Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 313 of 349
Found at i:104520138 original size:28 final size:27
Alignment explanation
Indices: 104520074--104520138 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
104520064 ACACAAATTG
* * *
104520074 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
104520101 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
104520130 AAAATAAAA
1 AAAATAAAA
104520139 AATATATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:104521413 original size:30 final size:30
Alignment explanation
Indices: 104521377--104521433 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
104521367 GGATAAGAGG
*
104521377 GGAGTAAAAGTTTTGGGGGAAAAATAAGGA
1 GGAGTAAAAGTTTTGAGGGAAAAATAAGGA
104521407 GGAGTAAAAGTTTTGAGGGAAAAATAA
1 GGAGTAAAAGTTTTGAGGGAAAAATAA
104521434 AAAGGTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAATAAGGA
Found at i:104536758 original size:29 final size:29
Alignment explanation
Indices: 104536726--104536784 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
104536716 CTAAAACATG
104536726 AAAATTAGCTATACTAGCTGAATATTCAT
1 AAAATTAGCTATACTAGCTGAATATTCAT
*
104536755 AAAATTAGCTATGCTAGCTGAATATTCAT
1 AAAATTAGCTATACTAGCTGAATATTCAT
104536784 A
1 A
104536785 CATATTTCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (29 bp):
AAAATTAGCTATACTAGCTGAATATTCAT
Found at i:104537979 original size:24 final size:21
Alignment explanation
Indices: 104537939--104537992 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
104537929 AAATAAAATA
* *
104537939 ATAAAATAATAATAAATATCTT
1 ATAAAATATTAATAAATAAC-T
104537961 ATTAAAATATTAAATAAATAACT
1 A-TAAAATATT-AATAAATAACT
104537984 ATAAAATAT
1 ATAAAATAT
104537993 CACCAACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATATTAATAAATAACT
Found at i:104540625 original size:45 final size:43
Alignment explanation
Indices: 104540563--104540656 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 43
104540553 TTTTTTTTCC
* *
104540563 TTTTCTCCTTCCTTTCTCTTCTATCT-TCTCTACTATTCTCTTTTT
1 TTTTCTCCTTCCCTTCTCTT-T-TCTAT-TCTACTAGTCTCTTTTT
104540608 TTTTC-CCTTCTCCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
1 TTTTCTCCTTC-CCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
*
104540651 CTTTCT
1 TTTTCT
104540657 TTTTTACCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 23 0.53
44 7 0.16
45 13 0.30
ACGTcount: A:0.06, C:0.31, G:0.01, T:0.62
Consensus pattern (43 bp):
TTTTCTCCTTCCCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
Found at i:104542921 original size:26 final size:25
Alignment explanation
Indices: 104542868--104542923 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
104542858 ATATTATTTT
*
104542868 TATTTTTTAAATATTTAAAATATTA
1 TATTTTTTAAATATTTAAAATATCA
104542893 TATTTTTT-AATATTATTAAACATA-CA
1 TATTTTTTAAATA-T-TTAAA-ATATCA
104542919 TATTT
1 TATTT
104542924 AATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 9 0.33
26 11 0.41
27 3 0.11
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTTTTAAATATTTAAAATATCA
Found at i:104543533 original size:32 final size:33
Alignment explanation
Indices: 104543497--104543568 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
104543487 AACTTTTATG
104543497 AAATATTTT-TA-AGAAATC-TACCAAACAACAGA
1 AAATATTTTATACAG-AATCAT-CCAAACAACAGA
* *
104543529 AAATATTTTATACAGATTCATCCAAACACCAGA
1 AAATATTTTATACAGAATCATCCAAACAACAGA
104543562 AAATATT
1 AAATATT
104543569 AACTTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 9 0.26
33 23 0.66
34 3 0.09
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (33 bp):
AAATATTTTATACAGAATCATCCAAACAACAGA
Found at i:104550071 original size:18 final size:18
Alignment explanation
Indices: 104550048--104550086 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104550038 CTATTCAAAT
*
104550048 ATTTATTATTGGAATTT-A
1 ATTTATT-TTGAAATTTGA
104550066 ATTTATTTTGAAATTTGA
1 ATTTATTTTGAAATTTGA
104550084 ATT
1 ATT
104550087 CAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTATTTTGAAATTTGA
Found at i:104551006 original size:17 final size:16
Alignment explanation
Indices: 104550978--104551015 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
104550968 TTGAATCGAT
104550978 TTTTTTATTTTTAATATA
1 TTTTTTATTTTT-ATA-A
104550996 TTTTTTA-TTTTATAA
1 TTTTTTATTTTTATAA
104551011 TTTTT
1 TTTTT
104551016 AACAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTATAA
Found at i:104556363 original size:5 final size:5
Alignment explanation
Indices: 104556353--104556391 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
104556343 GCCTAAGATG
* *
104556353 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
104556392 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:104557012 original size:25 final size:24
Alignment explanation
Indices: 104556984--104557040 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
104556974 ATGGCTATCT
*
104556984 GGAGCTTCCCAATTAATGGCTCTTC
1 GGAGCTTCCC-ATTAATGGCTCTTA
* * *
104557009 GGAGCTACCCGTTATTGGCTCTTA
1 GGAGCTTCCCATTAATGGCTCTTA
*
104557033 TGAGCTTC
1 GGAGCTTC
104557041 TCGTTATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (24 bp):
GGAGCTTCCCATTAATGGCTCTTA
Found at i:104557037 original size:24 final size:24
Alignment explanation
Indices: 104557000--104557047 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
104556990 TCCCAATTAA
*
104557000 TGGCTCTTCGGAGCTACCCGTTAT
1 TGGCTCTTAGGAGCTACCCGTTAT
* * *
104557024 TGGCTCTTATGAGCTTCTCGTTAT
1 TGGCTCTTAGGAGCTACCCGTTAT
104557048 ACAACCTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (24 bp):
TGGCTCTTAGGAGCTACCCGTTAT
Found at i:104561649 original size:46 final size:46
Alignment explanation
Indices: 104561592--104561758 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
104561582 ACACACCGTA
104561592 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
104561638 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
104561691 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
104561737 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
104561759 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:104562895 original size:23 final size:21
Alignment explanation
Indices: 104562825--104562907 Score: 98
Period size: 20 Copynumber: 4.0 Consensus size: 21
104562815 TGATCAGTAT
*
104562825 ACGACACATAA-GTGCCTGAA
1 ACGACACACAAGGTGCCTGAA
*
104562845 ACGACACACGAGGTGCCTG-A
1 ACGACACACAAGGTGCCTGAA
104562865 ACGACACACAAGGTGCCTGAAA
1 ACGACACACAAGGTGCCTG-AA
* *
104562887 TACGACACATAAAGTGCCTGA
1 -ACGACACACAAGGTGCCTGA
104562908 TCAGTATAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 28 0.52
21 7 0.13
22 2 0.04
23 17 0.31
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (21 bp):
ACGACACACAAGGTGCCTGAA
Found at i:104562904 original size:43 final size:40
Alignment explanation
Indices: 104562825--104562907 Score: 103
Period size: 43 Copynumber: 2.0 Consensus size: 40
104562815 TGATCAGTAT
* * *
104562825 ACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGA
1 ACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGA
*
104562865 ACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTGA
1 ACGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTGA
104562908 TCAGTATAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 10 0.28
41 7 0.19
42 2 0.06
43 17 0.47
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (40 bp):
ACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGA
Found at i:104563191 original size:29 final size:28
Alignment explanation
Indices: 104563110--104563191 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
104563100 AACACACCAG
*
104563110 ATAATCCTCCAAAACACACCAGTATCAT
1 ATAATCCTCCAAAACACACCAGAATCAT
* *
104563138 ATAATCCTCCCAAACACACTAGAATCAT
1 ATAATCCTCCAAAACACACCAGAATCAT
104563166 ATAATCCATCCAAAACACACCAGAAT
1 ATAATCC-TCCAAAACACACCAGAAT
104563192 AGCACAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.67
29 16 0.33
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.20
Consensus pattern (28 bp):
ATAATCCTCCAAAACACACCAGAATCAT
Found at i:104566101 original size:53 final size:47
Alignment explanation
Indices: 104566013--104566213 Score: 199
Period size: 47 Copynumber: 4.2 Consensus size: 47
104566003 TGGTTGGACC
* * *
104566013 ATGGCAACA-TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGAT
*
104566060 ATGGCATCAGAGAGATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC----AG-TGTGA-TATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * *
104566113 ATGGCATCAGTGTGATATATACTACTGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * *
104566160 ATGGCATCAGTGAGATATGTGATT-CGTGTAAGACCATAGCTGAGCT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
104566206 ATGGCATC
1 ATGGCATC
104566214 GATATGTCAT
Statistics
Matches: 129, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
46 25 0.19
47 54 0.42
48 5 0.04
49 2 0.02
51 1 0.01
53 36 0.28
54 6 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
Found at i:104566256 original size:49 final size:48
Alignment explanation
Indices: 104566174--104566267 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 48
104566164 CATCAGTGAG
*
104566174 ATATGTGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGTC
1 ATATGAGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGTC
* * * * *
104566222 ATATGAGATTACGTGTAAGGCTATAGTTGGGCTATGGTATCGATAT
1 ATATGAGATT-CGTGTAAGACCATAGCTGAGCTATGGCATCGATAT
104566268 ATGAATATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 9 0.23
49 30 0.77
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGAGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGTC
Found at i:104566281 original size:42 final size:42
Alignment explanation
Indices: 104566234--104566334 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
104566224 ATGAGATTAC
* * **
104566234 GTGTAAGGCTATAGTTGGGCTATGGTATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGACATC-ATTATATGAATAT
* *
104566276 GTGTAAGACCATAGCTGGGCTATGACATCATTATGTGAATAT
1 GTGTAAGACCATAGTTGGGCTATGACATCATTATATGAATAT
104566318 GTGTAAGACCATAGTTG
1 GTGTAAGACCATAGTTG
104566335 AACTACGGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGACATCATTATATGAATAT
Found at i:104571586 original size:25 final size:25
Alignment explanation
Indices: 104571558--104571617 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
104571548 CAGACATTAC
* * * *
104571558 GCCACATAGGCTTTACAGGTAAATT
1 GCCACAAAGGATTCACAAGTAAATT
*
104571583 GCCACAAAGGATTCCCAAGTAAATT
1 GCCACAAAGGATTCACAAGTAAATT
*
104571608 GCCACGAAGG
1 GCCACAAAGG
104571618 CACCTATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (25 bp):
GCCACAAAGGATTCACAAGTAAATT
Found at i:104574877 original size:24 final size:23
Alignment explanation
Indices: 104574849--104574916 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
104574839 TACCTCGACT
104574849 ATTGTACTCATCTTCATCTCCACC
1 ATTGT-CTCATCTTCATCTCCACC
* * * *
104574873 CTTGTTTACATATTTATCTCCACC
1 ATTGTCT-CATCTTCATCTCCACC
*
104574897 ATTGGCTTCATCTTCATCTC
1 ATTGTC-TCATCTTCATCTC
104574917 TACTGTCTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.19, C:0.32, G:0.06, T:0.43
Consensus pattern (23 bp):
ATTGTCTCATCTTCATCTCCACC
Found at i:104595900 original size:11 final size:11
Alignment explanation
Indices: 104595884--104595934 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
104595874 TAATATATTT
104595884 AAAAATTTATA
1 AAAAATTTATA
*
104595895 AAAAA-TCAT-
1 AAAAATTTATA
*
104595904 -AAAATTATAAA
1 AAAAATT-TATA
104595915 AAAAATTTATA
1 AAAAATTTATA
104595926 AAAAATTTA
1 AAAAATTTA
104595935 AAACTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 4 0.12
9 1 0.03
10 4 0.12
11 17 0.53
12 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTTATA
Found at i:104595937 original size:30 final size:31
Alignment explanation
Indices: 104595884--104595943 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
104595874 TAATATATTT
*
104595884 AAAAATTTATAAAAAATCATAAAATTATAAA
1 AAAAATTTATAAAAAATCATAAAACTATAAA
*
104595915 AAAAATTTATAAAAAAT-TTAAAACTATAA
1 AAAAATTTATAAAAAATCATAAAACTATAA
104595944 TCTTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (31 bp):
AAAAATTTATAAAAAATCATAAAACTATAAA
Found at i:104596081 original size:13 final size:13
Alignment explanation
Indices: 104596063--104596087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104596053 AGACAAAATT
104596063 TTTATAATTTTTG
1 TTTATAATTTTTG
104596076 TTTATAATTTTT
1 TTTATAATTTTT
104596088 TATGATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:104597330 original size:19 final size:21
Alignment explanation
Indices: 104597297--104597335 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
104597287 ATAAATTTGA
*
104597297 TATTTGTTAATATTT-TATTT
1 TATTTGTTAACATTTATATTT
104597317 TATTT-TTAACATTTATATT
1 TATTTGTTAACATTTATATT
104597336 CATTACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTGTTAACATTTATATTT
Found at i:104602372 original size:91 final size:89
Alignment explanation
Indices: 104602258--104602428 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 89
104602248 GTTGAAGTTA
104602258 TTTTCAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGTACCAAA
1 TTTTCAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGT-CCAAA
104602323 TCATCGTAAAAAAAAATTTAATTAT
65 TCATCGTAAAAAAAAATTTAATTAT
* *
104602348 TTTTGCAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGTTCAAA
1 TTTT-CAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGTCCAAA
104602413 TCATCGTAAAAAAAAA
65 TCATCGTAAAAAAAAA
104602429 CCTATTTTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
90 24 0.31
91 54 0.69
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (89 bp):
TTTTCAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGTCCAAAT
CATCGTAAAAAAAAATTTAATTAT
Found at i:104602382 original size:16 final size:17
Alignment explanation
Indices: 104602335--104602384 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
104602325 ATCGTAAAAA
104602335 AAAATTTAATTATTTTTGC
1 AAAA-TTAA-TATTTTTGC
*
104602354 AAAATTAAAATTTTTG-
1 AAAATTAATATTTTTGC
104602370 AAAA-TATATATTTTT
1 AAAATTA-ATATTTTT
104602385 AATTTTGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 7 0.25
18 4 0.14
19 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
AAAATTAATATTTTTGC
Found at i:104602673 original size:72 final size:72
Alignment explanation
Indices: 104602589--104602733 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
104602579 TTTTGATTTC
104602589 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
1 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
104602654 TTAGTTT
66 TTAGTTT
104602661 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
1 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
104602726 TTAGTTT
66 TTAGTTT
104602733 A
1 A
104602734 AAAAAGGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (72 bp):
ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
TTAGTTT
Found at i:104606026 original size:12 final size:13
Alignment explanation
Indices: 104605998--104606031 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
104605988 AAATAAATTT
*
104605998 ATTTAATATACTA
1 ATTTAATTTACTA
104606011 ATTTAATTTA-TA
1 ATTTAATTTACTA
104606023 ATTTAATTT
1 ATTTAATTT
104606032 TTACCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTAATTTACTA
Found at i:104609401 original size:65 final size:65
Alignment explanation
Indices: 104609320--104609451 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
104609310 GTCTCTTTCC
* * *
104609320 AATCAATTAATAACATGTCAGTTAATTTTTACATGTTATTTACATCTCATTTAATTAGATTTTTT
1 AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
* * *
104609385 AATCATTTAATGACATGTTAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
1 AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
104609450 AA
1 AA
104609452 CCATAAATCC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (65 bp):
AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
Found at i:104609620 original size:60 final size:60
Alignment explanation
Indices: 104609520--104609758 Score: 302
Period size: 60 Copynumber: 4.0 Consensus size: 60
104609510 CACGTCTCTG
** * *
104609520 CCCTGCTGCTATTA-TTTTTTCGGCAATTGCTTTTTTTGCCTCTTCGCGTCTCTTTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGC-TTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * *
104609580 CCCCGCTGCTATTATTTTTTTCGACAATTGCTTTGCTGCCTCTTCACCTCTCTCTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * *
104609640 CCCTACTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTTTTCACGTCTCTCTACAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * * * * * *
104609700 CCTTGTTGCTATT-TTTTTTCCGTCAACTACTTTTCTGCCTCTTCACGTCTCTCTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
104609759 ACCTATTGAT
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
59 39 0.25
60 101 0.65
61 15 0.10
ACGTcount: A:0.13, C:0.31, G:0.12, T:0.44
Consensus pattern (60 bp):
CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
Found at i:104609779 original size:119 final size:121
Alignment explanation
Indices: 104609529--104609778 Score: 301
Period size: 119 Copynumber: 2.1 Consensus size: 121
104609519 GCCCTGCTGC
** * * *
104609529 TATTA-TTTTTTCGGCAATTGCTTTTTTTGCCTCTTCGCGTCTCTTTGCAACCCCCGCTGCTATT
1 TATTATTTTTTTCGGCAATTGCTTTTGCTGCCTCTTCACGTCTCTCTACAACCCCCGCTGCTATT
* * * * *
104609593 ATTTTTTTCGACAATTGCTTTGCTGCCTCTTCACCTCTCTCTGCAACCCCTACTGC
66 ATTTTTTCCGACAACTACTTTGCTGCCTCTTCACCTCTCTCTGCAACACCTACTGA
* ** *
104609649 TATTATTTTTTTCGGCAATTGC-TTTGCTGCCTTTTCACGTCTCTCTACAACCCTTGTTGCTATT
1 TATTATTTTTTTCGGCAATTGCTTTTGCTGCCTCTTCACGTCTCTCTACAACCCCCGCTGCTATT
* * * *
104609713 -TTTTTTCCGTCAACTACTTTTCTGCCTCTTCACGTCTCTCTGCAACACCTATTGA
66 ATTTTTTCCGACAACTACTTTGCTGCCTCTTCACCTCTCTCTGCAACACCTACTGA
*
104609768 T-TTGTTTTTTT
1 TATTATTTTTTT
104609779 TTTCGATGTG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
118 9 0.08
119 47 0.43
120 38 0.35
121 16 0.15
ACGTcount: A:0.13, C:0.29, G:0.12, T:0.46
Consensus pattern (121 bp):
TATTATTTTTTTCGGCAATTGCTTTTGCTGCCTCTTCACGTCTCTCTACAACCCCCGCTGCTATT
ATTTTTTCCGACAACTACTTTGCTGCCTCTTCACCTCTCTCTGCAACACCTACTGA
Found at i:104614757 original size:65 final size:65
Alignment explanation
Indices: 104614653--104614786 Score: 232
Period size: 65 Copynumber: 2.1 Consensus size: 65
104614643 AGGGATTTAA
104614653 GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
1 GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
* * * *
104614718 GATTAAAAAATCTAATTAAATGAGGTGTAATTGACATGTAAAAATTAGCTGACATGTCATTAATT
1 GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
104614783 GATT
1 GATT
104614787 GGGAAATGAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (65 bp):
GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
Found at i:104618108 original size:58 final size:58
Alignment explanation
Indices: 104618041--104618155 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
104618031 AAGGCATATA
* * *
104618041 AATCTTCGAGTTGTTTTGAAGTTAGTCATATTTTCTAAAACACTCAGTTGAGAATGTG
1 AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAAACACTCAGTTGAGAATGTG
* * * *
104618099 AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAGATACTTAGTTGGGAATGT
1 AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAAACACTCAGTTGAGAATGT
104618156 AAATTCGTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (58 bp):
AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAAACACTCAGTTGAGAATGTG
Found at i:104618382 original size:70 final size:70
Alignment explanation
Indices: 104618213--104618391 Score: 164
Period size: 70 Copynumber: 2.6 Consensus size: 70
104618203 AAAAAAATGA
* * * * ** * * *
104618213 CTAGGAGCTTTTGACTCTCGCTAGTTATTTGGGTGGTGTGGTATTGAACCTGCGAGCCTTAGAAT
1 CTAGGAGCTTTTAACTCTCACTAATTATTTGGGTGCTACGATATTGAACCTACAAGCCTTAGAAT
*
104618278 AAGAG
66 AACAG
* * * * * * *
104618283 -TTGTGAGCTTTTAACTTTTGA-TCACTATTTGGTTGCTACGATATTGAACCTATAAGCCTTAGA
1 CTAG-GAGCTTTTAAC-TCTCACTAATTATTTGGGTGCTACGATATTGAACCTACAAGCCTTAGA
104618346 ATAACAG
64 ATAACAG
*
104618353 CTAGGAGCTTTTAACTCTCACTAATTATTTGGGGGCTAC
1 CTAGGAGCTTTTAACTCTCACTAATTATTTGGGTGCTAC
104618392 AGGTATAAGA
Statistics
Matches: 81, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
69 5 0.06
70 72 0.89
71 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (70 bp):
CTAGGAGCTTTTAACTCTCACTAATTATTTGGGTGCTACGATATTGAACCTACAAGCCTTAGAAT
AACAG
Found at i:104618568 original size:69 final size:70
Alignment explanation
Indices: 104618424--104618604 Score: 197
Period size: 69 Copynumber: 2.6 Consensus size: 70
104618414 TAGTTGTGAG
* * * *
104618424 CTTTTAACTCTCGTTAACTATTTGGGGATTGCAGTATTGAACCTGCGAGTCTTAGAATAATAGCT
1 CTTTTAACTCTCGCTAACTATTTGGGGATTGCAGTATTAAACCTACGAGCCTTAGAATAATAGCT
**
104618489 GGGAA
66 GACAA
* * *
104618494 CTTTTAACTCTCGCTAACTGTTTGGGGCTATG-A-TATTAAACCTACGAGCCTTAGAATGATAGC
1 CTTTTAACTCTCGCTAACTATTTGGGGAT-TGCAGTATTAAACCTACGAGCCTTAGAATAATAGC
*
104618557 TGACAG
65 TGACAA
* * * *
104618563 TTTTTAACTTTCGCCAACTATTTGGGGGA-TGCGGTATTAAAC
1 CTTTTAACTCTCGCTAACTATTT-GGGGATTGCAGTATTAAAC
104618605 TTGTGAGCCA
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
68 2 0.02
69 48 0.53
70 39 0.43
71 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (70 bp):
CTTTTAACTCTCGCTAACTATTTGGGGATTGCAGTATTAAACCTACGAGCCTTAGAATAATAGCT
GACAA
Found at i:104625245 original size:52 final size:49
Alignment explanation
Indices: 104625160--104625526 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
104625150 TTTGAGTACT
* **
104625160 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
104625206 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104625258 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104625304 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
104625350 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104625402 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
104625454 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104625500 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
104625527 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:104625280 original size:98 final size:97
Alignment explanation
Indices: 104625160--104625526 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
104625150 TTTGAGTACT
* *
104625160 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
104625225 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
104625258 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
104625318 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
104625350 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
104625415 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
104625454 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
104625519 GATAAGTG
65 GA-AAGTG
104625527 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:104625508 original size:196 final size:196
Alignment explanation
Indices: 104625174--104625526 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
104625164 ATCAAGTGAT
* * *
104625174 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
104625239 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
104625304 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
104625369 G
196 G
* *
104625370 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
104625435 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
104625500 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
104625527 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:104625534 original size:37 final size:37
Alignment explanation
Indices: 104625490--104625635 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
104625480 GATAGCTTTA
*
104625490 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
104625527 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
104625564 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
104625601 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
104625636 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:104625563 original size:150 final size:149
Alignment explanation
Indices: 104625160--104625515 Score: 467
Period size: 150 Copynumber: 2.4 Consensus size: 149
104625150 TTTGAGTACT
* * * * *
104625160 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
104625225 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
104625283 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
104625304 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
104625369 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
104625433 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
104625454 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
104625516 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 91 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:104626967 original size:58 final size:58
Alignment explanation
Indices: 104626890--104627057 Score: 246
Period size: 58 Copynumber: 3.0 Consensus size: 58
104626880 CATGTGAACA
104626890 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
104626949 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* *
104627005 TGTG--A--T--TT-CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
104627056 TG
1 TG
104627058 ATTACGTGTA
Statistics
Matches: 105, Mismatches: 2, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
49 39 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:104626999 original size:28 final size:28
Alignment explanation
Indices: 104626909--104626999 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
104626899 GTGATTCCGT
104626909 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
104626937 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
104626966 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
104626995 GTAAG
1 GTAAG
104627000 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:104627022 original size:49 final size:49
Alignment explanation
Indices: 104626950--104627092 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
104626940 AGTGATATGT
*
104626950 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
104626999 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
104627048 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
104627093 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:104630303 original size:52 final size:49
Alignment explanation
Indices: 104630218--104630584 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
104630208 TTTGAGTACT
* **
104630218 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
104630264 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104630316 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104630362 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
104630408 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104630460 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
104630512 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
104630558 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
104630585 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:104630338 original size:98 final size:97
Alignment explanation
Indices: 104630218--104630584 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
104630208 TTTGAGTACT
* *
104630218 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
104630283 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
104630316 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
104630376 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
104630408 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
104630473 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
104630512 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
104630577 GATAAGTG
65 GA-AAGTG
104630585 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:104630566 original size:196 final size:196
Alignment explanation
Indices: 104630232--104630584 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
104630222 ATCAAGTGAT
* * *
104630232 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
104630297 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
104630362 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
104630427 G
196 G
* *
104630428 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
104630493 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
104630558 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
104630585 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:104630592 original size:37 final size:37
Alignment explanation
Indices: 104630548--104630692 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
104630538 GATAGCTTTA
*
104630548 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
104630585 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
104630622 GCTACACTTATCTGATCAAGAAACAAAGTGAT-AGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
104630658 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
104630693 ATCATACGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
34 7 0.07
35 8 0.08
36 21 0.20
37 68 0.65
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:104630621 original size:150 final size:149
Alignment explanation
Indices: 104630218--104630573 Score: 467
Period size: 150 Copynumber: 2.4 Consensus size: 149
104630208 TTTGAGTACT
* * * * *
104630218 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
104630283 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
104630341 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
104630362 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
104630427 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
104630491 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
104630512 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
104630574 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 91 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:104631832 original size:42 final size:42
Alignment explanation
Indices: 104631785--104631907 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
104631775 GAAGGCCACA
* * *
104631785 CAGAAGCACATAAGTGCTAAACGAAAATCCGTAAGGGTTGAT
1 CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGAT
* * * * * *
104631827 CAGAAGCTCATAGGAGCTGACCGAAAACCCATAAGGGTTAAA
1 CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGAT
* * * * *
104631869 CTGAAGCTCAAAAGAGCTAAACGGAAACCCATTAGGGTT
1 CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTT
104631908 AAATTGAAAC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.17
Consensus pattern (42 bp):
CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGAT
Found at i:104634175 original size:21 final size:21
Alignment explanation
Indices: 104634151--104634202 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
104634141 CTTGAGCAAC
*
104634151 CATTTGCTTCATTATGAATCT
1 CATTTGCTCCATTATGAATCT
104634172 CATTTGCTCCATTATGAATCT
1 CATTTGCTCCATTATGAATCT
104634193 CATTTGCTCC
1 CATTTGCTCC
104634203 TAGAGGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (21 bp):
CATTTGCTCCATTATGAATCT
Found at i:104635212 original size:29 final size:30
Alignment explanation
Indices: 104635179--104635251 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
104635169 GCATAAGGGT
*
104635179 AAAATAGTCATTTTGCC-AAGTCTAGGGGC
1 AAAATGGTCATTTTGCCAAAGTCTAGGGGC
* *
104635208 AAAATGGTTATTTTGCCAAAGTCTTGGGGC
1 AAAATGGTCATTTTGCCAAAGTCTAGGGGC
104635238 AAAATGGTCATTTT
1 AAAATGGTCATTTT
104635252 ACTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (30 bp):
AAAATGGTCATTTTGCCAAAGTCTAGGGGC
Found at i:104637320 original size:5 final size:5
Alignment explanation
Indices: 104637271--104637302 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
104637261 TTATTATTGG
104637271 TTATAT TTATT TTATT TTATT TTATT TTATT T
1 TTAT-T TTATT TTATT TTATT TTATT TTATT T
104637303 CATTCTGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:104642097 original size:13 final size:13
Alignment explanation
Indices: 104642062--104642098 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
104642052 TTTTCAAGAG
*
104642062 AATTCTTTAATCA
1 AATTCTTTAGTCA
104642075 AATTCTTTAGTCA
1 AATTCTTTAGTCA
104642088 AATTCTTTAGT
1 AATTCTTTAGT
104642099 TGAATAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (13 bp):
AATTCTTTAGTCA
Found at i:104649641 original size:21 final size:20
Alignment explanation
Indices: 104649611--104649666 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
104649601 AAGAAGGAAT
*
104649611 GAGCTGAAACGAGTTAAATTC
1 GAGCTCAAACGAGTTAAA-TC
* *
104649632 GAGCTCAAACGAGCTGAATC
1 GAGCTCAAACGAGTTAAATC
* *
104649652 GAACTCAAGCGAGTT
1 GAGCTCAAACGAGTT
104649667 GATGGAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGCTCAAACGAGTTAAATC
Found at i:104662403 original size:9 final size:9
Alignment explanation
Indices: 104662389--104662443 Score: 75
Period size: 9 Copynumber: 6.7 Consensus size: 9
104662379 TTTACTTTTA
104662389 ATTTTTAAT
1 ATTTTTAAT
104662398 ATTTTTAAT
1 ATTTTTAAT
104662407 ATTTTTAAT
1 ATTTTTAAT
104662416 ATTTTT-A-
1 ATTTTTAAT
104662423 ATTTTT-A-
1 ATTTTTAAT
104662430 ATTTTTAAT
1 ATTTTTAAT
104662439 -TTTTT
1 ATTTTT
104662444 TCTATGATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.30
8 7 0.16
9 24 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:104662405 original size:16 final size:16
Alignment explanation
Indices: 104662384--104662442 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 16
104662374 TGGATTTTAC
104662384 TTTTAATTTTTAATAT
1 TTTTAATTTTTAATAT
104662400 TTTTAATATTTTTAATAT
1 TTTT-A-ATTTTTAATAT
104662418 TTTTAATTTTT-A-AT
1 TTTTAATTTTTAATAT
104662432 TTTTAATTTTT
1 TTTTAATTTTT
104662443 TTCTATGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.32
15 1 0.02
16 10 0.24
17 2 0.05
18 15 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTTAATAT
Found at i:104662434 original size:6 final size:7
Alignment explanation
Indices: 104662384--104662442 Score: 64
Period size: 7 Copynumber: 7.6 Consensus size: 7
104662374 TGGATTTTAC
104662384 TTTTAAT
1 TTTTAAT
104662391 TTTTAATAT
1 TTTT-A-AT
104662400 TTTTAATAT
1 TTTT-A-AT
104662409 TTTTAATAT
1 TTTT-A-AT
104662418 TTTTAAT
1 TTTTAAT
104662425 TTTTAAT
1 TTTTAAT
104662432 TTTTAAT
1 TTTTAAT
104662439 TTTT
1 TTTT
104662443 TTCTATGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
7 24 0.48
8 2 0.04
9 24 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:104662444 original size:16 final size:16
Alignment explanation
Indices: 104662384--104662435 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
104662374 TGGATTTTAC
104662384 TTTTAATTTTTAATATT
1 TTTTAATTTTTAAT-TT
* *
104662401 TTTAATATTTTTAATAT
1 TTTTA-ATTTTTAATTT
104662418 TTTTAATTTTTAATTT
1 TTTTAATTTTTAATTT
104662434 TT
1 TT
104662436 AATTTTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 12 0.40
17 9 0.30
18 9 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTTAATTT
Found at i:104664939 original size:6 final size:6
Alignment explanation
Indices: 104664928--104664953 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
104664918 AAATTGTGTA
104664928 TGAAAT TGAAAT TGAAAT TGAAAT TG
1 TGAAAT TGAAAT TGAAAT TGAAAT TG
104664954 GATTAAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (6 bp):
TGAAAT
Found at i:104669927 original size:47 final size:46
Alignment explanation
Indices: 104669796--104669994 Score: 168
Period size: 47 Copynumber: 4.2 Consensus size: 46
104669786 ATAGTGAAAC
* * * * * *
104669796 TATGGTCTTGCAC-ATAGTCACATATCACACACCGAAGCCATAGCTCGGC
1 TATGGTCTTACACGA-AG-CACATATCACACA--GATGCCATATCCCAGA
* * * *
104669845 TATAGTCTTACACGGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACGAAGCACATATCACACAGATGCCATATCCCAGA
*
104669891 TATGGTCTTACACAGAAGCACATATCATACAGATGCCATATCCCAGA
1 TATGGTCTTACAC-GAAGCACATATCACACAGATGCCATATCCCAGA
* * * * * *
104669938 TATGGTCTTATACGGAAGCTCATATCACACCGACGTCATAGT-CCAGC
1 TATGGTCTTACAC-GAAGCACATATCACACAGATGCCATA-TCCCAGA
104669985 TATGGTCTTA
1 TATGGTCTTA
104669995 TACAAAAATC
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
46 23 0.19
47 76 0.61
48 13 0.10
49 12 0.10
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (46 bp):
TATGGTCTTACACGAAGCACATATCACACAGATGCCATATCCCAGA
Found at i:104669995 original size:47 final size:47
Alignment explanation
Indices: 104669862--104670014 Score: 182
Period size: 47 Copynumber: 3.2 Consensus size: 47
104669852 TTACACGGAT
* *
104669862 CACATATCACACTGATGCCATATCCCAGATATGGTCTTACACAGAAG
1 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
104669909 CACATATCATACAGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * * * * * *
104669956 CTCATATCACACCGACGTCATAGT-CCAGCTATGGTCTTATACAAAAAT
1 CACATATCACACAGATGCCATA-TCCCAGATATGGTCTTATAC-AGAAG
104670004 CACATATCACA
1 CACATATCACA
104670015 TGTTGCCATG
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
47 77 0.86
48 13 0.14
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:104674136 original size:30 final size:30
Alignment explanation
Indices: 104674102--104674162 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
104674092 CTTATTTTCA
*
104674102 TGTTAATTTTGTTATTATTTTAAATGCATT
1 TGTTAATTTTGTTATTATTTTAAAGGCATT
* *
104674132 TGTTAATTTTTTTATTATTTTAGAGGCATT
1 TGTTAATTTTGTTATTATTTTAAAGGCATT
104674162 T
1 T
104674163 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGGCATT
Found at i:104679265 original size:16 final size:17
Alignment explanation
Indices: 104679236--104679277 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
104679226 AATTTTATAG
104679236 TAGTTA-TT-TTATGC-
1 TAGTTATTTATTATGCT
104679250 TAGTTATTTATTATGCT
1 TAGTTATTTATTATGCT
104679267 TA-TTATTTATT
1 TAGTTATTTATT
104679278 CCATTTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.24
15 2 0.08
16 15 0.60
17 2 0.08
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (17 bp):
TAGTTATTTATTATGCT
Found at i:104683940 original size:5 final size:5
Alignment explanation
Indices: 104683930--104683954 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104683920 TCTTATATTG
104683930 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
104683955 TGTAATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:104696573 original size:218 final size:215
Alignment explanation
Indices: 104696145--104696581 Score: 574
Period size: 218 Copynumber: 2.0 Consensus size: 215
104696135 TGTACTAAAC
* * *
104696145 TTTGTCTTGTTTTGGATCCAAAGCGACCGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
1 TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
* * * *
104696210 ACAACAAGTGCTAGTTTTGGAACTTTAATATTAATGTAAGACTATTATTAGTTAGTTATTCGTAC
66 ACAACAAGTGCCAGATTTGGAACTTTAATATTAATGTAAGAATATTATTAGTTAGTTATTAGTAC
* * * *
104696275 ATTAAGATACTGAGAACAAAAGGATATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAG
131 ATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAA
*
104696340 GGTTCTCGGCTTCTACCTGA
196 GGTTCTCGACTTCTACCTGA
* * *
104696360 TTTGTCTTGTTGTGGATCCAAAGCCAGAGGATGAAACTA-GTAAACAAGAAACTTGCAGATGGCT
1 TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
* * * * *
104696424 AGAACATGTTGTGCCAGATTTGGAACTTTAGTATTAATGTAAGAATGTTATTATTTAGTTATTAG
66 ACAACA---AGTGCCAGATTTGGAACTTTAATATTAATGTAAGAATATTATTAGTTAGTTATTAG
* * * *
104696489 TTACATTAAGATACTGAAAAAAAAAGTAGATGTGGAACCAACACAAAAAGGAA-AAAAAGTTGCA
128 -TACATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAA--AGCA
*
104696553 TTGAAAGG-TCTCTACTTCTACCTGA
190 TTGAAAGGTTCTCGACTTCTACCTGA
104696578 TTTG
1 TTTG
104696582 GTCAGTCACT
Statistics
Matches: 191, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
214 29 0.15
215 34 0.18
217 53 0.28
218 65 0.34
219 10 0.05
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (215 bp):
TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
ACAACAAGTGCCAGATTTGGAACTTTAATATTAATGTAAGAATATTATTAGTTAGTTATTAGTAC
ATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAA
GGTTCTCGACTTCTACCTGA
Found at i:104701943 original size:9 final size:9
Alignment explanation
Indices: 104701929--104702087 Score: 78
Period size: 9 Copynumber: 17.4 Consensus size: 9
104701919 TATGTGGCAA
104701929 AAAAATTAT
1 AAAAATTAT
104701938 -AAAA--AT
1 AAAAATTAT
*
104701944 AAAAATCAAT
1 AAAAAT-TAT
*
104701954 AAAATTTAT
1 AAAAATTAT
104701963 AAAAATTATT
1 AAAAATTA-T
**
104701973 AAATTTTAAT
1 AAAAATT-AT
104701983 AAAAA-TAT
1 AAAAATTAT
104701991 -AAAATATATT
1 AAAAAT-TA-T
* *
104702001 AAAATTTAG
1 AAAAATTAT
104702010 AAAAATATAT
1 AAAAAT-TAT
**
104702020 AAAAATCGT
1 AAAAATTAT
104702029 AAAAA-TAT
1 AAAAATTAT
*
104702037 AAAAAATAT
1 AAAAATTAT
*
104702046 AAAAAACTAT
1 -AAAAATTAT
**
104702056 AACATTTTAT
1 AA-AAATTAT
*
104702066 AAAAATCAT
1 AAAAATTAT
*
104702075 AAAAAATAT
1 AAAAATTAT
104702084 AAAA
1 AAAA
104702088 TACATAAAAA
Statistics
Matches: 112, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
6 2 0.02
7 8 0.07
8 12 0.11
9 43 0.38
10 42 0.38
11 5 0.04
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:104701967 original size:10 final size:10
Alignment explanation
Indices: 104701954--104702071 Score: 54
Period size: 10 Copynumber: 12.5 Consensus size: 10
104701944 AAAAATCAAT
104701954 AAAATTTATA
1 AAAATTTATA
*
104701964 AAAA-TTATT
1 AAAATTTATA
*
104701973 AAATTTTAATA
1 AAAATTT-ATA
104701984 AAAA--TAT-
1 AAAATTTATA
* *
104701991 AAAATATATT
1 AAAATTTATA
*
104702001 AAAATTTAGA
1 AAAATTTATA
*
104702011 AAAATATATA
1 AAAATTTATA
**
104702021 AAAA-TCGTA
1 AAAATTTATA
104702030 AAAA--TATA
1 AAAATTTATA
*
104702038 AAAA-ATATA
1 AAAATTTATA
**
104702047 AAAAACTATA
1 AAAATTTATA
* *
104702057 ACATTTTATA
1 AAAATTTATA
104702067 AAAAT
1 AAAAT
104702072 CATAAAAAAT
Statistics
Matches: 80, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
7 4 0.05
8 8 0.10
9 25 0.31
10 38 0.47
11 5 0.06
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTTATA
Found at i:104701976 original size:18 final size:18
Alignment explanation
Indices: 104701929--104702049 Score: 72
Period size: 19 Copynumber: 6.7 Consensus size: 18
104701919 TATGTGGCAA
104701929 AAAAATTATAAAA---AT
1 AAAAATTATAAAATTTAT
*
104701944 AAAAATCAATAAAATTTAT
1 AAAAAT-TATAAAATTTAT
*
104701963 AAAAATTATTAAATTTTAAT
1 AAAAATTA-TAAAATTT-AT
*
104701983 AAAAA-TATAAAATATATT
1 AAAAATTATAAAATTTA-T
* * *
104702001 AAAATTTAGAAAAATATAT
1 AAAAATTA-TAAAATTTAT
** *
104702020 AAAAATCGTAAAA-ATAT
1 AAAAATTATAAAATTTAT
*
104702037 AAAAAATATAAAA
1 AAAAATTATAAAA
104702050 AACTATAACA
Statistics
Matches: 83, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
15 6 0.07
16 6 0.07
17 15 0.18
18 16 0.19
19 25 0.30
20 15 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAAATTTAT
Found at i:104702035 original size:46 final size:46
Alignment explanation
Indices: 104701981--104702098 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
104701971 TTAAATTTTA
* **
104701981 ATAAAAATATAAAATATATTAAAATTTAGAAAAATATATAAAAATC
1 ATAAAAATATAAAATATATAAAAAACTAGAAAAATATATAAAAATC
* * * * * *
104702027 GTAAAAATATAAAAAATATAAAAAACTATAACATTTTATAAAAATC
1 ATAAAAATATAAAATATATAAAAAACTAGAAAAATATATAAAAATC
*
104702073 ATAAAAAATATAAAATACATAAAAAA
1 AT-AAAAATATAAAATATATAAAAAA
104702099 TGCCCTTTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 38 0.64
47 21 0.36
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (46 bp):
ATAAAAATATAAAATATATAAAAAACTAGAAAAATATATAAAAATC
Found at i:104702069 original size:28 final size:26
Alignment explanation
Indices: 104701929--104702097 Score: 110
Period size: 28 Copynumber: 6.2 Consensus size: 26
104701919 TATGTGGCAA
**
104701929 AAAAAT-TATAAAAATA-AAAATCAAT
1 AAAAATATA-AAAAATATAAAATTTAT
* * *
104701954 AAAATTTATAAAAATTATTAAATTTTAAT
1 AAAA-ATATAAAAAATA-TAAAATTT-AT
* *
104701983 AAAAATATAAAATATATTAAAATTTAG
1 AAAAATATAAAAAATA-TAAAATTTAT
* *
104702010 AAAAATATATAAAAATCGTAAAA-ATAT
1 AAAAATATA-AAAAAT-ATAAAATTTAT
*
104702037 AAAAAATATAAAAAACTATAACATTTTAT
1 -AAAAATATAAAAAA-TATAA-AATTTAT
**
104702066 AAAAATCATAAAAAATATAAAATACAT
1 AAAAAT-ATAAAAAATATAAAATTTAT
104702093 AAAAA
1 AAAAA
104702098 ATGCCCTTTA
Statistics
Matches: 112, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
25 4 0.04
26 7 0.06
27 31 0.28
28 53 0.47
29 17 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.30
Consensus pattern (26 bp):
AAAAATATAAAAAATATAAAATTTAT
Found at i:104702441 original size:27 final size:26
Alignment explanation
Indices: 104702411--104702503 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
104702401 TTCTTTATAT
*
104702411 TTTTTATGATTTTTGTAAAATTT-GTAA
1 TTTTTAT-ATTTTT-TAAAATTTAATAA
104702438 TTTTTAATATTTTATTAAAATTTAATAA
1 TTTTT-ATATTTT-TTAAAATTTAATAA
* * *
104702466 -TTTTATAATTTTATAAAATTTATTGA
1 TTTTTAT-ATTTTTTAAAATTTAATAA
104702492 TTTTTAT-TTTTT
1 TTTTTATATTTTT
104702504 ATAACTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.07
26 13 0.23
27 33 0.59
28 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTTATATTTTTTAAAATTTAATAA
Found at i:104702752 original size:88 final size:88
Alignment explanation
Indices: 104702600--104702781 Score: 244
Period size: 88 Copynumber: 2.1 Consensus size: 88
104702590 AACTGTTAAG
* *
104702600 GTACCCAATTGAGTGCAAAAAAAAGTAGGGACTTAATTGCCATTTTTGAAAAAATTTGAGGGCCT
1 GTACCCAATTGAGTGCAAAAAAAAGTAAGGACTTAATTG-CATTTTTGAAAAAATTTGAAGGCCT
*
104702665 TTTTGATACATTTTGACAGTTCAA
65 TTTTGATACATTTTGAAAGTTCAA
* * *
104702689 GTACCCAATTGAGTGCAAAAAAAA-TAAATG-CTTAATTG-TTTTCTTTAAAAAAGTTTGAAGGC
1 GTACCCAATTGAGTGCAAAAAAAAGT-AAGGACTTAATTGCATTT-TTGAAAAAA-TTTGAAGGC
*
104702751 CTTTTTGATATATTTTGAAAGTTCAA
63 CTTTTTGATACATTTTGAAAGTTCAA
104702777 GTACC
1 GTACC
104702782 TAACTGTAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
86 3 0.04
87 8 0.10
88 46 0.55
89 26 0.31
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (88 bp):
GTACCCAATTGAGTGCAAAAAAAAGTAAGGACTTAATTGCATTTTTGAAAAAATTTGAAGGCCTT
TTTGATACATTTTGAAAGTTCAA
Found at i:104704767 original size:15 final size:14
Alignment explanation
Indices: 104704745--104704795 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
104704735 TATTTTTCCT
104704745 TTTATTTCCTTTTA
1 TTTATTTCCTTTTA
104704759 TTCTATTTCCTTTTA
1 TT-TATTTCCTTTTA
**
104704774 TTTATTTTATTTTA
1 TTTATTTCCTTTTA
104704788 TTTTATTT
1 -TTTATTT
104704796 GTTTTAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATTTCCTTTTA
Found at i:104704779 original size:19 final size:19
Alignment explanation
Indices: 104704755--104704795 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
104704745 TTTATTTCCT
*
104704755 TTTATTCTATTTCCTTTTA
1 TTTATTCTATTTCATTTTA
* *
104704774 TTTATTTTATTTTATTTTA
1 TTTATTCTATTTCATTTTA
104704793 TTT
1 TTT
104704796 GTTTTAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTCTATTTCATTTTA
Found at i:104704782 original size:5 final size:5
Alignment explanation
Indices: 104704744--104704795 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
104704734 CTATTTTTCC
** * **
104704744 TTTTA TTTCC TTTTA TTCTA TTTCC TTTTA -TTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
104704793 TTT
1 TTT
104704796 GTTTTAGATT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:104705283 original size:15 final size:14
Alignment explanation
Indices: 104705222--104705312 Score: 62
Period size: 14 Copynumber: 6.3 Consensus size: 14
104705212 CACAATTGAC
*
104705222 ATAAATT-TATTTT
1 ATAAATTATATTAT
* *
104705235 ATAATATAATATGATT
1 ATAA-ATTATATTA-T
*
104705251 ATAATTTA-ATTAT
1 ATAAATTATATTAT
104705264 CATAAATTCATATTAT
1 -ATAAATT-ATATTAT
104705280 ATAAATTATATTTAT
1 ATAAATTATA-TTAT
*
104705295 ATATCATTA-ATTAT
1 ATA-AATTATATTAT
104705309 ATAA
1 ATAA
104705313 TTTAAAACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.08
14 21 0.34
15 21 0.34
16 14 0.23
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (14 bp):
ATAAATTATATTAT
Found at i:104705450 original size:17 final size:18
Alignment explanation
Indices: 104705415--104705450 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
104705405 TATTGTTCTA
*
104705415 TAATTCAATTTTTATCCT
1 TAATTCAATTTTAATCCT
104705433 TAATTCAA-TTTAATCCT
1 TAATTCAATTTTAATCCT
104705450 T
1 T
104705451 TTTTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTCAATTTTAATCCT
Found at i:104706127 original size:15 final size:15
Alignment explanation
Indices: 104706107--104706154 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
104706097 AGTTTAATTA
104706107 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
104706122 AATTT-AA--TAAA-
1 AATTTAAATTTAAAT
* *
104706133 AATATATATTTAAAT
1 AATTTAAATTTAAAT
104706148 AATTTAA
1 AATTTAA
104706155 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
14 6 0.24
15 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATTTAAAT
Found at i:104706169 original size:25 final size:25
Alignment explanation
Indices: 104706099--104706177 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
104706089 AACTAGCAAG
*
104706099 TTTAATTAAATTTAAATTTAAATAA
1 TTTAATTAAATTTATATTTAAATAA
* *
104706124 TTTAATAAAAATATATATTTAAATAA
1 TTTAAT-TAAATTTATATTTAAATAA
* *
104706150 TTTAATTAAATTTATTTTTAATTAA
1 TTTAATTAAATTTATATTTAAATAA
104706175 TTT
1 TTT
104706178 TGTTAGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 24 0.52
26 22 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTAATTAAATTTATATTTAAATAA
Found at i:104711045 original size:29 final size:28
Alignment explanation
Indices: 104710979--104711048 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
104710969 TATTCATAAA
*
104710979 TTTAAAATTTAATTTTTGTATTATTACT
1 TTTAAAATTTAATTTTTGTATTATTAAT
* * *
104711007 TTTAGTAATTTAGTTTTT-TATTTTTAAAAT
1 TTTA-AAATTTAATTTTTGTATTATT--AAT
104711037 TTTAAAATTTAA
1 TTTAAAATTTAA
104711049 GTTCAATTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 10 0.30
29 17 0.52
30 6 0.18
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTAATTTTTGTATTATTAAT
Found at i:104720018 original size:16 final size:17
Alignment explanation
Indices: 104719994--104720026 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
104719984 CATGCCATAC
*
104719994 TAGCTCCAAAAT-ATAG
1 TAGCACCAAAATGATAG
104720010 TAGCACCAAAATGATAG
1 TAGCACCAAAATGATAG
104720027 ATAGTGTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
TAGCACCAAAATGATAG
Found at i:104720664 original size:45 final size:45
Alignment explanation
Indices: 104720561--104720732 Score: 235
Period size: 45 Copynumber: 3.9 Consensus size: 45
104720551 CCGAGTTCAT
* * *
104720561 TCACCGGCATT-TCGTCTGCTAGGCTC-AAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
* *
104720603 TCACCAGCATTATAGCCTACTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* *
104720648 TCATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
*
104720693 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
104720733 ATACTGTGCG
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
42 10 0.09
43 12 0.10
44 8 0.07
45 85 0.73
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:104724819 original size:39 final size:39
Alignment explanation
Indices: 104724743--104724996 Score: 350
Period size: 39 Copynumber: 6.5 Consensus size: 39
104724733 GATTTTAACT
* * * *
104724743 GGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATATCC
*
104724781 GGGCTAAGTCCCGAAGGCATTCGTACTGATATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* * *
104724820 GGGCTAAGTCCTGAAGGCATTCTTGCTGACATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* * *
104724859 AGGTTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
104724898 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* * *
104724937 GGGCAAAGTCCCGAAGGCATTCGTGCTAATGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
*
104724976 GGGCTAAGTTCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
104724997 TGGGTTGGAA
Statistics
Matches: 191, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
38 18 0.09
39 169 0.88
40 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
Found at i:104731170 original size:16 final size:18
Alignment explanation
Indices: 104731149--104731181 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
104731139 CATACTAGCT
104731149 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
104731165 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
104731182 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:104731774 original size:43 final size:45
Alignment explanation
Indices: 104731711--104731837 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
104731701 CTGAGTTCAT
* * * *
104731711 TCACCAGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* *
104731753 TTACCTGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
104731798 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCGCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
104731838 ATACTGTGCG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 9 0.12
43 16 0.22
44 5 0.07
45 41 0.57
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:104741425 original size:13 final size:13
Alignment explanation
Indices: 104741407--104741446 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
104741397 ATGTGTGGAG
*
104741407 AAGAAAAGAGAGA
1 AAGAAAGGAGAGA
104741420 AAGAAAGGAGAGA
1 AAGAAAGGAGAGA
104741433 AAGAAAGGAGAGA
1 AAGAAAGGAGAGA
104741446 A
1 A
104741447 CGGAGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAGAGA
Found at i:104742171 original size:106 final size:102
Alignment explanation
Indices: 104741781--104742219 Score: 496
Period size: 106 Copynumber: 4.3 Consensus size: 102
104741771 ATAAATTGTT
* * * *
104741781 GTGTTTTGTGAGTTTTTAGTAATGTAATTTTTTTTTTAAAAAA--TATAGTTATTTTGTTAGTAG
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTTAAAAAAATTTATAGTTATTTTGTTAATAA
*
104741844 TTTATGATTAGGTTATAAATTGTTAATG--T--TTT-
66 TTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
*
104741876 GTGTTTTGTGATTTTTTTAGTAATGTAA-TTTCTTTTAAAAAAATTTCATAGTTATTTATTTTGT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAATTTTTTTTTAAAAAAATTT-ATAG----TTATTTTGT
* *
104741940 TAATAATTTATGGGATTAGGTTGTAACTTGTTAGTGTTTAGTTTA
60 TAATAATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAGTTTA
* *
104741985 GGGTTTTGTGATTTTTTTAGTAATGTAA-----TTTTAAAAAAAATTATAGTTATTTTGTTAATA
1 GTGTTTTGTGA-TTTTTTAGTAATGTAATTTTTTTTTAAAAAAATTTATAGTTATTTTGTTAATA
104742045 ATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
65 ATTTATGATTAGG-T-TATAAATTGTTAGTGTTTAGTTTA
*
104742085 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTTAAAAATAATTGTATAGTTATTTTGTTAGT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTTAAAAA-AATT-TATAGTTATTTTGTTAAT
* *
104742150 AACTTATGATTAAGTTATATAAATTGTTAGTGTTTAGTTTA
64 AATTTATGATT-AGGT-TATAAATTGTTAGTGTTTAGTTTA
* *
104742191 TTATTTTGTGA-TTTTT--TAATGTAATTTTT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTT
104742220 ATATAATTTG
Statistics
Matches: 300, Mismatches: 19, Indels: 42
0.83 0.05 0.12
Matches are distributed among these distances:
95 24 0.08
96 15 0.05
97 1 0.00
98 11 0.04
99 17 0.06
100 52 0.17
102 18 0.06
103 13 0.04
104 33 0.11
105 21 0.07
106 63 0.21
107 2 0.01
108 3 0.01
109 27 0.09
ACGTcount: A:0.28, C:0.01, G:0.16, T:0.55
Consensus pattern (102 bp):
GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTTAAAAAAATTTATAGTTATTTTGTTAATAA
TTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
Found at i:104742200 original size:206 final size:197
Alignment explanation
Indices: 104741818--104742207 Score: 491
Period size: 206 Copynumber: 1.9 Consensus size: 197
104741808 TTTTTTTTTT
* *
104741818 AAAAAATATAGTTATTTTGTTAGTAGTTTATGATTAGGTTATAAATTGTTAATGTTTTGTGTTTT
1 AAAAAATATAGTTATTTTGTTAATAATTTATGATTAGGTTATAAATTGTTAATGTTTTGTGTTTT
*
104741883 GTGATTTTTTTAGTAATGTAATTTCTTTTAAAAAAATTTCATAGTTATTTATTTTGTTAATAATT
66 GTGATTTTTTTAGTAATGTAATTTCTTTTAAAAAAATTTCATAG---TTTATTTTGTTAATAACT
* * *
104741948 TATGGGATTAGGTTGTAACTTGTTAGTGTTTAGTTTAGGGTTTTGTGATTTTTTTAGTAATGTAA
128 TAT-GGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGGATTTTGTGATTTTTTTAGTAATGTAA
104742013 TTTTAA
192 TTTTAA
*
104742019 AAAAAATTATAGTTATTTTGTTAATAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTT
1 AAAAAA-TATAGTTATTTTGTTAATAATTTATGATTAGG-T-TATAAATTGTTAATG--T--TTT
*
104742084 AGTGTTTTGTGA-TTTTTTAGTAATGTAATTTTTTTTTAAAAATAATTGT-ATAG-TTATTTTGT
59 -GTGTTTTGTGATTTTTTTAGTAATGTAA-TTTCTTTTAAAAA-AATT-TCATAGTTTATTTTGT
* * **
104742146 TAGTAACTTAT-GATTAAGTTATATAAATTGTTAGTGTTTAGTTTATTATTTTGTGATTTTTT
120 TAATAACTTATGGATT-AGGT-TATAAATTGTTAGTGTTTAGTTTAGGATTTTGTGATTTTTT
104742208 AATGTAATTT
Statistics
Matches: 164, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
201 6 0.04
202 30 0.18
203 1 0.01
204 18 0.11
205 3 0.02
206 55 0.34
208 19 0.12
209 23 0.14
210 8 0.05
211 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.54
Consensus pattern (197 bp):
AAAAAATATAGTTATTTTGTTAATAATTTATGATTAGGTTATAAATTGTTAATGTTTTGTGTTTT
GTGATTTTTTTAGTAATGTAATTTCTTTTAAAAAAATTTCATAGTTTATTTTGTTAATAACTTAT
GGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGGATTTTGTGATTTTTTTAGTAATGTAATTTT
AA
Found at i:104747346 original size:5 final size:5
Alignment explanation
Indices: 104747299--104747335 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
104747289 AACCTAAATT
104747299 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
104747336 CAATATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:104754625 original size:27 final size:27
Alignment explanation
Indices: 104754595--104754658 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
104754585 ATTAAGCACT
* *
104754595 AGTGGCGCCTAT-AAGGTAGGAGTCACC
1 AGTGGCGCCTATCAA-ATAGGAGTCACA
104754622 AGTGGCGCCTATCAAATAGGAGTCACA
1 AGTGGCGCCTATCAAATAGGAGTCACA
*
104754649 AGTGGTGCCT
1 AGTGGCGCCT
104754659 GCGACCCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (27 bp):
AGTGGCGCCTATCAAATAGGAGTCACA
Found at i:104758598 original size:69 final size:68
Alignment explanation
Indices: 104758485--104758907 Score: 596
Period size: 69 Copynumber: 6.0 Consensus size: 68
104758475 CTTTTATGAG
* * * *
104758485 TTGTTTTATCTATTTATTTATTTTTTATTTTTTTACTTTTTAAATATTTAAATTTAATATTGTTT
1 TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
* *
104758550 GTC
66 ATA
104758553 TTGGTTTTATCTATTTATTTATTTATTATTCCTTTT-CTTTTTAAATATTTAAATTTGATATTAT
1 TT-GTTTTATCTATTTATTTATTTATTATT-CTTTTACTTTTTAAATATTTAAATTTGATATTAT
*
104758617 TTAAA
64 TTATA
104758622 TTTGTTTTATCTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAACATTTGATA
1 -TTG--TT-T-TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAA-ATTTGATA
104758687 TTATTTATA
60 TTATTTATA
104758696 TTTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
1 -TTGTTTTATCTATTTATTTATTTA----TTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
104758761 TATTTATA
61 TATTTATA
* *
104758769 TTTTTTTATCTATTTATTTATTTTTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
1 TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
104758834 ATA
66 ATA
* * * *
104758837 CTTGTTTCATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAAATTTGATATAATT
1 -TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
104758902 TATA
65 TATA
104758906 TT
1 TT
104758908 CTATTTTCAT
Statistics
Matches: 325, Mismatches: 16, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
68 48 0.15
69 117 0.36
70 24 0.07
71 3 0.01
72 30 0.09
73 56 0.17
74 47 0.14
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.64
Consensus pattern (68 bp):
TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
ATA
Found at i:104758930 original size:215 final size:215
Alignment explanation
Indices: 104758495--104758914 Score: 636
Period size: 215 Copynumber: 2.0 Consensus size: 215
104758485 TTGTTTTATC
* * * * *
104758495 TATTTATTTATTTTTTATTTTTTTACTTTTTAAATATTTAAATTTAATATTGTTTGTCTTGGTTT
1 TATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATTATTTATATTGGTTT
*
104758560 TATCTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAATTTGATATTATTTAAATTT
66 TATCTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAATTTGATATTATTTAAACTT
* * *
104758625 GTTTTATCTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAACATTTGATATTA
131 G-TTTATCTATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAACATTTGATATAA
* *
104758690 TTTATATTTGTTTTATCTATT
195 TTTATATTTATTTTATATATT
* *
104758711 TATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATT-TTTT
1 TATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATTATTTATATTGGTTT
* *
104758775 TATCTATTTATTTATTTTTTATT-CTTTTACTTTTTAAATATTTAAATTTGATATTATTTATACT
66 TATCTATTTATTTATTTATTATTCCTTTT-CTTTTTAAATATTTAAATTTGATATTATTTAAACT
104758839 TG-TT-TC-ATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAA-ATTTGATATAA
130 TGTTTATCTATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAACATTTGATATAA
104758900 TTTATATTCTATTTT
195 TTTATATT-TATTTT
104758915 CATTATGCAT
Statistics
Matches: 188, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
210 18 0.10
211 47 0.25
212 2 0.01
213 2 0.01
214 5 0.03
215 60 0.32
216 54 0.29
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (215 bp):
TATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATTATTTATATTGGTTT
TATCTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAATTTGATATTATTTAAACTT
GTTTATCTATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAACATTTGATATAAT
TTATATTTATTTTATATATT
Found at i:104759108 original size:21 final size:21
Alignment explanation
Indices: 104759083--104759134 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
104759073 ATTTTACCTT
*
104759083 TTATTTATTTTCTTTAT-TCA
1 TTATTTATTTTATTTATGTCA
104759103 TCTATTTA-TTTATTTATGTCA
1 T-TATTTATTTTATTTATGTCA
104759124 TTATTTCATTT
1 TTATTT-ATTT
104759135 CTTCACCGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 14 0.52
21 11 0.41
22 2 0.07
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTATTTTATTTATGTCA
Found at i:104770806 original size:22 final size:22
Alignment explanation
Indices: 104770764--104770807 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
104770754 AATTATTTAC
* *
104770764 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
104770786 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
104770808 ACGCGTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:104771108 original size:40 final size:40
Alignment explanation
Indices: 104771034--104771255 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
104771024 AACTCAAGTA
* * * *
104771034 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
104771073 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
104771113 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
104771153 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
104771193 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
104771233 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
104771256 CATTCGAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 11 0.06
40 157 0.92
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:104780422 original size:62 final size:62
Alignment explanation
Indices: 104780322--104780445 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
104780312 TTCAAATTTT
*
104780322 GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCTTTAGAAATAACAA-GAAGGAGAAACTTTA
1 GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATG-AGGAGAAACTTTA
*
104780384 GATTGAAGATTAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGAGAAACTTTA
1 GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGAGAAACTTTA
104780446 CATGTTCGGG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 58 0.98
63 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (62 bp):
GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGAGAAACTTTA
Found at i:104781663 original size:47 final size:46
Alignment explanation
Indices: 104781602--104781769 Score: 152
Period size: 47 Copynumber: 3.6 Consensus size: 46
104781592 GTGCTAATGG
*
104781602 AAGACATGTCTGGGACAT-GCATCGGCCACATTATGGGAGCCAGTGT
1 AAGACATGTCTGGGACATGGCATCGG-CACATTATGGGAGCTAGTGT
*
104781648 AAGACCATGTATGGGACATGGCATCGG--CATTGA-GACGAGAGCTAGTGT
1 AAGA-CATGTCTGGGACATGGCATCGGCACATT-ATG--G-GAGCTAGTGT
* ** * *
104781696 AAGACATGTCTGGGACAT-GCATCGACTACAAAAT--GTGTTAGTGT
1 AAGACATGTCTGGGACATGGCATCGGC-ACATTATGGGAGCTAGTGT
104781740 AAGACCATGTCTGGGACATGGCATCGGCAC
1 AAGA-CATGTCTGGGACATGGCATCGGCAC
104781770 TATGCCCTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 25
0.75 0.07 0.19
Matches are distributed among these distances:
44 12 0.12
45 21 0.21
46 18 0.18
47 27 0.27
48 21 0.21
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGGCATCGGCACATTATGGGAGCTAGTGT
Found at i:104788864 original size:39 final size:41
Alignment explanation
Indices: 104788782--104788869 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 41
104788772 ATAATAAATT
*
104788782 TAAAATATAATAAAAATATATTTATAAGAATAATAATTATA
1 TAAAATATAATAAAAATATATTTATAAGAAAAATAATTATA
* *
104788823 TAAAATAT-AT-AAAATATATTGGT-TTAGAAAAATAA-TGTA
1 TAAAATATAATAAAAATATATT--TATAAGAAAAATAATTATA
104788862 TAAAATAT
1 TAAAATAT
104788870 CAAATGTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 21 0.50
40 12 0.29
41 9 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (41 bp):
TAAAATATAATAAAAATATATTTATAAGAAAAATAATTATA
Found at i:104789372 original size:17 final size:18
Alignment explanation
Indices: 104789319--104789390 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
104789309 AATCATATCT
104789319 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
104789338 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
104789356 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
104789373 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
104789391 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:104789377 original size:35 final size:37
Alignment explanation
Indices: 104789312--104789390 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
104789302 ATTACAAAAT
104789312 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
104789348 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
104789383 CATATCAT
1 CATATCAT
104789391 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:104789388 original size:14 final size:15
Alignment explanation
Indices: 104789333--104789388 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
104789323 AGATTGTATA
104789333 TCATATCTAAGATTG
1 TCATATCTAAGATTG
104789348 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
104789366 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
104789383 -CATATC
1 TCATATC
104789389 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:104789989 original size:83 final size:83
Alignment explanation
Indices: 104789769--104790121 Score: 589
Period size: 83 Copynumber: 4.2 Consensus size: 83
104789759 TTCGATTTGT
* * * * *
104789769 AAGGATGTCAAATCATCTTGAGCCTATTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
104789834 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
104789852 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAAAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
104789917 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
104789936 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
104790001 TTTGTTCCTTGTAAGTAC
66 TTTGTTCCTTGTAAGCAC
*
104790019 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
104790084 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
104790102 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
104790122 GATCTGCTTC
Statistics
Matches: 254, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
83 179 0.70
84 75 0.30
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:104790522 original size:119 final size:119
Alignment explanation
Indices: 104790045--104790519 Score: 806
Period size: 119 Copynumber: 4.0 Consensus size: 119
104790035 CTTGAGTCTG
* * * * * *
104790045 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
104790110 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
104790164 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
104790229 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
104790283 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACCAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
104790348 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
104790402 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTATTCCTTGTAAACACAAGAATCC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
104790467 CAAATCATCTTGGATCTGCTTCATTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
104790520 CTTCGATCTG
Statistics
Matches: 336, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 336 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:104790559 original size:44 final size:44
Alignment explanation
Indices: 104790511--104790690 Score: 179
Period size: 44 Copynumber: 4.1 Consensus size: 44
104790501 TGAAGGTTAG
104790511 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGG-TGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACAC-AGGGATGCCAA
*
104790555 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * * *
104790597 ATGCTGAAATCTTCAATCTACTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCT-GTTCCCTATAAACACAGGGATGCCAA
* *
104790643 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
104790687 ATCT
1 ATCT
104790691 TGTTTCTTTG
Statistics
Matches: 107, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.02
43 16 0.15
44 75 0.70
45 12 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:104791583 original size:8 final size:8
Alignment explanation
Indices: 104791570--104791611 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
104791560 CCTCTCCATC
104791570 TTTTCTTT
1 TTTTCTTT
*
104791578 TTTTCTCT
1 TTTTCTTT
104791586 TTTTC-TT
1 TTTTCTTT
*
104791593 TTCT-TTT
1 TTTTCTTT
104791600 TTTTCTTT
1 TTTTCTTT
104791608 TTTT
1 TTTT
104791612 TGAAATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 9 0.32
8 19 0.68
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTCTTT
Found at i:104791610 original size:21 final size:21
Alignment explanation
Indices: 104791568--104791609 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
104791558 GGCCTCTCCA
104791568 TCTTTTCTTTTTTTCTCTTTT
1 TCTTTTCTTTTTTTCTCTTTT
104791589 TCTTTTCTTTTTTT-TCTTTT
1 TCTTTTCTTTTTTTCTCTTTT
104791609 T
1 T
104791610 TTTGAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TCTTTTCTTTTTTTCTCTTTT
Found at i:104797583 original size:15 final size:15
Alignment explanation
Indices: 104797542--104797585 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
104797532 TTAAAATATA
104797542 ATAAAAAATATATTT
1 ATAAAAAATATATTT
104797557 ATAAGAATAATA-ATTAT
1 ATAA-AA-AATATATT-T
104797574 ATAAAAAATATA
1 ATAAAAAATATA
104797586 AAAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAAATATATTT
Found at i:104797611 original size:42 final size:43
Alignment explanation
Indices: 104797533--104797617 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
104797523 ATAATAAATT
* *
104797533 TAAAATATAATAAAAAATATATTTATAAGAATAATAAT-TATA
1 TAAAAAATAATAAAAAATATATTTATAAGAAAAATAATGTATA
*
104797575 TAAAAAAT-ATAAAAAATATATTGGT-TTAGAAAAATAATGTATA
1 TAAAAAATAATAAAAAATATATT--TATAAGAAAAATAATGTATA
104797618 AAATATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 14 0.38
42 18 0.49
43 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (43 bp):
TAAAAAATAATAAAAAATATATTTATAAGAAAAATAATGTATA
Found at i:104798093 original size:17 final size:17
Alignment explanation
Indices: 104798071--104798132 Score: 106
Period size: 17 Copynumber: 3.6 Consensus size: 17
104798061 AATCATATCT
104798071 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
104798088 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
104798106 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
104798123 TCTAAGATTG
1 TCTAAGATTG
104798133 CATATCATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 26 0.62
18 16 0.38
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:104798115 original size:35 final size:36
Alignment explanation
Indices: 104798064--104798140 Score: 133
Period size: 35 Copynumber: 2.2 Consensus size: 36
104798054 ATTACAAAAT
104798064 CATATC-T-TCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTGTATCATATCTAAGATTG
104798098 CA-ATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTGTATCATATCTAAGATTG
104798133 CATATCAT
1 CATATCAT
104798141 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
33 3 0.08
34 3 0.08
35 29 0.73
36 5 0.12
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (36 bp):
CATATCATATCTAAGATTGTATCATATCTAAGATTG
Found at i:104798842 original size:35 final size:35
Alignment explanation
Indices: 104798776--104798843 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
104798766 TTTATATGCC
* * ** **
104798776 ATGTTAAATGCAATATTGTATAGTATTGAGTTATA
1 ATGTTAAATACAATATTATATAACAAAGAGTTATA
104798811 ATGTTAAATACAATATTATATAACAAAGAGTTA
1 ATGTTAAATACAATATTATATAACAAAGAGTTA
104798844 AGAAATAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (35 bp):
ATGTTAAATACAATATTATATAACAAAGAGTTATA
Found at i:104801618 original size:17 final size:16
Alignment explanation
Indices: 104801596--104801627 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
104801586 TTGCAAATTA
104801596 AAAAAAAGTTCGAACAT
1 AAAAAAAGTT-GAACAT
104801613 AAAAAAAGTTGAACA
1 AAAAAAAGTTGAACA
104801628 ATTCTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (16 bp):
AAAAAAAGTTGAACAT
Found at i:104803802 original size:37 final size:37
Alignment explanation
Indices: 104803761--104803859 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
104803751 TAATAATATT
*
104803761 TTAATAGTTTAATATTAAATTAA-ATTAAA-TACTTATC
1 TTAATAG--TAATATTAAATTAATATTAAAGTAATTATC
* *
104803798 TTAATAGTATTATTAATTTAATATTAAAGTAATTATC
1 TTAATAGTAATATTAAATTAATATTAAAGTAATTATC
* *
104803835 TTAATATTAA-ATTTAATTTAATATT
1 TTAATAGTAATA-TTAAATTAATATT
104803860 TAGTTTAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
35 12 0.22
36 7 0.13
37 35 0.65
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (37 bp):
TTAATAGTAATATTAAATTAATATTAAAGTAATTATC
Found at i:104803860 original size:12 final size:12
Alignment explanation
Indices: 104803810--104803868 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
104803800 AATAGTATTA
104803810 TTAATTTAATA-
1 TTAATTTAATAT
**
104803821 TTAAAGTAATTAT
1 TTAATTTAA-TAT
104803834 CTTAATATTAA-AT
1 -TTAAT-TTAATAT
104803847 TTAATTTAATAT
1 TTAATTTAATAT
*
104803859 TTAGTTTAAT
1 TTAATTTAAT
104803869 CATAGTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 11 0.29
12 18 0.47
13 2 0.05
14 4 0.11
15 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (12 bp):
TTAATTTAATAT
Found at i:104803868 original size:17 final size:17
Alignment explanation
Indices: 104803810--104803859 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
104803800 AATAGTATTA
104803810 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAA-T
104803828 AATT-ATCTTAATATTAAAT
1 --TTAAT-TTAATATTAAAT
104803847 TTAATTTAATATT
1 TTAATTTAATATT
104803860 TAGTTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 3 0.11
20 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAATTTAATATTAAAT
Found at i:104806501 original size:40 final size:40
Alignment explanation
Indices: 104806440--104806686 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
104806430 CGGAATTTAG
* * * *
104806440 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
104806480 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
104806520 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
104806560 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
104806600 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
104806640 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
104806680 CCGGATA
1 CCGGATA
104806687 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:104810825 original size:47 final size:47
Alignment explanation
Indices: 104810764--104810949 Score: 255
Period size: 47 Copynumber: 4.0 Consensus size: 47
104810754 GGATAATTGT
** *
104810764 AATGTGAATGTGCATATATGTGATAAGACCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
104810811 AATGTGAACATGCATATATGTTATAAGGCCAAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
104810858 AATGTGAGCATGCATATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * ** *
104810905 AATATGAACATGCATATATGTGGTAATTCCGAATGGCTAATGTGA
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
104810950 AATATATGTA
Statistics
Matches: 121, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:104811305 original size:37 final size:37
Alignment explanation
Indices: 104811154--104811303 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
104811144 GGAAATATAT
104811154 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
104811191 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
104811228 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
104811265 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
104811302 TC
1 TC
104811304 TGAGCTAAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:104813092 original size:40 final size:40
Alignment explanation
Indices: 104812581--104813081 Score: 815
Period size: 40 Copynumber: 12.6 Consensus size: 40
104812571 AGTGGTATAC
104812581 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * *
104812621 CCAGGCTAAGCCCCAAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
104812661 CCGGGCTAAGTCCCGAAGAGCATTCGTGCCAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
104812701 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
104812741 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
104812781 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
104812821 CCGGGCTAAG-CCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
104812860 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
104812900 CCGGGCTAAGTCCCGAAGAGCATTCGTACTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
104812940 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
104812980 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* ** * * * *
104813020 CCGTGCTAAAACACGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
104813060 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
104813082 ATCATGCTGG
Statistics
Matches: 427, Mismatches: 33, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
39 38 0.09
40 389 0.91
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Done.