
24 6 0.12
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (22 bp):
ACAAATCCCTAAATTGTGGAAG
Found at i:60137128 original size:46 final size:46
Alignment explanation
Indices: 60137075--60137195 Score: 181
Period size: 46 Copynumber: 2.6 Consensus size: 46
60137065 GATAAAAGAG
* *
60137075 AAACAAATCCCTAAAGTTGTGGAAGACAAATGCCTACAATTTAGAC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
* *
60137121 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAGAATTTAGCC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
*
60137167 AAAGAAAT-CCTAAAAATTGTGGAAGACAA
1 AAACAAATCCCT-AAAATTGTGGAAGACAA
60137196 CTTGACTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
45 3 0.04
46 66 0.96
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (46 bp):
AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
Found at i:60139344 original size:38 final size:38
Alignment explanation
Indices: 60139302--60139377 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
60139292 GCTAAGCATG
60139302 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
1 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
*
60139340 GTATAAATATTAAAGTAAGTGGAGAAAGATGATAATTC
1 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
60139378 ATCATCTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (38 bp):
GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
Found at i:60145771 original size:114 final size:114
Alignment explanation
Indices: 60145571--60145794 Score: 394
Period size: 114 Copynumber: 2.0 Consensus size: 114
60145561 TATAAACTTC
60145571 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
60145636 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
66 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
** ** *
60145685 AAATACATAAACTGTAATGACCTAATTTTCAGTGGTGTCAAAAATAGTTTTTCGAGACCACCAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
*
60145750 ATCTGGCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
66 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
60145795 ACAAATATGG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (114 bp):
AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
Found at i:60147008 original size:24 final size:25
Alignment explanation
Indices: 60146953--60147026 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 25
60146943 TCATTCTGTG
* *
60146953 GCAAAGGATTAATTGATGATAAAAT
1 GCAAAGGATGAATTGATGGTAAAAT
*
60146978 GCAAAGGATGAATTGATGGT-ATAT
1 GCAAAGGATGAATTGATGGTAAAAT
60147002 GCAAAGGATGAATTGATGG-AAAAT
1 GCAAAGGATGAATTGATGGTAAAAT
60147026 G
1 G
60147027 TATCCAAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.26
Consensus pattern (25 bp):
GCAAAGGATGAATTGATGGTAAAAT
Found at i:60158954 original size:24 final size:25
Alignment explanation
Indices: 60158895--60158957 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
60158885 TCGTTCTGTG
* *
60158895 GCAAATGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGATAAAAT
* * *
60158920 GTACAGAATGAATTGACGAT-AAAT
1 GCAAAGGATGAATTGACGATAAAAT
60158944 GCAAAGGATGAATT
1 GCAAAGGATGAATT
60158958 AACATCAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (25 bp):
GCAAAGGATGAATTGACGATAAAAT
Found at i:60159661 original size:14 final size:14
Alignment explanation
Indices: 60159642--60159670 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60159632 ATGTATGAAG
60159642 TATGCTTAAAATGT
1 TATGCTTAAAATGT
60159656 TATGCTTAAAATGT
1 TATGCTTAAAATGT
60159670 T
1 T
60159671 TAGATGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (14 bp):
TATGCTTAAAATGT
Found at i:60169366 original size:40 final size:40
Alignment explanation
Indices: 60169293--60169439 Score: 174
Period size: 40 Copynumber: 3.6 Consensus size: 40
60169283 GCTACTCGTT
*
60169293 CAAATGCCTTCGGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGGACTTAGCCCGGATT-TAGTAACTCGCA
*
60169334 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
60169374 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60169415 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60169440 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.03
40 66 0.71
41 24 0.26
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60172469 original size:11 final size:12
Alignment explanation
Indices: 60172443--60172467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60172433 TAGATTAATT
60172443 AATTGAAAGAAA
1 AATTGAAAGAAA
60172455 AATTGAAAGAAA
1 AATTGAAAGAAA
60172467 A
1 A
60172468 TTATGGTAAT
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATTGAAAGAAA
Found at i:60176014 original size:7 final size:7
Alignment explanation
Indices: 60176002--60176026 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60175992 TGATATAAAC
60176002 AAGGGTA
1 AAGGGTA
60176009 AAGGGTA
1 AAGGGTA
60176016 AAGGGTA
1 AAGGGTA
60176023 AAGG
1 AAGG
60176027 CAAGGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
AAGGGTA
Found at i:60176456 original size:3 final size:3
Alignment explanation
Indices: 60176448--60176485 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
60176438 CCCTATGGTA
60176448 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
60176486 ATTCAGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:60178416 original size:3 final size:3
Alignment explanation
Indices: 60178408--60178441 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
60178398 GTTGTAAGGT
60178408 TGG TGG TGGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG T-GG TGG TGG TGG TGG TGG TGG TGG TGG
60178442 CATAGTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
TGG
Found at i:60179993 original size:12 final size:12
Alignment explanation
Indices: 60179976--60180018 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
60179966 CTCTATTTAT
60179976 TTATAAATAAAA
1 TTATAAATAAAA
*
60179988 TTATAATTAATAA
1 TTATAAATAA-AA
*
60180001 TTATAAATTAAA
1 TTATAAATAAAA
60180013 TTATAA
1 TTATAA
60180019 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTATAAATAAAA
Found at i:60180006 original size:6 final size:6
Alignment explanation
Indices: 60179976--60180022 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
60179966 CTCTATTTAT
* *
60179976 TTATAA ATAAAA TTATAA TTAATAA TTATAAA TTA-AA TTATAA TTAT
1 TTATAA TTATAA TTATAA TT-ATAA TTAT-AA TTATAA TTATAA TTAT
60180023 TTTTAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.15
6 18 0.53
7 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TTATAA
Found at i:60180020 original size:18 final size:19
Alignment explanation
Indices: 60179976--60180022 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
60179966 CTCTATTTAT
*
60179976 TTATAAATA-AAATTATAA
1 TTATAATTATAAATTATAA
60179994 TTAATAATTATAAATTA-AA
1 TT-ATAATTATAAATTATAA
60180013 TTATAATTAT
1 TTATAATTAT
60180023 TTTTAAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAATTATAAATTATAA
Found at i:60183532 original size:19 final size:19
Alignment explanation
Indices: 60183508--60183551 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
60183498 CACATATCAC
60183508 ATTTTATTCACTTTAGCAT
1 ATTTTATTCACTTTAGCAT
60183527 ATTTTATTCACTTTAGCAT
1 ATTTTATTCACTTTAGCAT
*
60183546 GTTTTA
1 ATTTTA
60183552 ATATAGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTTATTCACTTTAGCAT
Found at i:60190940 original size:10 final size:11
Alignment explanation
Indices: 60190913--60190937 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60190903 AAAACACATA
60190913 TTTTAAATTTT
1 TTTTAAATTTT
60190924 TTTTAAATTTT
1 TTTTAAATTTT
60190935 TTT
1 TTT
60190938 AAAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTAAATTTT
Found at i:60191075 original size:31 final size:29
Alignment explanation
Indices: 60191002--60191078 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
60190992 TTTACCTCTG
*
60191002 GTTACATTTTAGTTACTTATGTTTGAAAT
1 GTTACATTTTAGTCACTTATGTTTGAAAT
*
60191031 GTTACGTTTTAGTCACTTATG-TT-AATAT
1 GTTACATTTTAGTCACTTATGTTTGAA-AT
60191059 GTTGTAACATTTTAGTCACT
1 G-T-T-ACATTTTAGTCACT
60191079 GAGCCATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 20 0.49
30 1 0.02
31 13 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.49
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATGTTTGAAAT
Found at i:60191783 original size:19 final size:18
Alignment explanation
Indices: 60191761--60191796 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
60191751 AAAGGGTAAG
*
60191761 AAGAAAAGGAAAATAAAGA
1 AAGAAAAAGAAAA-AAAGA
60191780 AAGAAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAAAG
60191797 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AAGAAAAAGAAAAAAAGA
Found at i:60205892 original size:26 final size:30
Alignment explanation
Indices: 60205829--60205902 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
60205819 TTAATCACTT
*
60205829 TAATATTAAATTAATATAATACTATTAAGA
1 TAATATTAAATTAATATAATAATATTAAGA
*
60205859 TAAGTATTAAATTAA-AT-TTAATATTAA-A
1 TAA-TATTAAATTAATATAATAATATTAAGA
*
60205887 T-ATATTAAAATAATAT
1 TAATATTAAATTAATAT
60205903 TATTTTTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 10 0.26
27 3 0.08
28 2 0.05
29 8 0.21
30 5 0.13
31 11 0.28
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (30 bp):
TAATATTAAATTAATATAATAATATTAAGA
Found at i:60208802 original size:20 final size:19
Alignment explanation
Indices: 60208777--60208818 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
60208767 TTATATTTTT
*
60208777 AAAAATATTAGTTATTATAA
1 AAAAATATTAG-TATGATAA
60208797 AAAAATATTAGTATGATAA
1 AAAAATATTAGTATGATAA
60208816 AAA
1 AAA
60208819 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAAATATTAGTATGATAA
Found at i:60210067 original size:29 final size:29
Alignment explanation
Indices: 60210034--60210092 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
60210024 TCCACCTTGA
* * *
60210034 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
*
60210063 CACGAACTCTCAACAAATAAGTTCTCCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
60210092 C
1 C
60210093 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.34, G:0.08, T:0.22
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAGTTCTCCAC
Found at i:60213851 original size:125 final size:125
Alignment explanation
Indices: 60213620--60214043 Score: 586
Period size: 125 Copynumber: 3.4 Consensus size: 125
60213610 ACATGGATGG
* * *
60213620 GAAGAATTTGTGAAATCGCACCCTCTTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* *
60213685 TTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGATTTATGA
* * *
60213745 GAAGAATTTGTTAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * *
60213809 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAT-GCTTCAAGCAAGATGCTATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCTACCAAGATGAT-TTATGA
* * ** * * *
60213870 GAAGAATTTCTGAAATTGCGGCCTCGTGGATGCGCTTTTGCTACAGTTA-GTCTTGGAAGAAATA
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAG-TAGGTCCTGGAAGAAATA
* *
60213934 ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGGTTTATGA
65 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGATTTATGA
* *
60213995 GAAGAATTTATGAAATCGCACCCACGTGGACGCGATTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
60214044 CATGTTTGGG
Statistics
Matches: 259, Mismatches: 32, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
124 47 0.18
125 165 0.64
126 47 0.18
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGATTTATGA
Found at i:60217267 original size:25 final size:25
Alignment explanation
Indices: 60217239--60217289 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
60217229 TCAAAATAAC
*
60217239 TCAAAAAAATTTCTATTTTATTACA
1 TCAAAAAAACTTCTATTTTATTACA
*
60217264 TCAAATAAACTTCTATTTTATTACA
1 TCAAAAAAACTTCTATTTTATTACA
60217289 T
1 T
60217290 AAATAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (25 bp):
TCAAAAAAACTTCTATTTTATTACA
Found at i:60217304 original size:69 final size:70
Alignment explanation
Indices: 60217211--60217340 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 70
60217201 TAAGCTCATG
* * *
60217211 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
60217276 CTATT
66 CTATT
60217281 TTATTACAT-AAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAA
60217341 TATCAAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
69 48 0.84
70 9 0.16
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
CTATT
Found at i:60217326 original size:44 final size:45
Alignment explanation
Indices: 60217263--60217350 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 45
60217253 ATTTTATTAC
* *
60217263 ATCAAATAAACTTCTATTTTATTACAT-AAATAATATCAAAATAA
1 ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATAA
60217307 ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATA
1 ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATA
60217351 TTCAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 25 0.61
45 16 0.39
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (45 bp):
ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATAA
Found at i:60219690 original size:51 final size:51
Alignment explanation
Indices: 60219635--60219732 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
60219625 AATTCTTTAA
60219635 AAATAGGGATTT--AAGAGAAATTT-AAGAAGAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTGAAAGA-AAATTTGAAG--GAACTTGAGAGCAAATTGAAATT
* *
60219686 AAATATGGATTTGAAAGAAAATTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTGAAAGAAAATTTGAAGGAACTTGAGAGCAAATTGA
60219733 GAGCAAATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 29 0.69
52 6 0.14
53 7 0.17
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTGAAAGAAAATTTGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:60219730 original size:12 final size:12
Alignment explanation
Indices: 60219694--60219758 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 12
60219684 TTAAATATGG
* *
60219694 ATTTGAAAGAAA
1 ATTTGAGAGCAA
*
60219706 ATTTGA-AG-GA
1 ATTTGAGAGCAA
60219716 ATTTGAGAGCAA
1 ATTTGAGAGCAA
60219728 A-TTGAGAGCAA
1 ATTTGAGAGCAA
*
60219739 A-TTGAGAGGAA
1 ATTTGAGAGCAA
60219750 ATTTGAGAG
1 ATTTGAGAG
60219759 AGGATTAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
10 7 0.15
11 25 0.53
12 15 0.32
ACGTcount: A:0.45, C:0.03, G:0.28, T:0.25
Consensus pattern (12 bp):
ATTTGAGAGCAA
Found at i:60220013 original size:42 final size:42
Alignment explanation
Indices: 60219965--60220061 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
60219955 CGCGCAGACG
60219965 TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
1 TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
* * *
60220007 TGGAAGCGATTTCCTGGAACGTCCCCTGACATCGCGCTGACG
1 TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
*
60220049 TGGACGCGATTTC
1 TGGAAGCGATTTC
60220062 AGGGAAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (42 bp):
TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
Found at i:60221853 original size:27 final size:26
Alignment explanation
Indices: 60221815--60221876 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
60221805 ATAAAAATTA
60221815 ACCAAAATATTATAAC-TTTTTTTATTT
1 ACCAAAATATT-T-ACTTTTTTTTATTT
60221842 ACCAAAATA-TTACTTTTTTTTATTT
1 ACCAAAATATTTACTTTTTTTTATTT
*
60221867 ACGAAAATAT
1 ACCAAAATAT
60221877 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.06
25 20 0.62
26 1 0.03
27 9 0.28
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (26 bp):
ACCAAAATATTTACTTTTTTTTATTT
Found at i:60221976 original size:27 final size:27
Alignment explanation
Indices: 60221946--60221997 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
60221936 GGCCAATCAC
60221946 ATTGGCGGCACCAAAT-GTGCCAAAGTG
1 ATTGGCGGCACC-AATGGTGCCAAAGTG
*
60221973 ATTGGTGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
60221998 GACTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGTG
Found at i:60222039 original size:18 final size:19
Alignment explanation
Indices: 60222016--60222062 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
60222006 TGTGGCTAAT
* *
60222016 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
60222034 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
60222053 TTAAAT-AAAA
1 TTAAATGAAAA
60222063 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:60222070 original size:20 final size:19
Alignment explanation
Indices: 60222031--60222071 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
60222021 TGAGAATAGT
* *
60222031 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
60222050 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
60222070 TT
1 TT
60222072 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:60222258 original size:19 final size:19
Alignment explanation
Indices: 60222236--60222296 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
60222226 GAATTCTCTC
60222236 ATTTAATAACTCTATTTTA
1 ATTTAATAACTCTATTTTA
* *
60222255 ATTTAATAA-ACTA-TTAA
1 ATTTAATAACTCTATTTTA
60222272 GTATTTAATAACTCTATTTTA
1 --ATTTAATAACTCTATTTTA
60222293 ATTT
1 ATTT
60222297 TAAAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 22 0.65
20 3 0.09
21 3 0.09
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAATAACTCTATTTTA
Found at i:60222278 original size:38 final size:36
Alignment explanation
Indices: 60222236--60222312 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 36
60222226 GAATTCTCTC
60222236 ATTTAATAACTCTATTTTAA-TTTAATAAACTATTAAGT
1 ATTTAATAACTCTATTTTAATTTTAA-AAA--ATTAAGT
60222274 ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
1 ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
60222310 ATT
1 ATT
60222313 ACTTAATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 10 0.26
38 23 0.61
39 5 0.13
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (36 bp):
ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
Found at i:60222362 original size:20 final size:19
Alignment explanation
Indices: 60222323--60222363 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
60222313 ACTTAATAGT
* *
60222323 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
60222342 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
60222362 TT
1 TT
60222364 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:60222549 original size:292 final size:289
Alignment explanation
Indices: 60222016--60222714 Score: 1122
Period size: 292 Copynumber: 2.4 Consensus size: 289
60222006 TGTGGCTAAT
60222016 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
1 TTAAAT-AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
*
60222081 TAAAAAGAAAATAATAAATAAGGAGGGCTTATAAGGCAATTAGCCACATTTCAATTTTAGTGCGT
65 TAAAAAGAAAATAATAAATAAGGAGGGCTTATAAGGCAATTAGCCACATTTCAATTTTAGTGCGC
*
60222146 ACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCATGTCCTTAAAACTACAA
130 ACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTACAA
* *
60222211 ATGGTCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAATAAACTATTAAGTAT
195 ATGGTCACCTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAA-AAA-AATTAAGTA-
* *
60222276 TTA-ATAACTCTATTTTAATTTTAAA-AAATTA-AG-TA
257 TTACATAA---TAGTTT-A--TTAAATAAAATAGAGTTA
* *
60222311 TT-ACT-TAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAAT
1 TTAAATAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAAT
60222374 AAAAAGAAAATAATAAATAAGGAGGGCTTATAAGGCAATTAGCCACATTTCAATTTTAGTGCGCA
66 AAAAAGAAAATAATAAATAAGGAGGGCTTATAAGGCAATTAGCCACATTTCAATTTTAGTGCGCA
*
60222439 CAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTGCAAA
131 CAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTACAAA
*
60222504 TTGTCACCTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTATTAC
196 TGGTCACCTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTATTAC
*
60222569 TTAATAGTTTATTAAATTAAAATAGAGTTA
261 ATAATAGTTTATTAAA-TAAAATAGAGTTA
*
60222599 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGAAA
1 TTAAAT-AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
* *
60222664 TAAAAAGAAAATAATAAATAAGAAGGGCTTAGAAGGCAATTAGCCACATTT
65 TAAAAAGAAAATAATAAATAAGGAGGGCTTATAAGGCAATTAGCCACATTT
60222715 TAGTCCTTTG
Statistics
Matches: 380, Mismatches: 16, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
284 5 0.01
286 6 0.02
287 7 0.02
288 4 0.01
289 5 0.01
290 11 0.03
291 107 0.28
292 231 0.61
294 2 0.01
295 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (289 bp):
TTAAATAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAAT
AAAAAGAAAATAATAAATAAGGAGGGCTTATAAGGCAATTAGCCACATTTCAATTTTAGTGCGCA
CAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTACAAA
TGGTCACCTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTATTAC
ATAATAGTTTATTAAATAAAATAGAGTTA
Found at i:60222613 original size:37 final size:37
Alignment explanation
Indices: 60222571--60222641 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
60222561 AGTATTACTT
60222571 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
60222608 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
60222642 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:60222646 original size:19 final size:19
Alignment explanation
Indices: 60222577--60222645 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
60222567 ACTTAATAGT
60222577 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
60222596 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
60222614 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
60222633 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
60222646 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:60223310 original size:24 final size:25
Alignment explanation
Indices: 60223257--60223310 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
60223247 AAGTTACAAT
* *
60223257 TATTTTAGCGTTATTTATTTTAATA
1 TATTTTAGCGTTATTTAATGTAATA
* *
60223282 T-TTTTAGTG-TATTTAATGTATTA
1 TATTTTAGCGTTATTTAATGTAATA
60223305 TATTTT
1 TATTTT
60223311 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 12 0.50
24 11 0.46
25 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (25 bp):
TATTTTAGCGTTATTTAATGTAATA
Found at i:60223634 original size:24 final size:23
Alignment explanation
Indices: 60223594--60223639 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
60223584 AACATACCCA
*
60223594 CATATTTATAATAATAAATAATAT
1 CATATTTACAATAATAAA-AATAT
60223618 CATATTCTACAAT-ATAAAAATA
1 CATATT-TACAATAATAAAAATA
60223640 ATGGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
CATATTTACAATAATAAAAATAT
Found at i:60224552 original size:18 final size:18
Alignment explanation
Indices: 60224511--60224552 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
60224501 TATATTATTT
*
60224511 TTAAATATATATAATACA
1 TTAAAAATATATAATACA
*
60224529 TCAAAAATACTATAA-ACA
1 TTAAAAATA-TATAATACA
60224547 TTAAAA
1 TTAAAA
60224553 TAAATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATATATAATACA
Found at i:60224741 original size:11 final size:11
Alignment explanation
Indices: 60224704--60224754 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
60224694 ACAATAACAA
60224704 CAAAATAGTAG
1 CAAAATAGTAG
* * *
60224715 TAACATAATAG
1 CAAAATAGTAG
*
60224726 TAAAATAGTAG
1 CAAAATAGTAG
60224737 CAAAATAGTGAG
1 CAAAATAGT-AG
60224749 -AAAATA
1 CAAAATA
60224755 ACAATAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 31 0.94
12 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.22
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:60224763 original size:11 final size:11
Alignment explanation
Indices: 60224749--60224791 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
60224739 AAATAGTGAG
60224749 AAAATAACAAT
1 AAAATAACAAT
*
60224760 AAAATAACATT
1 AAAATAACAAT
** *
60224771 AAAGCAACAAA
1 AAAATAACAAT
60224782 AAAATAACAA
1 AAAATAACAA
60224792 ATCGTTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAATAACAAT
Found at i:60227565 original size:20 final size:20
Alignment explanation
Indices: 60227542--60227580 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60227532 AAATTTGGAA
* *
60227542 TTTAATCTTTTTATTTTTAT
1 TTTAATCTCTCTATTTTTAT
60227562 TTTAATCTCTCTATTTTTA
1 TTTAATCTCTCTATTTTTA
60227581 AGAAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTAATCTCTCTATTTTTAT
Found at i:60230530 original size:3 final size:3
Alignment explanation
Indices: 60230522--60230569 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
60230512 TTTAGGCAGT
*
60230522 AGA AGA AGA TGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
60230569 A
1 A
60230570 ATGGAGATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:60233371 original size:20 final size:20
Alignment explanation
Indices: 60233346--60233386 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
60233336 ACTTAATGCT
60233346 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
60233366 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
60233386 C
1 C
60233387 ATAAACCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
CTTGCAAATAAAAAAACAAA
Found at i:60235723 original size:35 final size:35
Alignment explanation
Indices: 60235684--60235753 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
60235674 TGGCTATGAG
* *
60235684 ATGCTTAAATGAACCAGACCAACTAACACACCAGA
1 ATGCTCAAATGAACCAGACCAACCAACACACCAGA
** * *
60235719 ATGCTCGTATGAGCCAGACCAGCCAACACACCAGA
1 ATGCTCAAATGAACCAGACCAACCAACACACCAGA
60235754 GTACACTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.31, G:0.16, T:0.13
Consensus pattern (35 bp):
ATGCTCAAATGAACCAGACCAACCAACACACCAGA
Found at i:60236995 original size:7 final size:7
Alignment explanation
Indices: 60236983--60237011 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
60236973 AATGACCTCA
60236983 TAAATAT
1 TAAATAT
60236990 TAAATAT
1 TAAATAT
60236997 TAAATAT
1 TAAATAT
60237004 TAAATAT
1 TAAATAT
60237011 T
1 T
60237012 TAAAAACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATAT
Found at i:60238019 original size:24 final size:24
Alignment explanation
Indices: 60237973--60238022 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
60237963 TTATCAATGA
60237973 TATTTAAAAATAATAAAAAATAAAT
1 TATTTAAAAAT-ATAAAAAATAAAT
*
60237998 TATTTAAAAAT-TAAATACATAAAT
1 TATTTAAAAATATAAA-AAATAAAT
60238022 T
1 T
60238023 TACATGCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 11 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TATTTAAAAATATAAAAAATAAAT
Found at i:60251966 original size:62 final size:62
Alignment explanation
Indices: 60251878--60252094 Score: 190
Period size: 62 Copynumber: 3.5 Consensus size: 62
60251868 GACCACAGAT
* * *
60251878 CCAGGGACACAGG-GTGTGCCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCACACGG
1 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCACACGG
* * *
60251939 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTT-TTTGTGGTACAAGATCACACAG
1 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCA-TTGTTTGTGGTATAAGACCACACGG
** * * * * * * * * *
60252001 ATAGGGACACGGGCATGTGTCCAAGCTGTGTAACTTACTGTTTATGCT-TCAAAACCACACGG
1 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGTGGTAT-AAGACCACACGG
* * *
60252063 GCA-AGACACATGGGCGTGTGACCTGGCCGTGT
1 CCAGAGACAC--GGGCGTGTGTCCAGGCCGTGT
60252095 GGCGAGTTAT
Statistics
Matches: 122, Mismatches: 28, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
61 17 0.14
62 87 0.71
63 18 0.15
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (62 bp):
CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCACACGG
Found at i:60253228 original size:26 final size:26
Alignment explanation
Indices: 60253199--60253299 Score: 111
Period size: 26 Copynumber: 3.9 Consensus size: 26
60253189 GGATTCACGA
60253199 ATGGTTAGACAAGAATAAATTCATAG
1 ATGGTTAGACAAGAATAAATTCATAG
* * *
60253225 ATGGTCATTATAAAAGATATGAA---ATAG
1 ATGG---TTAGACAAGA-ATAAATTCATAG
60253252 A-GGTTAGACAAGAATAAATTCATAG
1 ATGGTTAGACAAGAATAAATTCATAG
60253277 ATGGTTAGACAAGAATAAATTCA
1 ATGGTTAGACAAGAATAAATTCA
60253300 CGAAATAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
22 4 0.07
23 8 0.13
25 5 0.08
26 27 0.44
27 5 0.08
29 8 0.13
30 4 0.07
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.27
Consensus pattern (26 bp):
ATGGTTAGACAAGAATAAATTCATAG
Found at i:60269337 original size:33 final size:32
Alignment explanation
Indices: 60269265--60269341 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
60269255 TATATACATG
* * **
60269265 TGTAAGACCATAGCTGGGCTATGACATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
* *
60269297 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
60269331 TGTAAGACCAT
1 TGTAAGACCAT
60269342 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:60274121 original size:41 final size:41
Alignment explanation
Indices: 60274076--60274234 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 41
60274066 ATCTTCGAGT
* * *
60274076 ATTAGCGGCGCTTTTTTAGAAACGCCTCTAAAACCTTGAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTGAGC
* * * *
60274117 ATTAGCGGTGCTTTTTTAAAAACG-CTACTAAAGCCCTAAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCT-CTAAAACCCTGAGC
* *
60274158 ATTAGCGGCGCTTGTTAAAAAACGCCGCTAAAACCCTGAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTGAGC
*
60274199 ATTAGCGGCGCTTTTTAAAAAACGCCACTAAAACCC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCC
60274235 ACGAAAACTA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.02
41 100 0.97
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTGAGC
Found at i:60274122 original size:82 final size:81
Alignment explanation
Indices: 60274028--60274230 Score: 212
Period size: 82 Copynumber: 2.5 Consensus size: 81
60274018 CCACTATTGG
* ** * * * * *
60274028 CCTGAGCATTAGCTGCGTTTCTTTAAAAATGCCGGTAAA-TCTTCGAGTATTAGCGGCGCTTTTT
1 CCTGAGCATTAGCTGCGTTT-TTTAAAAACGCCACTAAAGCCCT-AAGCATTAGCGGCGCTTGTT
* * *
60274092 TAGAAACGCCTCTAAAAC
64 AAAAAACGCCGCTAAAAC
* *
60274110 CTTGAGCATTAGCGGTGC-TTTTTTAAAAACGCTACTAAAGCCCTAAGCATTAGCGGCGCTTGTT
1 CCTGAGCATTAGC--TGCGTTTTTTAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCTTGTT
60274174 AAAAAACGCCGCTAAAAC
64 AAAAAACGCCGCTAAAAC
* *
60274192 CCTGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAA
1 CCTGAGCATTAGCTGCG-TTTTTTAAAAACGCCACTAAA
60274231 ACCCACGAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.02
82 89 0.90
83 5 0.05
84 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (81 bp):
CCTGAGCATTAGCTGCGTTTTTTAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCTTGTTAA
AAAACGCCGCTAAAAC
Found at i:60274338 original size:39 final size:39
Alignment explanation
Indices: 60274290--60274365 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
60274280 GCACTTTTTG
* * *
60274290 AAAAACGCCGCTAATGCTC-ATTTTTAGCGGTGTTTTCC
1 AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTCC
60274328 AAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTT
1 AAAAA-CGCCGCTAATACTCAATCTTTAGCGGCGTTTT
60274366 TTTAAAGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 13 0.39
40 15 0.45
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTCC
Found at i:60274373 original size:39 final size:38
Alignment explanation
Indices: 60274295--60274409 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 38
60274285 TTTTGAAAAA
* * ***
60274295 CGCCGCTAATGCTCATTTTTAGCGGTGTTTTCCAAAAAG
1 CGCCGCTAATACTCATTTTTAGCGGCGTTTT-TTTAAAG
*
60274334 CGCCGCTAATACTCAATCTTTAGCGGCGTTTTTTTAAAG
1 CGCCGCTAATACTC-ATTTTTAGCGGCGTTTTTTTAAAG
* * * *
60274373 CGCTGCTAATTCTTGATTTTTAGCGGCATTTTTTTAA
1 CGCCGCTAATAC-TCATTTTTAGCGGCGTTTTTTTAA
60274410 TCAAAATGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 47 0.75
40 16 0.25
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (38 bp):
CGCCGCTAATACTCATTTTTAGCGGCGTTTTTTTAAAG
Found at i:60280907 original size:20 final size:20
Alignment explanation
Indices: 60280877--60280914 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60280867 TTGAAAAGAA
60280877 AACTCAAAGAGAA-TTTATT
1 AACTCAAAGAGAAGTTTATT
60280896 AACTCAAAAGAGAAGTTTA
1 AACTC-AAAGAGAAGTTTA
60280915 ATATTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
AACTCAAAGAGAAGTTTATT
Found at i:60281909 original size:14 final size:15
Alignment explanation
Indices: 60281840--60281910 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 15
60281830 ATCCCACCCC
* *
60281840 ATATACTGATATAGA
1 ATATACAGATACAGA
*
60281855 A-ATACATATACA-A
1 ATATACAGATACAGA
*
60281868 ATATACGGATACA-A
1 ATATACAGATACAGA
60281882 ATATACAGATACAGA
1 ATATACAGATACAGA
*
60281897 A-ATATAGATACAGA
1 ATATACAGATACAGA
60281911 TACTCATACA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.04
14 42 0.89
15 3 0.06
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (15 bp):
ATATACAGATACAGA
Found at i:60286016 original size:28 final size:27
Alignment explanation
Indices: 60285967--60286031 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
60285957 TACGGTATGC
* *
60285967 AGAAACAGATTGGGCCTGAGCCCATTAA
1 AGAAACAG-TTGGACCTAAGCCCATTAA
*
60285995 TAGAACCAGTTGGACCTAAGCCCATTAA
1 -AGAAACAGTTGGACCTAAGCCCATTAA
*
60286023 AGAATCAGT
1 AGAAACAGT
60286032 ATCAAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 8 0.25
28 17 0.53
29 7 0.22
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
AGAAACAGTTGGACCTAAGCCCATTAA
Found at i:60286467 original size:27 final size:26
Alignment explanation
Indices: 60286437--60286499 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
60286427 AGGGCTAAAA
*
60286437 TGGTAATTTTACCC-CATAGGGGTATTT
1 TGGTCATTTTACCCTCA-A-GGGTATTT
60286464 TGGTCATTTTACCCTTCAAGGGTATTT
1 TGGTCATTTTACCC-TCAAGGGTATTT
60286491 TGGTCATTT
1 TGGTCATTT
60286500 AAAAACCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 30 0.91
28 1 0.03
29 2 0.06
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (26 bp):
TGGTCATTTTACCCTCAAGGGTATTT
Found at i:60291528 original size:56 final size:56
Alignment explanation
Indices: 60291442--60291561 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
60291432 ACAAGGGATG
*
60291442 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACAGGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
60291498 ATGGGCAAAACAGGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACAGGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
60291554 ATGGGCAA
1 ATGGGCAA
60291562 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACAGGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:60292567 original size:90 final size:90
Alignment explanation
Indices: 60292431--60292609 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 90
60292421 GAACTAAATC
* *
60292431 CGATAAAGGAAAGGAAAAAGTGGTCGAATAGCCATCGGAATCGTTCGACAACATCCGAGGTAAGT
1 CGATAAAGGAAAGGAAAAAGTGGTCGAATAGCCATCGAAACCGTTCGACAACATCCGAGGTAAGT
60292496 TCTTGAGTAAGAGAGCTTAAATTAA
66 TCTTGAGTAAGAGAGCTTAAATTAA
* *
60292521 CGATAAAGGGAAGGAAAAAGTGGTCGAATAGCCGTCGAAACCGTTCGACAACATCCGAGGTAAGT
1 CGATAAAGGAAAGGAAAAAGTGGTCGAATAGCCATCGAAACCGTTCGACAACATCCGAGGTAAGT
*
60292586 TCTTGAGTAATAGAGCTTAAATTA
66 TCTTGAGTAAGAGAGCTTAAATTA
60292610 TGATTTGATT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (90 bp):
CGATAAAGGAAAGGAAAAAGTGGTCGAATAGCCATCGAAACCGTTCGACAACATCCGAGGTAAGT
TCTTGAGTAAGAGAGCTTAAATTAA
Found at i:60292864 original size:40 final size:39
Alignment explanation
Indices: 60292780--60292964 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
60292770 TCGAATGATG
* * *
60292780 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
60292819 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
60292860 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
60292899 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
60292938 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
60292965 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:60292916 original size:79 final size:81
Alignment explanation
Indices: 60292780--60292964 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
60292770 TCGAATGATG
* *
60292780 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
60292844 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
60292859 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
60292921 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
60292939 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
60292965 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:60292986 original size:79 final size:79
Alignment explanation
Indices: 60292833--60292997 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
60292823 GGACTAAGAT
* **
60292833 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60292898 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60292912 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60292975 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60292991 CCGAAGG
1 CCGAAGG
60292998 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60309009 original size:27 final size:26
Alignment explanation
Indices: 60308823--60309022 Score: 184
Period size: 27 Copynumber: 7.4 Consensus size: 26
60308813 GGGTATAACA
* *
60308823 GTCATTTTACCCTATAGGGGTACTTCT
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
60308850 GTCGTTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
60308877 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
60308904 ATCATTCTACCTTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
* *
60308931 GTCATTCTACTCTATGGGGCTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* ** *
60308958 GTCATTCTATTCTATGGTGGTATTTCA
1 GTCATTTTACCCTATGG-GGTATTTCG
* * *
60308985 ATCATTTTACCCTATGGGGACATTTTG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
60309012 GTCCTTTTACC
1 GTCATTTTACC
60309023 TACTATTTTG
Statistics
Matches: 144, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.05
27 134 0.93
28 3 0.02
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:60318680 original size:22 final size:22
Alignment explanation
Indices: 60318655--60318697 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60318645 AACTTAATTC
60318655 ACATTTATTGA-TTGAATGTAAT
1 ACATTTATT-ACTTGAATGTAAT
60318677 ACATTTATTACTTGAATGTAA
1 ACATTTATTACTTGAATGTAA
60318698 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTACTTGAATGTAAT
Found at i:60327624 original size:50 final size:50
Alignment explanation
Indices: 60327549--60327741 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
60327539 ATTTGGGTAA
*
60327549 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
60327599 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGTGTTGGCAGCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
60327649 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
60327699 AGAACATCCCATGTAAGACCATGTCTGGAACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
60327742 TGTTATTATT
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:60329727 original size:3 final size:3
Alignment explanation
Indices: 60329719--60329908 Score: 60
Period size: 3 Copynumber: 63.7 Consensus size: 3
60329709 TTACCCTCTT
* * *
60329719 TTA TTA TTA ATA TTTA TTA TTCA TTA CT- TTA TTA TTT TTA TT- TTA
1 TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* *
60329764 TT- TT- TTGA TTA TTTA TTTA TTTA TTCC TTA TTA CTA TTA TTA TT-
1 TTA TTA TT-A TTA -TTA -TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
* * * * * *
60329808 TTA TTC TT- TGTT TTA GTA TTA TTC TTT TTAA TT- GTA TTTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA -TTA TTA TTA
* * * * * *
60329854 ATA TGA TTA TTA CTA TTA TT- TTA TT- TTC TT- CTA TTA TTC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60329899 TTA TT- TTA TT
1 TTA TTA TTA TT
60329909 TGGCTATAGA
Statistics
Matches: 140, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
2 18 0.13
3 97 0.69
4 25 0.18
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60329744 original size:7 final size:7
Alignment explanation
Indices: 60329718--60329808 Score: 69
Period size: 7 Copynumber: 12.4 Consensus size: 7
60329708 TTTACCCTCT
60329718 TTTATTA
1 TTTATTA
*
60329725 -TTAATA
1 TTTATTA
60329731 TTTATTA
1 TTTATTA
*
60329738 TTCATTA
1 TTTATTA
60329745 CTTTATTA
1 -TTTATTA
60329753 TTT-TTA
1 TTTATTA
*
60329759 TTTTATTT
1 -TTTATTA
60329767 TTTGATTA
1 TTT-ATTA
60329775 TTTATTTA
1 TTTA-TTA
*
60329783 TTTATTC
1 TTTATTA
*
60329790 CTTATTA
1 TTTATTA
60329797 CTATTATTA
1 -T-TTATTA
60329806 TTT
1 TTT
60329809 TATTCTTTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
6 8 0.12
7 30 0.45
8 22 0.33
9 6 0.09
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:60330069 original size:20 final size:20
Alignment explanation
Indices: 60330046--60330083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60330036 GTTTTATTTA
*
60330046 TTTATTATTATTATTATTAT
1 TTTATTAGTATTATTATTAT
*
60330066 TTTATTCGTATTATTATT
1 TTTATTAGTATTATTATT
60330084 CTTTATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTATTAGTATTATTATTAT
Found at i:60330070 original size:17 final size:17
Alignment explanation
Indices: 60330050--60330083 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60330040 TATTTATTTA
*
60330050 TTATTATTATTATTATT
1 TTATTAGTATTATTATT
*
60330067 TTATTCGTATTATTATT
1 TTATTAGTATTATTATT
60330084 CTTTATATAT
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:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTATTAGTATTATTATT
Found at i:60331435 original size:12 final size:11
Alignment explanation
Indices: 60331420--60331502 Score: 66
Period size: 11 Copynumber: 7.4 Consensus size: 11
60331410 TTTGTTTTCT
60331420 TTTTAGTTTTA
1 TTTTAGTTTTA
60331431 GTTTTAGTTTTA
1 -TTTTAGTTTTA
*
60331443 TTTTATTTTTA
1 TTTTAGTTTTA
60331454 TTTTA-TGTTTA
1 TTTTAGT-TTTA
60331465 TGTTTA-TTATTA
1 T-TTTAGTT-TTA
*
60331477 TTTTTAGTTCT-
1 -TTTTAGTTTTA
60331488 TTTTA-TTCTTA
1 TTTTAGTT-TTA
60331499 TTTT
1 TTTT
60331503 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.03
10 7 0.11
11 25 0.41
12 24 0.39
13 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTTAGTTTTA
Found at i:60331464 original size:6 final size:5
Alignment explanation
Indices: 60331420--60331502 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 5
60331410 TTTGTTTTCT
60331420 TTTTA GTTTTA GTTTTA GTTTTA TTTTA TTTTTA TTTTA TGTTTA TGTTTA
1 TTTTA -TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA T-TTTA T-TTTA
*
60331471 TTATTA TTTTTA GTTCT- TTTTA TTCTTA TTTT
1 TT-TTA -TTTTA -TTTTA TTTTA TT-TTA TTTT
60331503 CTTAGACTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.04
5 16 0.24
6 47 0.69
7 2 0.03
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:60334030 original size:56 final size:50
Alignment explanation
Indices: 60333959--60334154 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 50
60333949 ATTTGGGTAA
* * *
60333959 AGAGATCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* **
60334015 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
60334065 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
60334115 AGAACTCCCATGTAAGACCATATCTGGGATATGGAATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
60334155 TAGTACAAGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.66
53 3 0.02
55 1 0.01
56 37 0.31
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:60338849 original size:22 final size:22
Alignment explanation
Indices: 60338821--60338863 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
60338811 AACTTAATAC
*
60338821 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
60338843 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
60338864 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:60341222 original size:19 final size:20
Alignment explanation
Indices: 60341175--60341223 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
60341165 TGTCAGTACT
* * *
60341175 ATGAATAGTGGGGTCAAGTC
1 ATGAACAGTGGAGTCAAATC
60341195 ATGAACAGTGGAGTCAAATC
1 ATGAACAGTGGAGTCAAATC
60341215 AT-AACAGTG
1 ATGAACAGTG
60341224 ATAATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (20 bp):
ATGAACAGTGGAGTCAAATC
Found at i:60347582 original size:70 final size:70
Alignment explanation
Indices: 60347135--60347618 Score: 491
Period size: 70 Copynumber: 6.9 Consensus size: 70
60347125 TCCCTTTCAA
* * * **
60347135 AAAATAGGTAGCGCGAGCTCAAGCTCCCAATTGTAACCTTAAGGCTCGTAGGTTCAATATTGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
60347200 CCCCC
66 CCCCC
* * * * * * * *
60347205 AAAATAGTTAACGCGAACTCAAGCTCCCAATTGTAACCTTATGACTTGCAGGTTCAATACCGTAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
60347270 CCCCC
66 CCCCC
* * * * ** *
60347275 AAAATAGTTAGCGCGAGCTCAAGCTCACAATTGTAGCTTTAAGGCTCTCATGTTCAATACTACAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
* *
60347340 CCTCT
66 CCCCC
* * * * * * *
60347345 AAAATAGTTAGTGCAAGCTCAAGCTCTCAACTATAACTGTAAGGCTCGCGGGTTCAATACCGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
60347410 CCCCC
66 CCCCC
* ** * * * * * *
60347415 AAAATAGTTAGTGTAAGCTCAAGCTCCCAGTTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
60347480 CCCCC
66 CCCCC
* * * * * *
60347485 AAAAGAGTTAGCGTGAGCTCAATCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
60347550 CCCCC
66 CCCCC
* * * * * * * * *
60347555 AAAATAGTTAGCGTGAGCTCAAGCTCCTAACTATAGCTTTAAGGTTTGTAGGTTTAATACCGCA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCA
60347619 GTCTCCAAAG
Statistics
Matches: 339, Mismatches: 75, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 339 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (70 bp):
AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
CCCCC
Found at i:60347634 original size:140 final size:140
Alignment explanation
Indices: 60347135--60347598 Score: 563
Period size: 140 Copynumber: 3.3 Consensus size: 140
60347125 TCCCTTTCAA
* * * *
60347135 AAAATAGGTAGCGCGAGCTCAAGCTCCCAATTGTAACCTTAAGGCTCGT-AGGTTCAATATTGCA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTC-TCAGGTTCAATACTGCA
* * * * * * * *
60347199 ACCCCCAAAATAGTTAACGCGAACTCAAGCTCCCAATTGTAACCTTATGACTTGCAGGTTCAATA
65 GCCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATA
* *
60347264 CCGTAGCCCCC
130 CCGCAACCCCC
* * *
60347275 AAAATAGTTAGCGCGAGCTCAAGCTCACAATTGTAGCTTTAAGGCTCTCATGTTCAATACTACAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
* * * * * * * *
60347340 CCTCTAAAATAGTTAGTGCAAGCTCAAGCT-CTCAACTATAACTGTAAGGCTCGCGGGTTCAATA
66 CCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCT-AACTGTAACTTTAAGACTCGCAGGTTCAATA
60347404 CCGCAACCCCC
130 CCGCAACCCCC
* ** * *
60347415 AAAATAGTTAGTGTAAGCTCAAGCTCCCAGTTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
* * *
60347480 CCCCCAAAAGAGTTAGCGTGAGCTCAATCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATAC
66 CCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATAC
60347545 CGCAACCCCC
131 CGCAACCCCC
* * * *
60347555 AAAATAGTTAGCGTGAGCTCAAGCTCCTAACTATAGCTTTAAGG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGG
60347599 TTTGTAGGTT
Statistics
Matches: 271, Mismatches: 50, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
139 2 0.01
140 267 0.99
141 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (140 bp):
AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
CCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATAC
CGCAACCCCC
Found at i:60350848 original size:24 final size:26
Alignment explanation
Indices: 60350821--60350875 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
60350811 ATAATTGGAG
*
60350821 TAAAAAC-AATA-ACAAACCTGATTA
1 TAAAAACAAATAGACAAACATGATTA
* *
60350845 T-AAAACAAATAGACACATATGATTA
1 TAAAAACAAATAGACAAACATGATTA
60350870 TAAAAA
1 TAAAAA
60350876 GAATCTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.20
24 5 0.20
25 11 0.44
26 4 0.16
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAAACAAATAGACAAACATGATTA
Found at i:60357130 original size:3 final size:3
Alignment explanation
Indices: 60357122--60357162 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
60357112 CGCTACCCCT
* *
60357122 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
60357163 TGCTTCTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.34, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:60360279 original size:17 final size:16
Alignment explanation
Indices: 60360258--60360300 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
60360248 TCTTTTTTAG
*
60360258 CTTTTTTTATGCCTTT
1 CTTTTTTTTTGCCTTT
* *
60360274 CTTTTTCTTTTTCTTTT
1 CTTTTT-TTTTGCCTTT
60360291 CTTTTTTTTT
1 CTTTTTTTTT
60360301 TTAGTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (16 bp):
CTTTTTTTTTGCCTTT
Found at i:60366555 original size:15 final size:15
Alignment explanation
Indices: 60366531--60366579 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
60366521 ATTAATTGTG
*
60366531 ATTAATTTTTAGTTA
1 ATTAAATTTTAGTTA
*
60366546 ATTAAATTTTAATTA
1 ATTAAATTTTAGTTA
* *
60366561 ATTTAA-TTAAGTTA
1 ATTAAATTTTAGTTA
60366575 ATTAA
1 ATTAA
60366580 GTAATTAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATTAAATTTTAGTTA
Found at i:60366567 original size:9 final size:9
Alignment explanation
Indices: 60366517--60366579 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
60366507 TTCCGCTAAT
60366517 TTTAATTAA
1 TTTAATTAA
*
60366526 TTGTGATTAA
1 TT-TAATTAA
60366536 TTT--TT-A
1 TTTAATTAA
*
60366542 GTTAATTAAA
1 TTTAATT-AA
60366552 TTTTAATTAA
1 -TTTAATTAA
60366562 TTTAATTAA
1 TTTAATTAA
*
60366571 GTTAATTAA
1 TTTAATTAA
60366580 GTAATTAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 2 0.05
9 20 0.45
10 11 0.25
11 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (9 bp):
TTTAATTAA
Found at i:60366580 original size:9 final size:9
Alignment explanation
Indices: 60366554--60366587 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
60366544 TAATTAAATT
*
60366554 TTAATTAAT
1 TTAATTAAG
60366563 TTAATTAAG
1 TTAATTAAG
60366572 TTAATTAAG
1 TTAATTAAG
60366581 -TAATTAA
1 TTAATTAA
60366588 AGATTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (9 bp):
TTAATTAAG
Found at i:60367500 original size:28 final size:28
Alignment explanation
Indices: 60367460--60367515 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60367450 GATTAACATG
60367460 CCAATAAGGTTCTGTGTGGGCTTGTATA
1 CCAATAAGGTTCTGTGTGGGCTTGTATA
60367488 CCAATAAGGTTCTGTGTGGGCTTGTATA
1 CCAATAAGGTTCTGTGTGGGCTTGTATA
60367516 GGATTGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (28 bp):
CCAATAAGGTTCTGTGTGGGCTTGTATA
Found at i:60374092 original size:17 final size:17
Alignment explanation
Indices: 60374072--60374123 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
60374062 GGCAAGCACC
60374072 AACAGAGAAAAAACAAA
1 AACAGAGAAAAAACAAA
*
60374089 AACAGAGCAAAATAA-AGA
1 AACAGAG-AAAA-AACAAA
*
60374107 AACAAAGAAACAAACAA
1 AACAGAGAAA-AAACAA
60374124 TCAAATGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.43
18 14 0.50
19 2 0.07
ACGTcount: A:0.73, C:0.13, G:0.12, T:0.02
Consensus pattern (17 bp):
AACAGAGAAAAAACAAA
Found at i:60382623 original size:35 final size:35
Alignment explanation
Indices: 60382584--60382654 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
60382574 GCTTCGGTTG
*
60382584 TCTCTTCCGGTACCAAATCATTATACATTTGTTTC
1 TCTCTTCCGATACCAAATCATTATACATTTGTTTC
60382619 TCTCTTCCGATACCAAATCATTATACATTTGTTTC
1 TCTCTTCCGATACCAAATCATTATACATTTGTTTC
60382654 T
1 T
60382655 TCCATTGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.07, T:0.44
Consensus pattern (35 bp):
TCTCTTCCGATACCAAATCATTATACATTTGTTTC
Found at i:60384122 original size:44 final size:46
Alignment explanation
Indices: 60384074--60384187 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 46
60384064 AGTTTTTTCC
*
60384074 ATTATGCTATTACACCTCTATTCCATT-CAACCAAAC--ACA-AT-
1 ATTATGCTATTACACCTCTATTCCATTACAACCAAACAAACAGTTG
** ** *
60384115 ATTAT--TATTATGCCTCTATTCCATTACATTCAACCAAACAGTTG
1 ATTATGCTATTACACCTCTATTCCATTACAACCAAACAAACAGTTG
60384159 ATT-TGCTATTACACCTCTATTCCATTACA
1 ATTATGCTATTACACCTCTATTCCATTACA
60384188 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
39 18 0.31
40 6 0.10
41 5 0.09
42 3 0.05
43 2 0.03
44 3 0.05
45 21 0.36
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.37
Consensus pattern (46 bp):
ATTATGCTATTACACCTCTATTCCATTACAACCAAACAAACAGTTG
Found at i:60384187 original size:16 final size:16
Alignment explanation
Indices: 60384166--60384203 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
60384156 TTGATTTGCT
*
60384166 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
60384182 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
60384198 AATACA
1 ATTACA
60384204 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:60384889 original size:23 final size:25
Alignment explanation
Indices: 60384857--60384918 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
60384847 TTTTAGTCAC
60384857 TATTATTAAATATGTTTAT-TAATT-T
1 TATTA-TAAATATGTTT-TGTAATTGT
* *
60384882 T-TTATAAATATCTTTTGTATTTGT
1 TATTATAAATATGTTTTGTAATTGT
60384906 TATTATAAATATG
1 TATTATAAATATG
60384919 GTATGTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
24 5 0.16
25 11 0.35
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (25 bp):
TATTATAAATATGTTTTGTAATTGT
Found at i:60386651 original size:40 final size:40
Alignment explanation
Indices: 60386598--60386674 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
60386588 AAGTCAGAGA
* * *
60386598 ACGTGTCAGCAAATCGCGTCCACGTCAGAGCGCTTTGCTG
1 ACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTGCTG
* *
60386638 ACGTGGCAACAAATCGCGTCCATGTAAGCGCGCTTTG
1 ACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTG
60386675 TTGCAGCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (40 bp):
ACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTGCTG
Found at i:60387239 original size:127 final size:127
Alignment explanation
Indices: 60386928--60387502 Score: 888
Period size: 127 Copynumber: 4.5 Consensus size: 127
60386918 AAGATAAAAA
* * * * * *
60386928 TCAACGCAGGATGCTTTATCAGAAGAATTTCT-AAAGCCGCGCCCACGTGTACGCGTTTTTGCTA
1 TCAA-GCAGGATGCTTTATGAGAAGAATTTGTGAAA-TCGCGCCCTCGTGGACGCGCTTTTGCTA
* * * *
60386992 CAGTAGATCTTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAATAT-AAAAAACGCT
64 CAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
60387055 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
60387120 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
66 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
* * * *
60387182 TCAAGCAAGATGTTTTATGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGTGCTTTTGCTACA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
*
60387247 GCAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
66 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
*
60387309 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
* * * * *
60387374 GTAGGTCCTGGAAAAAATAATTTCAACTTGACGTTTCTGAGAAAATAG--TATAAAAATGCT
66 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
* * *
60387434 TCAAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
60387499 GTAG
66 GTAG
60387503 CATGTTTGGG
Statistics
Matches: 416, Mismatches: 30, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
125 75 0.18
126 98 0.24
127 243 0.58
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (127 bp):
TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
Found at i:60388267 original size:20 final size:20
Alignment explanation
Indices: 60388230--60388267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60388220 ATTATTTTTA
*
60388230 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
60388250 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
60388268 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:60389247 original size:11 final size:11
Alignment explanation
Indices: 60389233--60389332 Score: 50
Period size: 11 Copynumber: 9.4 Consensus size: 11
60389223 GAGAAATTTA
60389233 AGAGGAAATTG
1 AGAGGAAATTG
*
60389244 AGAGCAAATTG
1 AGAGGAAATTG
**
60389255 AGATTAAA-T-
1 AGAGGAAATTG
* *
60389264 A-TGG-ATTTG
1 AGAGGAAATTG
60389273 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
60389284 -GAAGGAATTTG
1 AG-AGGAAATTG
* * *
60389295 AGAGCAATTTA
1 AGAGGAAATTG
60389306 AGAGGAAATTG
1 AGAGGAAATTG
60389317 AGAGGAAATTTG
1 AGAGGAAA-TTG
60389329 AGAG
1 AGAG
60389333 AGGATTAGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 46 0.71
12 11 0.17
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.25
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:60389293 original size:22 final size:23
Alignment explanation
Indices: 60389268--60389336 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
60389258 TTAAATATGG
*
60389268 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGAAGAGGA
*
60389290 ATTTGAGAGCAATTT-AAGAGGA
1 ATTTGAGAGAAATTTGAAGAGGA
*
60389312 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTGA-AGAGGA
60389337 TTAGTTTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 25 0.64
23 6 0.15
24 1 0.03
25 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGAAGAGGA
Found at i:60391574 original size:18 final size:18
Alignment explanation
Indices: 60391551--60391586 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60391541 TAAAAATAAA
60391551 TATATTATTAGGAGATAT
1 TATATTATTAGGAGATAT
*
60391569 TATATTATTATGAGATAT
1 TATATTATTAGGAGATAT
60391587 AATCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (18 bp):
TATATTATTAGGAGATAT
Found at i:60395352 original size:18 final size:18
Alignment explanation
Indices: 60395329--60395364 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60395319 TGAAGGTGAT
60395329 CATATTAATCATTAAGAA
1 CATATTAATCATTAAGAA
60395347 CATATTAATCATTAAGAA
1 CATATTAATCATTAAGAA
60395365 GACACGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
CATATTAATCATTAAGAA
Found at i:60403442 original size:43 final size:44
Alignment explanation
Indices: 60403381--60403498 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 44
60403371 ACAAGCACAG
* *
60403381 AAAAAA-GCCACTATAGAACATGATCTTTAGCGACAATTTTA-T-
1 AAAAAACGCCACTAAAGAACATGATCTTTAGCGAC-ACTTTACTC
* * * *
60403423 AAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACTC
1 AAAAAACGCCACTAAAGAACATGATCTTTAGCGACACTTTACTC
* *
60403467 ACAAATC-CCACTAAAGAACATGATCTTTAGCG
1 AAAAAACGCCACTAAAGAACATGATCTTTAGCG
60403499 GCGCTTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 10 0.16
43 48 0.76
44 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (44 bp):
AAAAAACGCCACTAAAGAACATGATCTTTAGCGACACTTTACTC
Found at i:60403524 original size:43 final size:43
Alignment explanation
Indices: 60403395--60403532 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
60403385 AAGCCACTAT
* ** * *
60403395 AGAACATGATCTTTAGCGACAATTTTATAAAAAACGCCGCTAA
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
* *
60403438 AGAACATGACCTTTAGCGGCGC-TTTACTCACAAATC-CCACTAA
1 AGAACATGATCTTTAGCGGCGCTTTTA-TCACAAA-CGCCGCTAA
* *
60403481 AGAACATGATCTTTAGCGGCGCTTTTTTCACAAACGCTGCTAA
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
*
60403524 AGAGCATGA
1 AGAACATGA
60403533 CCTGTGTTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.06
43 70 0.89
44 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
Found at i:60405571 original size:21 final size:21
Alignment explanation
Indices: 60405545--60405590 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
60405535 GCATGTAAAA
60405545 AAACCAGATCAATACTAAGCT
1 AAACCAGATCAATACTAAGCT
60405566 AAACCAGATCAATACTAAGCT
1 AAACCAGATCAATACTAAGCT
60405587 AAAC
1 AAAC
60405591 ATATATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (21 bp):
AAACCAGATCAATACTAAGCT
Found at i:60407796 original size:7 final size:7
Alignment explanation
Indices: 60407786--60407952 Score: 97
Period size: 7 Copynumber: 23.7 Consensus size: 7
60407776 TCATAAAACA
60407786 TAAACCT
1 TAAACCT
*
60407793 TAAACCCC
1 TAAA-CCT
* *
60407801 TAACCCC
1 TAAACCT
*
60407808 TAAACAT
1 TAAACCT
60407815 TAAACC-
1 TAAACCT
*
60407821 TCAACCTT
1 TAAACC-T
*
60407829 TAAACCA
1 TAAACCT
*
60407836 TAAACCA
1 TAAACCT
*
60407843 TAAACCA
1 TAAACCT
*
60407850 TAAACCA
1 TAAACCT
*
60407857 T-AACCC
1 TAAACCT
*
60407863 TCAACTCT
1 TAAAC-CT
* *
60407871 TAACCCC
1 TAAACCT
* *
60407878 TAACCCC
1 TAAACCT
60407885 TAAACCT
1 TAAACCT
60407892 TAAACCT
1 TAAACCT
*
60407899 TAACCCT
1 TAAACCT
*
60407906 T-AATCT
1 TAAACCT
60407912 ATAAACCT
1 -TAAACCT
*
60407920 TAAACCA
1 TAAACCT
*
60407927 TAAACCG
1 TAAACCT
*
60407934 TAACCCT
1 TAAACCT
60407941 TAAACCT
1 TAAACCT
60407948 TAAAC
1 TAAAC
60407953 GCATAAACTA
Statistics
Matches: 128, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
6 13 0.10
7 97 0.76
8 18 0.14
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:60407846 original size:14 final size:14
Alignment explanation
Indices: 60407779--60407986 Score: 111
Period size: 14 Copynumber: 14.7 Consensus size: 14
60407769 CCTTGAATCA
*
60407779 TAAAACATAAACCT
1 TAAACCATAAACCT
* * *
60407793 TAAACCCCTAACCCC
1 TAAA-CCATAAACCT
60407808 TAAA-CATTAAACC-
1 TAAACCA-TAAACCT
* * *
60407821 TCAACCTTTAAACCA
1 TAAACC-ATAAACCT
*
60407836 TAAACCATAAACCA
1 TAAACCATAAACCT
*
60407850 TAAACCAT-AACCC
1 TAAACCATAAACCT
* * * *
60407863 TCAACTCTTAACCCC
1 TAAAC-CATAAACCT
* *
60407878 TAACCCCTAAACCT
1 TAAACCATAAACCT
* *
60407892 TAAACCTTAACCCT
1 TAAACCATAAACCT
* *
60407906 TAATCTATAAACCT
1 TAAACCATAAACCT
*
60407920 TAAACCATAAACCG
1 TAAACCATAAACCT
* *
60407934 TAACCCTTAAACCT
1 TAAACCATAAACCT
60407948 TAAACGCATAAA-CT
1 TAAAC-CATAAACCT
*
60407962 ATAAACCAT-AATCT
1 -TAAACCATAAACCT
60407976 TAAACCCATAA
1 TAAA-CCATAA
60407987 TCTATAAACC
Statistics
Matches: 148, Mismatches: 34, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
13 18 0.12
14 97 0.66
15 33 0.22
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:60407959 original size:8 final size:7
Alignment explanation
Indices: 60407829--60407972 Score: 92
Period size: 7 Copynumber: 20.4 Consensus size: 7
60407819 CCTCAACCTT
60407829 TAAACCA
1 TAAACCA
60407836 TAAACCA
1 TAAACCA
60407843 TAAACCA
1 TAAACCA
60407850 TAAACCA
1 TAAACCA
*
60407857 T-AACCC
1 TAAACCA
* *
60407863 TCAACTCT
1 TAAAC-CA
* *
60407871 TAACCCC
1 TAAACCA
* *
60407878 TAACCCC
1 TAAACCA
*
60407885 TAAACCT
1 TAAACCA
*
60407892 TAAACCT
1 TAAACCA
* *
60407899 TAACCCT
1 TAAACCA
* *
60407906 TAATCTA
1 TAAACCA
*
60407913 TAAACCT
1 TAAACCA
60407920 TAAACCA
1 TAAACCA
*
60407927 TAAACCG
1 TAAACCA
* *
60407934 TAACCCT
1 TAAACCA
*
60407941 TAAACCT
1 TAAACCA
60407948 TAAACGCA
1 TAAAC-CA
*
60407956 TAAACTA
1 TAAACCA
60407963 TAAACCA
1 TAAACCA
60407970 TAA
1 TAA
60407973 TCTTAAACCC
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
6 5 0.04
7 97 0.87
8 10 0.09
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:60407987 original size:14 final size:15
Alignment explanation
Indices: 60407948--60407996 Score: 66
Period size: 14 Copynumber: 3.4 Consensus size: 15
60407938 CCTTAAACCT
* *
60407948 TAAACGCATAAACTA
1 TAAACCCATAATCTA
60407963 TAAA-CCATAATCT-
1 TAAACCCATAATCTA
60407976 TAAACCCATAATCTA
1 TAAACCCATAATCTA
60407991 TAAACC
1 TAAACC
60407997 TTCAAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 4 0.13
14 16 0.53
15 10 0.33
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (15 bp):
TAAACCCATAATCTA
Found at i:60408030 original size:7 final size:7
Alignment explanation
Indices: 60408020--60408058 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
60408010 TCCTAAACTT
60408020 TAAACCC
1 TAAACCC
*
60408027 TAAACCA
1 TAAACCC
*
60408034 TATACCC
1 TAAACCC
*
60408041 TTAACCC
1 TAAACCC
60408048 TAAACCC
1 TAAACCC
60408055 TAAA
1 TAAA
60408059 TAATAATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:60408253 original size:41 final size:40
Alignment explanation
Indices: 60408207--60408305 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
60408197 GCGGTGCTTT
*
60408207 CTAATGGTCGACCTATAGCTTCGT-TTTTTCAAAAAGCGCCG
1 CTAATGGTCGACCTATA--ATCGTGTTTTTCAAAAAGCGCCG
* * * *
60408248 TTAATGGTCGACTTATAATGGTGTTTTTCAAAAAGCGCTG
1 CTAATGGTCGACCTATAATCGTGTTTTTCAAAAAGCGCCG
* *
60408288 CTAATGCTCGATCTATAA
1 CTAATGGTCGACCTATAA
60408306 ACGCCGCTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.06
40 30 0.62
41 15 0.31
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (40 bp):
CTAATGGTCGACCTATAATCGTGTTTTTCAAAAAGCGCCG
Found at i:60410766 original size:68 final size:68
Alignment explanation
Indices: 60410657--60410923 Score: 345
Period size: 68 Copynumber: 3.9 Consensus size: 68
60410647 GGGCTTCCTA
* * * *
60410657 GTTTACTGTCCTAGCAGACTTTGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
60410722 CAT
66 CAT
* * * * *
60410725 GTTTACTATCCTGGTAGACTTCGTATGTTGCCATAGCCCAACTATTGTCTTACACATTATGATAT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
60410790 CAT
66 CAT
* * **
60410793 GTTTACTGTCCTAACGGACTTCGTATGTTTTCATAGCCCAACTATGGTCTTACACATTATGATCT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
*
60410858 TAT
66 CAT
* * * * * * *
60410861 GTTTAATGTCCTGGCGGACTTCGTATGTTGCCATAGTCTAGCTATGGTCTTAAACATTATGAT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGAT
60410924 GACATGTACC
Statistics
Matches: 171, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 171 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (68 bp):
GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
CAT
Found at i:60410930 original size:136 final size:136
Alignment explanation
Indices: 60410657--60410923 Score: 381
Period size: 136 Copynumber: 2.0 Consensus size: 136
60410647 GGGCTTCCTA
* *
60410657 GTTTACTGTCCTAGCAGACTTTGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
1 GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
* * * *
60410722 CATGTTTACTATCCTGGTAGACTTCGTATGTTGCCATAGCCCAACTATTGTCTTACACATTATGA
66 CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
60410787 TATCAT
131 TATCAT
* ** * *
60410793 GTTTACTGTCCTAACGGACTTCGTATGTTTTCATAGCCCAACTATGGTCTTACACATTATGATCT
1 GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
* * * * * *
60410858 TATGTTTAATGTCCTGGCGGACTTCGTATGTTGCCATAGTCTAGCTATGGTCTTAAACATTATGA
66 CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
60410923 T
131 T
60410924 GACATGTACC
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
136 114 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (136 bp):
GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
TATCAT
Found at i:60417172 original size:14 final size:14
Alignment explanation
Indices: 60417149--60417187 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
60417139 TTAAATTTAT
60417149 TTAAAATAAAAATA
1 TTAAAATAAAAATA
*
60417163 TTAAATTAAAAATA
1 TTAAAATAAAAATA
60417177 --AAAATAAAAAT
1 TTAAAATAAAAAT
60417188 TATCATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAAAATA
Found at i:60417208 original size:27 final size:26
Alignment explanation
Indices: 60417137--60417209 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
60417127 GTCATATAGC
*
60417137 AATTAAATTTATTTAAAATAAAAATATTA
1 AATTAAA--TATTT-AAATAAAAATATCA
* **
60417166 AATTAAAAATAAAAATAAAAATTATCA
1 AATTAAATATTTAAATAAAAA-TATCA
*
60417193 TATTAAATATTTAAATA
1 AATTAAATATTTAAATA
60417210 TTAAAAATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 9 0.26
27 19 0.54
29 7 0.20
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
AATTAAATATTTAAATAAAAATATCA
Found at i:60417448 original size:19 final size:20
Alignment explanation
Indices: 60417426--60417482 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
60417416 ATTCTAAAAC
60417426 TTAAAAAAAAT-TAAAAATT
1 TTAAAAAAAATATAAAAATT
*
60417445 TTAAAAAATATATAAAAA-T
1 TTAAAAAAAATATAAAAATT
* *
60417464 TGAAAAAAAGTTATAAAAA
1 TTAAAAAAA-ATATAAAAA
60417483 ACGAAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAAAATATAAAAATT
Found at i:60417460 original size:20 final size:20
Alignment explanation
Indices: 60417426--60417482 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
60417416 ATTCTAAAAC
*
60417426 TTAAAAAAAAT-TAAAAATT
1 TTAAAAAATATATAAAAATT
60417445 TTAAAAAATATATAAAAATT
1 TTAAAAAATATATAAAAATT
**
60417465 GAAAAAAAGT-TATAAAAA
1 TTAAAAAA-TATATAAAAA
60417483 ACGAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.30
20 22 0.67
21 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAATATATAAAAATT
Found at i:60417574 original size:15 final size:16
Alignment explanation
Indices: 60417537--60417575 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
60417527 AATTTAATTT
*
60417537 TTTTATAATTTTAGAA
1 TTTTATAATTTGAGAA
*
60417553 TTATATAATTTGA-AA
1 TTTTATAATTTGAGAA
60417568 TTTTATAA
1 TTTTATAA
60417576 AAAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTTATAATTTGAGAA
Found at i:60417592 original size:21 final size:22
Alignment explanation
Indices: 60417567--60417635 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
60417557 ATAATTTGAA
60417567 ATTTTATAAAA-AATATTTTTAC
1 ATTTT-TAAAATAATATTTTTAC
* * *
60417589 TTTTTTAAAATACTTTTTTTAC
1 ATTTTTAAAATAATATTTTTAC
*
60417611 ATTTTTAAAATAATATTATTA-
1 ATTTTTAAAATAATATTTTTAC
60417632 ATTT
1 ATTT
60417636 CAAATAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 9 0.23
22 30 0.77
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTAAAATAATATTTTTAC
Done.