Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold63
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: 2211945
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 524 characters in sequence are not A, C, G, or T
File 13 of 16
Found at i:1850738 original size:11 final size:11
Alignment explanation
Indices: 1850722--1850755 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1850712 TAATTTACTG
1850722 ATTTATATTAT
1 ATTTATATTAT
1850733 ATTTATATTAT
1 ATTTATATTAT
*
1850744 TTTTATATTAT
1 ATTTATATTAT
1850755 A
1 A
1850756 ATATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:1850761 original size:19 final size:17
Alignment explanation
Indices: 1850729--1850764 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
1850719 CTGATTTATA
1850729 TTATATTTATATTATTT
1 TTATATTTATATTATTT
1850746 TTATATTATAATATTATTT
1 TTATATT-T-ATATTATTT
1850765 AAAGTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATTTATATTATTT
Found at i:1851156 original size:17 final size:16
Alignment explanation
Indices: 1851125--1851164 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
1851115 TTTAATAAAT
1851125 TTATATTATTTTTATA
1 TTATATTATTTTTATA
1851141 TTATATTATATTTTATA
1 TTATATTAT-TTTTATA
*
1851158 TCATATT
1 TTATATT
1851165 TAAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTATTTTTATA
Found at i:1851869 original size:17 final size:16
Alignment explanation
Indices: 1851829--1851863 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1851819 TAATAAAATA
*
1851829 ATAATTTAAATATATTT
1 ATAAATTAAAT-TATTT
1851846 ATAAATTAAATTATTT
1 ATAAATTAAATTATTT
1851862 AT
1 AT
1851864 TTAATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAAATTAAATTATTT
Found at i:1852533 original size:20 final size:20
Alignment explanation
Indices: 1852508--1852571 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
1852498 AACAGATTTG
*
1852508 ATTTAAATATAAAAATAATT
1 ATTTAAATATAAAAATTATT
*
1852528 ATTTAAATAATAAAAAATTTTTT
1 ATTTAAAT-AT-AAAAA-TTATT
1852551 ATTTAAAT-TAAAAATTATT
1 ATTTAAATATAAAAATTATT
1852570 AT
1 AT
1852572 AAATATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.16
20 13 0.34
21 3 0.08
22 5 0.13
23 11 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAATATAAAAATTATT
Found at i:1852544 original size:23 final size:23
Alignment explanation
Indices: 1852513--1852558 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1852503 ATTTGATTTA
*
1852513 AATATAAAAATAATTATTTAAAT
1 AATAAAAAAATAATTATTTAAAT
* **
1852536 AATAAAAAATTTTTTATTTAAAT
1 AATAAAAAAATAATTATTTAAAT
1852559 TAAAAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAAAAAAATAATTATTTAAAT
Found at i:1852627 original size:14 final size:14
Alignment explanation
Indices: 1852608--1852759 Score: 57
Period size: 14 Copynumber: 10.5 Consensus size: 14
1852598 TTTATATTAT
1852608 TTTTATATATTTTA
1 TTTTATATATTTTA
*
1852622 TTTTATATATAATTA
1 TTTTATATAT-TTTA
1852637 TATTTATAATATTTATA
1 T-TTTAT-ATATTT-TA
* *
1852654 TTTATAAAAATTTTA
1 TTT-TATATATTTTA
* *
1852669 TTATATAAATTTAAAATA
1 TTTTATATATTT----TA
1852687 TTATT-TATATTTATA
1 TT-TTATATATTT-TA
*
1852702 TTTT-TATA--TCA
1 TTTTATATATTTTA
* *
1852713 TATTATATATTATA
1 TTTTATATATTTTA
*
1852727 TATTATATATTTT-
1 TTTTATATATTTTA
1852740 TTATTAT-T-TTTTA
1 TT-TTATATATTTTA
*
1852753 TTATATA
1 TTTTATA
1852760 GATTATATAT
Statistics
Matches: 107, Mismatches: 15, Indels: 33
0.69 0.10 0.21
Matches are distributed among these distances:
11 4 0.04
12 12 0.11
13 4 0.04
14 41 0.38
15 13 0.12
16 13 0.12
17 9 0.08
18 10 0.09
19 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTATATATTTTA
Found at i:1852651 original size:96 final size:96
Alignment explanation
Indices: 1852559--1852738 Score: 213
Period size: 98 Copynumber: 1.8 Consensus size: 96
1852549 TTATTTAAAT
* * *
1852559 TAAAAATTATTATAAATATTAAATTTGATAAT-TTA-TATATTTATATTATTTTTAT-ATATTTT
1 TAAAAATT-TTAT-AATA-TAAATTT-AAAATATTATTATATTTATATT-TTTATATCATATTAT
* *
1852621 ATTTTATATATAATTATATTTATAATATTTATATTTA
61 ATATTATATATAA-TATATTTATAATATTTATATATA
*
1852658 TAAAAATTTTATTATATAAATTTAAAATATTATTTATATTTATATTTTTATATCATATTATATAT
1 TAAAAATTTTATAATATAAATTTAAAATATTA-TTATATTTATATTTTTATATCATATTATATAT
*
1852723 TATATATTATATATTT
65 TATATATAATATATTT
1852739 TTTATTATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
95 4 0.06
96 10 0.14
97 16 0.23
98 33 0.46
99 8 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (96 bp):
TAAAAATTTTATAATATAAATTTAAAATATTATTATATTTATATTTTTATATCATATTATATATT
ATATATAATATATTTATAATATTTATATATA
Found at i:1852668 original size:56 final size:57
Alignment explanation
Indices: 1852568--1852674 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 57
1852558 TTAAAAATTA
** *
1852568 TTATAAATATTAAATTTGATAATTTATATATTTATATTATTTTTA-TATATTTTATT
1 TTATAAATATTAAATTTGATAATTTATATATTTATAAAAATTTTATTATATTTTATT
* *
1852624 TTATATATAATTATATTT-ATAATATT-TATATTTATAAAAATTTTATTATAT
1 TTATAAAT-ATTAAATTTGATAAT-TTATATATTTATAAAAATTTTATTATAT
1852675 AAATTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 28 0.65
57 15 0.35
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (57 bp):
TTATAAATATTAAATTTGATAATTTATATATTTATAAAAATTTTATTATATTTTATT
Found at i:1852697 original size:119 final size:127
Alignment explanation
Indices: 1852540--1852767 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 127
1852530 TTAAATAATA
*
1852540 AAAAATTTTTTATTTAAATTAAAAATTATTATAAATA-TTA-AATTTGATA-AT-TTATATATT-
1 AAAAATTTTTTATATAAATTAAAAATTATTATAAATATTTATAATTTGATACATATTATATATTA
1852600 TATATTAT-T-TTTATATATT-TTATTTTA-TATATA-ATTATATTTATAATATTTATATTTAT
66 TATATTATATATTT-TATATTATT-TTTTATTATATAGATTATATTTATAATATTTATATTTAT
* ** * *
1852659 AAAAATTTTATTATATAAATTTAAAA-TATTATTTATATTTATATTTTTATATCATATTATATAT
1 AAAAATTTT-TTATATAAATTAAAAATTATTATAAATATTTATAATTTGATA-CATATTATATAT
*
1852723 TATATATTATATATTTTTTATTATTTTTTATTATATAGATTATAT
64 TATATATTATATATTTTATATTATTTTTTATTATATAGATTATAT
1852768 ATAGGATAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 15
0.80 0.06 0.13
Matches are distributed among these distances:
119 18 0.20
120 17 0.19
121 7 0.08
123 2 0.02
124 9 0.10
125 8 0.09
126 11 0.12
127 11 0.12
128 7 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (127 bp):
AAAAATTTTTTATATAAATTAAAAATTATTATAAATATTTATAATTTGATACATATTATATATTA
TATATTATATATTTTATATTATTTTTTATTATATAGATTATATTTATAATATTTATATTTAT
Found at i:1852724 original size:7 final size:7
Alignment explanation
Indices: 1852688--1852769 Score: 59
Period size: 7 Copynumber: 12.4 Consensus size: 7
1852678 TTTAAAATAT
1852688 TATT-TA
1 TATTATA
1852694 TATT-TA
1 TATTATA
*
1852700 TATT-TT
1 TATTATA
1852706 TA-TATCA
1 TATTAT-A
1852713 TATTATA
1 TATTATA
1852720 TATTATA
1 TATTATA
1852727 TATTATA
1 TATTATA
* *
1852734 TATTTTT
1 TATTATA
*
1852741 TATTATT
1 TATTATA
*
1852748 TTTTAT-
1 TATTATA
1852754 TA-TATA
1 TATTATA
*
1852760 GATTATA
1 TATTATA
1852767 TAT
1 TAT
1852770 AGGATAAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
5 4 0.06
6 16 0.26
7 39 0.63
8 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (7 bp):
TATTATA
Found at i:1853457 original size:16 final size:16
Alignment explanation
Indices: 1853432--1853462 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1853422 TTATGTGTTT
*
1853432 TTATTTAATATTTAAA
1 TTATTAAATATTTAAA
1853448 TTATTAAATATTTAA
1 TTATTAAATATTTAA
1853463 TGTAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAAATATTTAAA
Found at i:1855641 original size:28 final size:28
Alignment explanation
Indices: 1855576--1855647 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 28
1855566 AATTCGATCA
*
1855576 ATTAATAT-TATTT-ATATTTATTTTTT
1 ATTAATATATATTTAATAATTATTTTTT
*
1855602 A-TAATA-A-A-TTAAAAATTATTTTTT
1 ATTAATATATATTTAATAATTATTTTTT
1855626 ATTAATATATATTTAATAATTA
1 ATTAATATATATTTAATAATTA
1855648 AATTTAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 2 0.05
24 13 0.35
25 10 0.27
26 2 0.05
27 1 0.03
28 9 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTAATATATATTTAATAATTATTTTTT
Found at i:1856595 original size:21 final size:22
Alignment explanation
Indices: 1856551--1856595 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1856541 AAAAATGTTA
* *
1856551 TTTTTAATATTTTAATTAAAAT
1 TTTTTAATACTTTAATCAAAAT
*
1856573 TTTTTAATACTTT-ATCAATAT
1 TTTTTAATACTTTAATCAAAAT
1856594 TT
1 TT
1856596 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTAATACTTTAATCAAAAT
Found at i:1856951 original size:20 final size:20
Alignment explanation
Indices: 1856928--1856970 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1856918 TTATAATATA
**
1856928 AATTTAATATTTAATATTTT
1 AATTTAATAAATAATATTTT
*
1856948 AATTTATTAAATAATATTTT
1 AATTTAATAAATAATATTTT
1856968 AAT
1 AAT
1856971 ATATTGCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTAATAAATAATATTTT
Found at i:1857758 original size:26 final size:26
Alignment explanation
Indices: 1857727--1857778 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
1857717 TTATAATTAA
1857727 ATTTAA-ATAAAAATAAATCATAAAAT
1 ATTTAATATAAAAATAAAT-ATAAAAT
*
1857753 ATTTAATTATAAATATAAATATAAAA
1 ATTTAA-TATAAAAATAAATATAAAA
1857779 AAAACGCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 6 0.26
28 11 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTTAATATAAAAATAAATATAAAAT
Found at i:1862162 original size:6 final size:6
Alignment explanation
Indices: 1862105--1862163 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
1862095 TTGGTAATGT
* * * * * *
1862105 CCCTCC TCCTCC TCCACC CCCACC CCCACC CCCACC CCCTCC CCCTCC
1 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC
1862153 CCCTCC CCCTC
1 CCCTCC CCCTC
1862164 TACCAATTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.07, C:0.80, G:0.00, T:0.14
Consensus pattern (6 bp):
CCCTCC
Found at i:1862162 original size:18 final size:18
Alignment explanation
Indices: 1862105--1862163 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
1862095 TTGGTAATGT
* *
1862105 CCCTCCTCCTCCTCCACC
1 CCCTCCCCCTCCCCCACC
* *
1862123 CCCACCCCCACCCCCACC
1 CCCTCCCCCTCCCCCACC
*
1862141 CCCTCCCCCTCCCCCTCC
1 CCCTCCCCCTCCCCCACC
1862159 CCCTC
1 CCCTC
1862164 TACCAATTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.07, C:0.80, G:0.00, T:0.14
Consensus pattern (18 bp):
CCCTCCCCCTCCCCCACC
Found at i:1862368 original size:54 final size:54
Alignment explanation
Indices: 1862256--1862368 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
1862246 GCCTGGAGCT
* *
1862256 CCACCTCCCCCGCCAACACCACCTACTACTAGACTTGTAGTGCCACTTCCACCT
1 CCACCTCCCCCGCCAACACCACCTACTACTAGACTTGGAGTGCCACTTCCACCA
* **
1862310 CCACCTCCCCCTCCCCCACCACCTACTACTAGACTTGGAGCT-CCACCTTCC-CCA
1 CCACCTCCCCCGCCAACACCACCTACTACTAGACTTGGAG-TGCCA-CTTCCACCA
1862364 CCACC
1 CCACC
1862369 ACCACCTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 46 0.88
55 6 0.12
ACGTcount: A:0.20, C:0.53, G:0.08, T:0.19
Consensus pattern (54 bp):
CCACCTCCCCCGCCAACACCACCTACTACTAGACTTGGAGTGCCACTTCCACCA
Found at i:1862371 original size:42 final size:42
Alignment explanation
Indices: 1862308--1862410 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
1862298 CCACTTCCAC
* * *
1862308 CTCCACCTCCCCCTCCCCCACCACCTACTACTAGACTTGGAG
1 CTCCACCTCCCCCACCACCACCACCTAATACTAGACTTGGAG
* * *
1862350 CTCCACCTTCCCCACCACCACCACCTAATGCTAGATTTGGAG
1 CTCCACCTCCCCCACCACCACCACCTAATACTAGACTTGGAG
* * *
1862392 CTCCGCCTCCACCTCCACC
1 CTCCACCTCCCCCACCACC
1862411 TCCCCCACCA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.19, C:0.51, G:0.10, T:0.19
Consensus pattern (42 bp):
CTCCACCTCCCCCACCACCACCACCTAATACTAGACTTGGAG
Found at i:1862440 original size:96 final size:96
Alignment explanation
Indices: 1862249--1862442 Score: 264
Period size: 96 Copynumber: 2.0 Consensus size: 96
1862239 CTTCATTGCC
* * * *
1862249 TGGAGCTCCACCTCCCCCGCCAACACCACCTACTACTAGACTTGTAGTGCCACTTCCACCTCCAC
1 TGGAGCTCCACCTCCCCCACCAACACCACCTAATACTAGACTTGGAGTGCCACCTCCACCTCCAC
* *
1862314 CTCCCCCTCCCCCACCACCTACTACTAGACT
66 CTCCCCCACCACCACCACCTACTACTAGACT
* * * * *
1862345 TGGAGCTCCACCTTCCCCACCACCACCACCTAATGCTAGATTTGGAGCT-CCGCCTCCACCTCCA
1 TGGAGCTCCACCTCCCCCACCAACACCACCTAATACTAGACTTGGAG-TGCCACCTCCACCTCCA
*
1862409 CCTCCCCCACCACCACCACCTACTTCTAGACT
65 CCTCCCCCACCACCACCACCTACTACTAGACT
1862441 TG
1 TG
1862443 CAGTTTCACC
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 84 0.99
97 1 0.01
ACGTcount: A:0.21, C:0.49, G:0.10, T:0.20
Consensus pattern (96 bp):
TGGAGCTCCACCTCCCCCACCAACACCACCTAATACTAGACTTGGAGTGCCACCTCCACCTCCAC
CTCCCCCACCACCACCACCTACTACTAGACT
Found at i:1862623 original size:39 final size:39
Alignment explanation
Indices: 1862580--1862825 Score: 240
Period size: 39 Copynumber: 5.9 Consensus size: 39
1862570 ATCCGCACCT
* * * *
1862580 CCTCCGCCACCCCTACCGATGTCTAGTGTCCCACCTCCA
1 CCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTCCA
* *
1862619 CCTCCACCACCCCCATTGATGTCTCGTGCCCCATCTCCTCCA
1 CCTCCACCACCCCCATCGATGTCTAGTGCCCCA---CCTCCA
* *
1862661 CCTCCACCTCCACCACCCCATTGATGTCTCGTGCCCCACCTCCTCCA
1 CCTCCA---CCA-C-CCCCATCGATGTCTAGTGCCCCA---CCTCCA
*
1862708 CCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTCCG
1 CCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTCCA
* * *
1862747 CCACCACCACCCCCATTGATGTCTGGTGCCCCACCTCCACCA
1 CCTCCACCACCCCCATCGATGTCTAGTGCCCCACCT---CCA
* *
1862789 CCTCCACCACCCCAATCGATGTCTAGTGCACCACCTC
1 CCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
1862826 GAGCTCCTCC
Statistics
Matches: 177, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
39 66 0.37
42 66 0.37
43 1 0.01
44 3 0.02
45 3 0.02
46 1 0.01
47 37 0.21
ACGTcount: A:0.17, C:0.52, G:0.11, T:0.20
Consensus pattern (39 bp):
CCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTCCA
Found at i:1862659 original size:42 final size:42
Alignment explanation
Indices: 1862597--1862825 Score: 272
Period size: 42 Copynumber: 5.5 Consensus size: 42
1862587 CACCCCTACC
*
1862597 GATGTCTAGTGTCCCA---CCTCCACCTCCACCACCCCCATT
1 GATGTCTAGTGCCCCACCTCCTCCACCTCCACCACCCCCATT
* *
1862636 GATGTCTCGTGCCCCATCTCCTCCACCTCCACCTCCACCACCCCATT
1 GATGTCTAGTGCCCCACCTCCTCCACCTCCA---CCA-C-CCCCATT
* *
1862683 GATGTCTCGTGCCCCACCTCCTCCACCTCCACCACCCCCATC
1 GATGTCTAGTGCCCCACCTCCTCCACCTCCACCACCCCCATT
*
1862725 GATGTCTAGTGCCCCACCTCCGCCA---CCACCACCCCCATT
1 GATGTCTAGTGCCCCACCTCCTCCACCTCCACCACCCCCATT
* * * *
1862764 GATGTCTGGTGCCCCACCTCCACCACCTCCACCACCCCAATC
1 GATGTCTAGTGCCCCACCTCCTCCACCTCCACCACCCCCATT
*
1862806 GATGTCTAGTGCACCACCTC
1 GATGTCTAGTGCCCCACCTC
1862826 GAGCTCCTCC
Statistics
Matches: 166, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
39 50 0.30
42 71 0.43
43 1 0.01
44 3 0.02
45 3 0.02
46 1 0.01
47 37 0.22
ACGTcount: A:0.17, C:0.51, G:0.11, T:0.21
Consensus pattern (42 bp):
GATGTCTAGTGCCCCACCTCCTCCACCTCCACCACCCCCATT
Found at i:1862823 original size:81 final size:80
Alignment explanation
Indices: 1862658--1862825 Score: 273
Period size: 81 Copynumber: 2.1 Consensus size: 80
1862648 CCCATCTCCT
* * *
1862658 CCACCTCCACCTCCACCACCCCATTGATGTCTCGTGCCCCACCTCCTCCACCTCCACCACCCCCA
1 CCACCTCCACCACCACCACCCCATTGATGTCTCGTGCCCCACCTCCACCACCTCCACCACCCCAA
*
1862723 TCGATGTCTAGTGCC
66 TCGATGTCTAGTGCA
* *
1862738 CCACCTCCGCCACCACCACCCCCATTGATGTCTGGTGCCCCACCTCCACCACCTCCACCACCCCA
1 CCACCTCCACCACCACCA-CCCCATTGATGTCTCGTGCCCCACCTCCACCACCTCCACCACCCCA
1862803 ATCGATGTCTAGTGCA
65 ATCGATGTCTAGTGCA
1862819 CCACCTC
1 CCACCTC
1862826 GAGCTCCTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 16 0.20
81 65 0.80
ACGTcount: A:0.18, C:0.53, G:0.11, T:0.18
Consensus pattern (80 bp):
CCACCTCCACCACCACCACCCCATTGATGTCTCGTGCCCCACCTCCACCACCTCCACCACCCCAA
TCGATGTCTAGTGCA
Found at i:1862835 original size:42 final size:42
Alignment explanation
Indices: 1862575--1862844 Score: 266
Period size: 42 Copynumber: 6.5 Consensus size: 42
1862565 GCTCCATCCG
* * * * *
1862575 CACCTCCTCCGCCACCCCTACCGATGTCTAGTGTCCCACCT-
1 CACCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
* *
1862616 --CCACCTCCACCACCCCCATTGATGTCTCGTGCCCCATCTCCTC
1 CACCACCTCCACCACCCCCATCGATGTCTAGTGCCCCA---CCTC
* *
1862659 CACCTCCACCTCCACCA-CCCCATTGATGTCTCGTGCCCCACCTC
1 CA---CCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
*
1862703 CTCCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
1 CACCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
* * *
1862745 CGCCA---CCACCACCCCCATTGATGTCTGGTGCCCCACCTC
1 CACCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
* *
1862784 CACCACCTCCACCACCCCAATCGATGTCTAGTGCACCACCTC
1 CACCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
* * * *
1862826 GAGCTCCTCCTCCACCCCC
1 CACCACCTCCACCACCCCC
1862845 TCCCCCTTTG
Statistics
Matches: 193, Mismatches: 23, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
39 65 0.34
41 12 0.06
42 76 0.39
44 5 0.03
47 23 0.12
48 12 0.06
ACGTcount: A:0.16, C:0.53, G:0.11, T:0.20
Consensus pattern (42 bp):
CACCACCTCCACCACCCCCATCGATGTCTAGTGCCCCACCTC
Found at i:1862891 original size:30 final size:32
Alignment explanation
Indices: 1862834--1862907 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 32
1862824 TCGAGCTCCT
* * *
1862834 CCTCCACCCCCTCCCCCTTTGTGTGGAGTGCCA
1 CCTCCACCTCCTCCCCC-TTGTATGGAGCGCCA
1862867 CCTCCACCTCCTCCCCC-T-TATGGAGCGCCA
1 CCTCCACCTCCTCCCCCTTGTATGGAGCGCCA
*
1862897 CCTCCTCCTCC
1 CCTCCACCTCC
1862908 CCCACGTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 20 0.54
31 1 0.03
33 16 0.43
ACGTcount: A:0.09, C:0.54, G:0.14, T:0.23
Consensus pattern (32 bp):
CCTCCACCTCCTCCCCCTTGTATGGAGCGCCA
Found at i:1863078 original size:27 final size:27
Alignment explanation
Indices: 1863048--1863111 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
1863038 GGTCCTGGCC
*
1863048 CTCCACCTCCACCTGGAGCTCCTGGTG
1 CTCCACCTCCACCTGGAGCCCCTGGTG
*
1863075 CTCCAGCTCCACCTGGAGCCCCTGGTG
1 CTCCACCTCCACCTGGAGCCCCTGGTG
*
1863102 GTCCACCTCC
1 CTCCACCTCC
1863112 TCCCCCTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.11, C:0.47, G:0.22, T:0.20
Consensus pattern (27 bp):
CTCCACCTCCACCTGGAGCCCCTGGTG
Found at i:1871854 original size:19 final size:20
Alignment explanation
Indices: 1871826--1871873 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1871816 TAGAAATAAA
*
1871826 TTTAATTTTTA-TATTTGAG
1 TTTAAATTTTATTATTTGAG
*
1871845 TTTAAATTTTATTATTTGTG
1 TTTAAATTTTATTATTTGAG
*
1871865 TTTGAATTT
1 TTTAAATTT
1871874 AAGCTTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (20 bp):
TTTAAATTTTATTATTTGAG
Found at i:1871868 original size:26 final size:25
Alignment explanation
Indices: 1871822--1871875 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
1871812 TTAGTAGAAA
*
1871822 TAAATTTAATTTTTATATTTGAGTT
1 TAAATTTAATTTTTATATTTGAATT
* * *
1871847 TAAATTTTATTATTTGTGTTTGAATT
1 TAAATTTAATT-TTTATATTTGAATT
1871873 TAA
1 TAA
1871876 GCTTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (25 bp):
TAAATTTAATTTTTATATTTGAATT
Found at i:1875893 original size:2 final size:2
Alignment explanation
Indices: 1875882--1875919 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1875872 TTTAATCTTC
1875882 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1875920 AAGTTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1876130 original size:14 final size:14
Alignment explanation
Indices: 1876113--1876149 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
1876103 ATTTAATATA
1876113 TTTAAAATTTTATT
1 TTTAAAATTTTATT
1876127 TTTAAAA-TTTATT
1 TTTAAAATTTTATT
1876140 TTATAAAATT
1 TT-TAAAATT
1876150 AAACTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 12 0.57
15 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAAATTTTATT
Found at i:1876296 original size:2 final size:2
Alignment explanation
Indices: 1876289--1876332 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
1876279 CATACATGTA
1876289 AT AT AT AT AT AT AT -T AT AT AT AT AGT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
1876331 AT
1 AT
1876333 TTCAACTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1876308 original size:13 final size:14
Alignment explanation
Indices: 1876289--1876332 Score: 72
Period size: 13 Copynumber: 3.1 Consensus size: 14
1876279 CATACATGTA
1876289 ATATATATATATAT
1 ATATATATATATAT
1876303 -TATATATATAGTAT
1 ATATATATATA-TAT
1876317 ATATATATATATAT
1 ATATATATATATAT
1876331 AT
1 AT
1876333 TTCAACTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.36
14 8 0.29
15 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:1876731 original size:6 final size:6
Alignment explanation
Indices: 1876722--1876748 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1876712 ATTATCATTA
1876722 TAATAT TAATAT TAATAT TAATAT TAA
1 TAATAT TAATAT TAATAT TAATAT TAA
1876749 CATGATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATAT
Found at i:1877954 original size:2 final size:2
Alignment explanation
Indices: 1877947--1877982 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1877937 TTCTTTCTAT
*
1877947 TA TA TA TA TA TA T- TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1877983 TATGAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1878265 original size:2 final size:2
Alignment explanation
Indices: 1878258--1878294 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1878248 TTAAATAGGA
1878258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1878295 ATTTGTGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1878575 original size:16 final size:17
Alignment explanation
Indices: 1878542--1878579 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1878532 TCTTTTAAAT
*
1878542 ATTATTTATATTTAATA
1 ATTATTTATATATAATA
*
1878559 ATTATTTA-ATATCATA
1 ATTATTTATATATAATA
1878575 ATTAT
1 ATTAT
1878580 ATATTGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTATATATAATA
Found at i:1878898 original size:16 final size:16
Alignment explanation
Indices: 1878859--1878905 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
1878849 TCAATTAGCC
*
1878859 AAATATATATTCT-TTT
1 AAATAT-TATTATATTT
1878875 AAATATTATTTATATTT
1 AAATATTA-TTATATTT
1878892 AAA-ATTATTATATT
1 AAATATTATTATATT
1878906 CATAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.32
16 13 0.46
17 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTATTATATTT
Found at i:1878902 original size:15 final size:15
Alignment explanation
Indices: 1878872--1878919 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1878862 TATATATTCT
1878872 TTTAAATATTATTTATA
1 TTTAAA-ATTA-TTATA
1878889 TTTAAAATTATTATA
1 TTTAAAATTATTATA
* *
1878904 TTCATAATTA-TATA
1 TTTAAAATTATTATA
1878918 TT
1 TT
1878920 GAATTAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 13 0.45
16 4 0.14
17 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATTATTATA
Found at i:1879043 original size:335 final size:339
Alignment explanation
Indices: 1878367--1879047 Score: 1212
Period size: 335 Copynumber: 2.0 Consensus size: 339
1878357 ATAGTGTATA
*
1878367 AAAAAAATCATCTATTCATGGAATGTAAAAAAATTAATTCAGTTGATAAAATTATATTAAATCAA
1 AAAAAAATCATCTATTCATCGAATGTAAAAAAATTAATTCAGTTGATAAAATTATATTAAATCAA
1878432 TAAAAAATTAATTTTATTAAATTTATTTAACTATTTTTTATTATTGATGAATTTAAAATTTTAAT
66 TAAAAAATTAATTTTATTAAATTTATTTAACTATTTTTTATTATTGATGAATTTAAAATTTTAAT
1878497 CACTTGAAGATTGTATCAATTAGCCAAATATATATTCTTTTAAATATTATTTATATTTAATAATT
131 CACTTGAAGATTGTATCAATTAGCCAAATATATATTCTTTTAAATATTATTTATATTTAATAATT
*
1878562 ATTTAATATCATAATTATATATTGAATTGAACTATAAGATATAATCAATTAAAGTAATTGAATCA
196 ATTTAATATCATAATTATATATTGAATTAAACTATAAGATATAATCAATTAAAGTAATTGAATCA
* *
1878627 ATAACTGAAAATTTAACCTATTTAACTTTTGATTCGATTTTTATTTACGATTTATTATTGAGTTA
261 ATAACTGAAAATTTAACCTATTTAACTTTTAATTCGATTTTTATTTAAGATTTATTATTGAGTTA
1878692 AGTAGAAAAGTAAT
326 AGTAGAAAAGTAAT
*
1878706 AAAAAAATCATCTATTCATCG-ATGTAAAAAATTTAATTCAGTTGATAAAATTATATTAAATCAA
1 AAAAAAATCATCTATTCATCGAATGTAAAAAAATTAATTCAGTTGATAAAATTATATTAAATCAA
*
1878770 T-AAAAATTAATTTTATTAAATTTATTTAATTATTTTTTATTATTGATGAATTTAAAATTTTAAT
66 TAAAAAATTAATTTTATTAAATTTATTTAACTATTTTTTATTATTGATGAATTTAAAATTTTAAT
*
1878834 CTCTTGAAGATTGTATCAATTAGCCAAATATATATTCTTTTAAATATTATTTATATTTAA-AATT
131 CACTTGAAGATTGTATCAATTAGCCAAATATATATTCTTTTAAATATTATTTATATTTAATAATT
* *
1878898 A-TT-ATATTCATAATTATATATTGAATTAAACTATACGATATAATCAATTAGAGTAATTGAATC
196 ATTTAATA-TCATAATTATATATTGAATTAAACTATAAGATATAATCAATTAAAGTAATTGAATC
1878961 AATAACTGAAAATTTAACCTATTTAACTTTTAA-TCTGATTTTTATTTAAGATTTATTATTGAGT
260 AATAACTGAAAATTTAACCTATTTAACTTTTAATTC-GATTTTTATTTAAGATTTATTATTGAGT
*
1879025 TAATTAGAAAAGTAAT
324 TAAGTAGAAAAGTAAT
1879041 AAAAAAA
1 AAAAAAA
1879048 GTACTATCTT
Statistics
Matches: 330, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
334 5 0.02
335 136 0.41
336 5 0.02
337 121 0.37
338 43 0.13
339 20 0.06
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (339 bp):
AAAAAAATCATCTATTCATCGAATGTAAAAAAATTAATTCAGTTGATAAAATTATATTAAATCAA
TAAAAAATTAATTTTATTAAATTTATTTAACTATTTTTTATTATTGATGAATTTAAAATTTTAAT
CACTTGAAGATTGTATCAATTAGCCAAATATATATTCTTTTAAATATTATTTATATTTAATAATT
ATTTAATATCATAATTATATATTGAATTAAACTATAAGATATAATCAATTAAAGTAATTGAATCA
ATAACTGAAAATTTAACCTATTTAACTTTTAATTCGATTTTTATTTAAGATTTATTATTGAGTTA
AGTAGAAAAGTAAT
Found at i:1880285 original size:35 final size:35
Alignment explanation
Indices: 1880210--1880286 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
1880200 ATTTAATTAA
*
1880210 AATTATTATTTAATTAATAAAAAGTTTATATTTTAT
1 AATT-TTATTTAAATAATAAAAAGTTTATATTTTAT
* *
1880246 -ATTTTATTTAAAT-ATATAAAATTTTTTATTTTAT
1 AATTTTATTTAAATAATA-AAAAGTTTATATTTTAT
1880280 AATTTTA
1 AATTTTA
1880287 AAATTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 3 0.08
34 24 0.67
35 9 0.25
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (35 bp):
AATTTTATTTAAATAATAAAAAGTTTATATTTTAT
Found at i:1880734 original size:35 final size:34
Alignment explanation
Indices: 1880661--1880736 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
1880651 ATTCATTGGA
1880661 TAAAAAATTTTATTATTTAAAATATATTTAAATGT
1 TAAAAAATTTTATTATTTAAAATATATTTAAA-GT
* *
1880696 TAAAAAATTATTTTTATATTAATATAT-TTTATAA-T
1 TAAAAAATT-TTATTAT-TTAAAATATATTTA-AAGT
1880731 TAAAAA
1 TAAAAA
1880737 TTTAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
35 16 0.44
36 10 0.28
37 10 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
TAAAAAATTTTATTATTTAAAATATATTTAAAGT
Found at i:1881283 original size:18 final size:19
Alignment explanation
Indices: 1881245--1881321 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 19
1881235 TATTATATAT
*
1881245 TTATATTAAATTTTAATATA
1 TTATA-TAAATTTTAAAATA
1881265 TTATATAAA-TTTAAAATA
1 TTATATAAATTTTAAAATA
** *
1881283 TT-TATATTTTTTAATATA
1 TTATATAAATTTTAAAATA
* *
1881301 TTAT-T-ATTTTTAAATTA
1 TTATATAAATTTTAAAATA
1881318 TTAT
1 TTAT
1881322 TTTATATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
17 17 0.35
18 21 0.44
19 5 0.10
20 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATATAAATTTTAAAATA
Found at i:1881304 original size:17 final size:17
Alignment explanation
Indices: 1881255--1881321 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
1881245 TTATATTAAA
*
1881255 TTTTAATATATTATATAA
1 TTTTAATATATTATAT-T
* *
1881273 ATTTAAAATATTTATATT
1 TTTTAATATA-TTATATT
1881291 TTTTAATATATTATTATT
1 TTTTAATATATTA-TATT
*
1881309 TTTAAAT-TATTAT
1 TTTTAATATATTAT
1881322 TTTATATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
16 1 0.02
17 8 0.20
18 26 0.63
19 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATATATTATATT
Found at i:1881617 original size:19 final size:19
Alignment explanation
Indices: 1881593--1881650 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
1881583 AAAATTAATT
1881593 TAATTTTATAATTTTTATA
1 TAATTTTATAATTTTTATA
* *
1881612 TAA-TTTATATTTATTTAATT
1 TAATTTTATAATT-TTT-ATA
*
1881632 TAATTATTATTATTTTTAT
1 TAATT-TTATAATTTTTAT
1881651 TTATTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 7 0.23
21 4 0.13
22 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TAATTTTATAATTTTTATA
Found at i:1881652 original size:20 final size:19
Alignment explanation
Indices: 1881590--1881653 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
1881580 TGTAAAATTA
*
1881590 ATTTAATTTTATAATTTTT
1 ATTTAATTTTATTATTTTT
* *
1881609 ATATAATTTATATT-TATTTA
1 ATTTAATTT-TATTAT-TTTT
1881629 ATTTAATTATTATTATTTTT
1 ATTTAATT-TTATTATTTTT
1881649 ATTTA
1 ATTTA
1881654 TTCTTGTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.25
20 25 0.69
21 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTAATTTTATTATTTTT
Found at i:1881749 original size:21 final size:23
Alignment explanation
Indices: 1881725--1881767 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
1881715 TATTAAAAAA
1881725 TTTAAACTATTAA-A-AATATAT
1 TTTAAACTATTAATATAATATAT
1881746 TTTAAACTATTAATATAATATA
1 TTTAAACTATTAATATAATATA
1881768 ATAATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAACTATTAATATAATATAT
Found at i:1885328 original size:12 final size:12
Alignment explanation
Indices: 1885311--1885344 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1885301 TACTGTCCCA
1885311 CCACCACCACCT
1 CCACCACCACCT
1885323 CCACCACCACCT
1 CCACCACCACCT
*
1885335 CCACCCCCAC
1 CCACCACCAC
1885345 TTGCACCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.71, G:0.00, T:0.06
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:1886511 original size:28 final size:27
Alignment explanation
Indices: 1886451--1886521 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
1886441 TTATATTATT
*
1886451 TTTTAATT-TAAT-AATTATATATATA
1 TTTTAATTATAATAAATTATATATAAA
1886476 TTTGTAATATATAATAAATT-TATATAAAA
1 TTT-TAAT-TATAATAAATTATATAT-AAA
1886505 TTTTAATTAATAATAAA
1 TTTTAATT-ATAATAAA
1886522 AAATTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
25 3 0.08
26 4 0.10
27 2 0.05
28 21 0.54
29 9 0.23
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
TTTTAATTATAATAAATTATATATAAA
Found at i:1886537 original size:6 final size:6
Alignment explanation
Indices: 1886526--1886556 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1886516 AATAAAAAAT
1886526 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
1886557 AAAATTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:1886597 original size:24 final size:23
Alignment explanation
Indices: 1886569--1886645 Score: 77
Period size: 22 Copynumber: 3.3 Consensus size: 23
1886559 AATTAGCATG
1886569 AAATTTATTTTTTATTTAATAAAT
1 AAATTTA-TTTTTATTTAATAAAT
* *
1886593 AAATTTA-TTTAAATTAATTAAATT
1 AAATTTATTTTTATTTAA-TAAA-T
* *
1886617 AAATTGATTTTTATTTAA-AATT
1 AAATTTATTTTTATTTAATAAAT
1886639 AAATTTA
1 AAATTTA
1886646 AATTTTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 15 0.35
23 6 0.14
24 14 0.33
25 8 0.19
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (23 bp):
AAATTTATTTTTATTTAATAAAT
Found at i:1886690 original size:12 final size:12
Alignment explanation
Indices: 1886654--1886691 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
1886644 TAAATTTTAA
1886654 AAATAAAATTTT
1 AAATAAAATTTT
*
1886666 -ATTAAAA-TTT
1 AAATAAAATTTT
1886676 AAATAAAATTTT
1 AAATAAAATTTT
1886688 AAAT
1 AAAT
1886692 TTTAAACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.14
11 12 0.55
12 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATAAAATTTT
Found at i:1886695 original size:19 final size:19
Alignment explanation
Indices: 1886629--1886697 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
1886619 ATTGATTTTT
* *
1886629 ATTTAAAATTAAA-TTTAA
1 ATTTTAAATAAAATTTTAA
1886647 ATTTTAAAAATAAAATTTTATTAA
1 ATTTT--AAATAAAA--TT-TTAA
*
1886671 AATTTAAATAAAATTTTAA
1 ATTTTAAATAAAATTTTAA
1886690 ATTTTAAA
1 ATTTTAAA
1886698 CCTTAAATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
18 4 0.10
19 11 0.27
20 9 0.22
22 8 0.20
23 1 0.02
24 8 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTAAATAAAATTTTAA
Found at i:1886881 original size:2 final size:2
Alignment explanation
Indices: 1886874--1886910 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1886864 TATTTGGGTT
1886874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1886911 AAAATTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1891102 original size:15 final size:16
Alignment explanation
Indices: 1891059--1891119 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 16
1891049 TAAAAATTTT
1891059 ATTATAATTAATTATA
1 ATTATAATTAATTATA
*
1891075 ATAAT-ATTAATTATA
1 ATTATAATTAATTATA
*
1891090 TTTATAATT-ATTATA
1 ATTATAATTAATTATA
*
1891105 AATATAATATAATTA
1 ATTATAAT-TAATTA
1891120 AAAATTACGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 25 0.68
16 8 0.22
17 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATAATTAATTATA
Found at i:1891484 original size:27 final size:26
Alignment explanation
Indices: 1891453--1891509 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
1891443 ATAAAAATAT
1891453 AATATTAAAAATAATTAAAATATTAAA
1 AATATTAAAAATAATTAAAATA-TAAA
** *
1891480 AATATTTTAAATAATTATAATATAAA
1 AATATTAAAAATAATTAAAATATAAA
1891506 AATA
1 AATA
1891510 ATTCAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATTAAAAATAATTAAAATATAAA
Found at i:1891983 original size:15 final size:15
Alignment explanation
Indices: 1891965--1892041 Score: 68
Period size: 15 Copynumber: 5.0 Consensus size: 15
1891955 AATATAATGT
1891965 TATAAAATATTATAA
1 TATAAAATATTATAA
* *
1891980 TATAATATAATATAA
1 TATAAAATATTATAA
*
1891995 TATAAAATTTATGATAA
1 TATAAAA--TATTATAA
*
1892012 TATAAATTATTA-ATA
1 TATAAAATATTATA-A
1892027 TGATAAAAT-TTATAA
1 T-ATAAAATATTATAA
1892042 AAATATATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.02
15 29 0.59
16 7 0.14
17 12 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TATAAAATATTATAA
Found at i:1892016 original size:5 final size:5
Alignment explanation
Indices: 1891965--1891999 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
1891955 AATATAATGT
* *
1891965 TATAA AATAT TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1892000 AATTTATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:1892056 original size:19 final size:20
Alignment explanation
Indices: 1892022--1892065 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
1892012 TATAAATTAT
1892022 TAATATGATAAAATTTATAAA
1 TAATATGATAAAATTT-TAAA
*
1892043 -AATAT-ATAATATTTTAAA
1 TAATATGATAAAATTTTAAA
1892061 TAATA
1 TAATA
1892066 AAAATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.19
19 12 0.57
20 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATATGATAAAATTTTAAA
Found at i:1892292 original size:14 final size:14
Alignment explanation
Indices: 1892251--1892300 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
1892241 TTTGATCTAT
1892251 TATTTATAATATAAA
1 TATTTAT-ATATAAA
1892266 TA-TTA-A-A-AAA
1 TATTTATATATAAA
*
1892276 TATTTTTATATAAA
1 TATTTATATATAAA
1892290 TATTTATATAT
1 TATTTATATAT
1892301 TTTTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 2 0.07
13 1 0.03
14 16 0.55
15 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTATATATAAA
Found at i:1892316 original size:22 final size:25
Alignment explanation
Indices: 1892248--1892345 Score: 87
Period size: 24 Copynumber: 3.9 Consensus size: 25
1892238 TAATTTGATC
* *
1892248 TATTATTTATAATATAAATATTAAAAAA
1 TATT-TTTATAAT-T-AATATTTAATAA
*
1892276 TATTTTTAT-ATAAATATTT-AT-A
1 TATTTTTATAATTAATATTTAATAA
1892298 TATTTTTATAATTAA-ATTTAATAA
1 TATTTTTATAATTAATATTTAATAA
*
1892322 TATTTTAATAAATTAATAATTTAA
1 TATTTTTAT-AATTAAT-ATTTAA
1892346 ATTATAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
22 14 0.24
23 7 0.12
24 15 0.25
25 6 0.10
26 2 0.03
27 11 0.19
28 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTTTATAATTAATATTTAATAA
Found at i:1892378 original size:22 final size:21
Alignment explanation
Indices: 1892316--1892381 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
1892306 TAATTAAATT
*
1892316 TAATAATATTTTAATAAATTAA
1 TAATAA-AATTTAATAAATTAA
*
1892338 TAATTTAAATTATAA-AAATTAA
1 TAA-TAAAATT-TAATAAATTAA
1892360 TAATAAAATTTAATTAAATTAA
1 TAATAAAATTTAA-TAAATTAA
1892382 ACGAATTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 6 0.16
22 23 0.62
23 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAAATTTAATAAATTAA
Found at i:1894060 original size:23 final size:24
Alignment explanation
Indices: 1894034--1894084 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
1894024 TCACTGAATT
*
1894034 TTTAAATAATAATAATTAAAT-AA
1 TTTAAATAAAAATAATTAAATAAA
* *
1894057 TTTAAATAAAAATATTTTAATAAA
1 TTTAAATAAAAATAATTAAATAAA
1894081 TTTA
1 TTTA
1894085 TTTCAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAATAAAAATAATTAAATAAA
Found at i:1894277 original size:13 final size:12
Alignment explanation
Indices: 1894250--1894286 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
1894240 CATATTTATT
*
1894250 TTTAAAAATTAA
1 TTTAAAAAATAA
1894262 TTTAAAATAATAA
1 TTTAAAA-AATAA
1894275 TTTAAAAAATAA
1 TTTAAAAAATAA
1894287 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTTAAAAAATAA
Found at i:1894289 original size:20 final size:20
Alignment explanation
Indices: 1894264--1894335 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
1894254 AAAATTAATT
1894264 TAAAATAATAATTTAAAAAA
1 TAAAATAATAATTTAAAAAA
**
1894284 TAAAATATATTTTTTAAAAAA
1 TAAAATA-ATAATTTAAAAAA
* **
1894305 T-AAATAAATATTTTAAACGA
1 TAAAAT-AATAATTTAAAAAA
*
1894325 TAAAAAAATAA
1 TAAAATAATAA
1894336 ATAAATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
TAAAATAATAATTTAAAAAA
Found at i:1894301 original size:21 final size:22
Alignment explanation
Indices: 1894275--1894318 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
1894265 AAAATAATAA
*
1894275 TTTAAAAAATAAA-ATATATTT
1 TTTAAAAAATAAATAAATATTT
1894296 TTTAAAAAATAAATAAATATTT
1 TTTAAAAAATAAATAAATATTT
1894318 T
1 T
1894319 AAACGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAAAAAATAAATAAATATTT
Found at i:1894351 original size:24 final size:24
Alignment explanation
Indices: 1894278--1894354 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 24
1894268 ATAATAATTT
*
1894278 AAAAAATAAA-ATATATTTTT-T-
1 AAAAAATAAATAAATATTTTTATA
*
1894299 AAAAAATAAATAAATATTTTAAACGATA
1 AAAAAATAAATAAATATTTT----TATA
1894327 AAAAAATAAATAAATATTTTTATA
1 AAAAAATAAATAAATATTTTTATA
1894351 AAAA
1 AAAA
1894355 TTTAAAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.22
22 8 0.17
24 7 0.15
27 1 0.02
28 20 0.43
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (24 bp):
AAAAAATAAATAAATATTTTTATA
Found at i:1906620 original size:16 final size:16
Alignment explanation
Indices: 1906601--1906636 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1906591 TTTCGACAAT
*
1906601 TTAATTTGTATTATAA
1 TTAATTTATATTATAA
*
1906617 TTAATTTATTTTATAA
1 TTAATTTATATTATAA
1906633 TTAA
1 TTAA
1906637 GTATTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTAATTTATATTATAA
Found at i:1914817 original size:61 final size:61
Alignment explanation
Indices: 1914722--1914846 Score: 216
Period size: 61 Copynumber: 2.0 Consensus size: 61
1914712 GGAGACCAAA
*
1914722 TTCAACTTAGCATAAACATACACGAAAAAGGTGCAAATTTGGAAAACAATTAGCAGTGTTC
1 TTCAACTTAGCATAAACATACACGAAAAAGGTGCAAATTTGGAAAACAATTAGCAGTATTC
*
1914783 TTCAACTTAGCATAAACATACA-TAAACAAGGTGCAAATTTGGAAAACAATTAGCAGTATTC
1 TTCAACTTAGCATAAACATACACGAAA-AAGGTGCAAATTTGGAAAACAATTAGCAGTATTC
1914844 TTC
1 TTC
1914847 CATCCGCAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 3 0.05
61 58 0.95
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (61 bp):
TTCAACTTAGCATAAACATACACGAAAAAGGTGCAAATTTGGAAAACAATTAGCAGTATTC
Found at i:1915080 original size:147 final size:147
Alignment explanation
Indices: 1914813--1915106 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
1914803 CATAAACAAG
1914813 GTGCAAATTTGGAAAACAATTAGCAGTATTCTTCCATCCGCAATTTTGGTCCAAAGTAAGCACCA
1 GTGCAAATTTGGAAAACAATTAGCAGTATTCTTCCATCCGCAATTTTGGTCCAAAGTAAGCACCA
1914878 ACCATACGACCAGAATTTCATCAAATTGCATATATGATATACCCAACATTAGGTAGTCAATAATT
66 ACCATACGACCAGAATTTCATCAAATTGCATATATGATATACCCAACATTAGGTAGTCAATAATT
1914943 TCATTGTAAAGAAAACC
131 TCATTGTAAAGAAAACC
1914960 GTGCAAATTTGGAAAACAATTAGCAGTATTCTTCCATCCGCAATTTTGGTCCAAAGTAAGCACCA
1 GTGCAAATTTGGAAAACAATTAGCAGTATTCTTCCATCCGCAATTTTGGTCCAAAGTAAGCACCA
*
1915025 ACCATACTACCAGAATTTCATCAAATTGCATATATGATATACCCAACATTAGGTAGTCAATAATT
66 ACCATACGACCAGAATTTCATCAAATTGCATATATGATATACCCAACATTAGGTAGTCAATAATT
1915090 TCATTGTAAAGAAAACC
131 TCATTGTAAAGAAAACC
1915107 CCAAAACTTA
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (147 bp):
GTGCAAATTTGGAAAACAATTAGCAGTATTCTTCCATCCGCAATTTTGGTCCAAAGTAAGCACCA
ACCATACGACCAGAATTTCATCAAATTGCATATATGATATACCCAACATTAGGTAGTCAATAATT
TCATTGTAAAGAAAACC
Found at i:1916238 original size:27 final size:27
Alignment explanation
Indices: 1916186--1916239 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1916176 AATATTTTAA
*
1916186 TAATTTTCAATTAATAAAATATATTTT
1 TAATTTTCAATTAATAAAATAAATTTT
* *
1916213 TAATTTT-ATTTAATCAAATTAAATTTT
1 TAATTTTCAATTAAT-AAAATAAATTTT
1916240 AAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TAATTTTCAATTAATAAAATAAATTTT
Found at i:1917406 original size:15 final size:16
Alignment explanation
Indices: 1917388--1917434 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1917378 TTTAAAAAAA
1917388 AAAATA-ATAATTAAT
1 AAAATATATAATTAAT
*
1917403 AAAATATATATTTAAT
1 AAAATATATAATTAAT
**
1917419 TTAATAATATAATTAA
1 AAAAT-ATATAATTAA
1917435 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATATAATTAAT
Found at i:1917438 original size:31 final size:31
Alignment explanation
Indices: 1917392--1917481 Score: 75
Period size: 30 Copynumber: 3.0 Consensus size: 31
1917382 AAAAAAAAAA
1917392 TAATAAT-TAA-T-AAAATATATATTTAATT
1 TAATAATATAATTAAAAATATATATTTAATT
* * *
1917420 TAATAATATAATTAAAAATTTAAATTTTA-T
1 TAATAATATAATTAAAAATATATATTTAATT
* *
1917450 TAATTAA-A-AATAAAAAAATATATAATTAATT
1 TAA-TAATATAAT-TAAAAATATATATTTAATT
1917481 T
1 T
1917482 TTTACTCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
28 7 0.15
29 6 0.12
30 18 0.38
31 17 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATAATATAATTAAAAATATATATTTAATT
Found at i:1917861 original size:25 final size:23
Alignment explanation
Indices: 1917816--1917862 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1917806 TTATTTTTAA
* *
1917816 AAATTTTTATTAATAATCAGTTT
1 AAATTATTATTAATAAACAGTTT
1917839 AAATTATTATTGAACTAAACAGTT
1 AAATTATTATT-AA-TAAACAGTT
1917863 AAACCCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (23 bp):
AAATTATTATTAATAAACAGTTT
Found at i:1918761 original size:2 final size:2
Alignment explanation
Indices: 1918754--1918785 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1918744 ATATTGCTAT
1918754 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1918786 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1918790 original size:2 final size:2
Alignment explanation
Indices: 1918785--1918825 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1918775 ATATATATAT
*
1918785 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1918826 AACAATCGCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1924382 original size:20 final size:20
Alignment explanation
Indices: 1924326--1924399 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1924316 TATCTATTCG
1924326 TATTATA-TTAAATTATTTT
1 TATTATATTTAAATTATTTT
*
1924345 TA-TATCATAT-AA-TATTTT
1 TATTAT-ATTTAAATTATTTT
1924363 TATTATATTTAAATTATTTT
1 TATTATATTTAAATTATTTT
*
1924383 TATTATATTTATATTAT
1 TATTATATTTAAATTAT
1924400 ATAATTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 14 0.30
19 10 0.21
20 23 0.49
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATATTTAAATTATTTT
Found at i:1924387 original size:9 final size:11
Alignment explanation
Indices: 1924351--1924401 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
1924341 TTTTTATATC
*
1924351 ATATAATATTT
1 ATATTATATTT
*
1924362 TTATTATATTT
1 ATATTATATTT
*
1924373 AAATTAT-TTT
1 ATATTATATTT
1924383 -TATTATATTT
1 ATATTATATTT
1924393 ATATTATAT
1 ATATTATAT
1924402 AATTATATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 5 0.15
10 6 0.18
11 22 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTATATTT
Found at i:1924538 original size:31 final size:31
Alignment explanation
Indices: 1924503--1924621 Score: 195
Period size: 31 Copynumber: 3.8 Consensus size: 31
1924493 ACCTGTGGCT
* *
1924503 TGGACTTTTCCCGCTTGCCAACGCTGTTTGG
1 TGGACTTTTCCCGATTGCCAAAGCTGTTTGG
1924534 TGGACTTTTCCCGATTGCCAAAGCTGTTTGG
1 TGGACTTTTCCCGATTGCCAAAGCTGTTTGG
*
1924565 TGGATTTTTCCCGATTGCCAAAGCTGTTTGG
1 TGGACTTTTCCCGATTGCCAAAGCTGTTTGG
1924596 CT-GACTTTTCCCGATTGCCAAAGCTG
1 -TGGACTTTTCCCGATTGCCAAAGCTG
1924622 GTCGGGATTT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.35
Consensus pattern (31 bp):
TGGACTTTTCCCGATTGCCAAAGCTGTTTGG
Found at i:1926595 original size:13 final size:14
Alignment explanation
Indices: 1926579--1926608 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1926569 ATTTACATTA
1926579 ATTATTTAT-AGAT
1 ATTATTTATAAGAT
1926592 ATTATTTATAAGAT
1 ATTATTTATAAGAT
1926606 ATT
1 ATT
1926609 GTTTTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
ATTATTTATAAGAT
Found at i:1927289 original size:16 final size:17
Alignment explanation
Indices: 1927263--1927294 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1927253 ATTTAAAAAA
1927263 ATAATATATAAATAGTG
1 ATAATATATAAATAGTG
1927280 ATAA-ATATAAATAGT
1 ATAATATATAAATAGT
1927295 AAGTTAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (17 bp):
ATAATATATAAATAGTG
Found at i:1930728 original size:2 final size:2
Alignment explanation
Indices: 1930721--1930746 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1930711 ATACTGCTAT
1930721 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1930747 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1930751 original size:2 final size:2
Alignment explanation
Indices: 1930746--1930806 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1930736 ATATATATAT
1930746 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1930788 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
1930807 AATAATCGGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1932261 original size:2 final size:2
Alignment explanation
Indices: 1932254--1932281 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1932244 ATATTGTTAT
1932254 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1932282 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1932286 original size:2 final size:2
Alignment explanation
Indices: 1932281--1932305 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1932271 ATATATATAT
1932281 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1932306 AACAATCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1932937 original size:14 final size:14
Alignment explanation
Indices: 1932918--1932944 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1932908 CAAAATACTA
1932918 TATTTTTATTAAAG
1 TATTTTTATTAAAG
1932932 TATTTTTATTAAA
1 TATTTTTATTAAA
1932945 AATGCAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TATTTTTATTAAAG
Found at i:1934527 original size:13 final size:14
Alignment explanation
Indices: 1934503--1934547 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
1934493 GAAGCGGTAG
*
1934503 ATATAAAATTATTT
1 ATATATAATTATTT
1934517 ATAT-TAATTATTT
1 ATATATAATTATTT
1934530 ATATATATATTATTT
1 ATATATA-ATTATTT
1934545 ATA
1 ATA
1934548 AGATATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.43
14 6 0.21
15 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATAATTATTT
Found at i:1936272 original size:24 final size:24
Alignment explanation
Indices: 1936245--1936295 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
1936235 TTTTTGGTTG
*
1936245 TTTAATTTGAAATAATAATTTATT
1 TTTAATTTGAAAAAATAATTTATT
*
1936269 TTTAATTTGAAAAAATTATTTATT
1 TTTAATTTGAAAAAATAATTTATT
1936293 TTT
1 TTT
1936296 TATTGGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAATTTGAAAAAATAATTTATT
Found at i:1936307 original size:24 final size:24
Alignment explanation
Indices: 1936245--1936313 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
1936235 TTTTTGGTTG
* * *
1936245 TTTAATTTGAAATAATAATTTATT
1 TTTAATTGGAAAAAATTATTTATT
*
1936269 TTTAATTTGAAAAAATTATTTATT
1 TTTAATTGGAAAAAATTATTTATT
* *
1936293 TTTTATTGGATAAAAACTATT
1 TTTAATTGGA-AAAAATTATT
1936314 CATCTTATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 30 0.77
25 9 0.23
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTAATTGGAAAAAATTATTTATT
Found at i:1940021 original size:24 final size:24
Alignment explanation
Indices: 1939994--1940039 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1939984 CTATTTGAAT
*
1939994 TGATGATAAAATTAAAAATAATGA
1 TGATCATAAAATTAAAAATAATGA
*
1940018 TGATCATAAAATTAAAATTAAT
1 TGATCATAAAATTAAAAATAAT
1940040 AATAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (24 bp):
TGATCATAAAATTAAAAATAATGA
Found at i:1940212 original size:17 final size:17
Alignment explanation
Indices: 1940148--1940213 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
1940138 TTAATAATTA
1940148 AAAATTTATAA-T-TATT
1 AAAA-TTATAATTATATT
* *
1940164 GAAATTATATTTATATT
1 AAAATTATAATTATATT
* *
1940181 -AAATAATAAAATATATT
1 AAAATTAT-AATTATATT
1940198 AAAATTATAATTATAT
1 AAAATTATAATTATAT
1940214 CCGATAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.13
16 10 0.26
17 18 0.46
18 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAATTATAATTATATT
Found at i:1941302 original size:3 final size:3
Alignment explanation
Indices: 1941294--1941318 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1941284 AAATTTTTGC
1941294 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1941319 TTGTACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1941999 original size:5 final size:5
Alignment explanation
Indices: 1941982--1942065 Score: 84
Period size: 5 Copynumber: 16.8 Consensus size: 5
1941972 TTTTAAAAAA
* * *
1941982 ATATT AT-TT ATATT ATATT AATATT ATTTT ATATT ATATA ATATT TTATT
1 ATATT ATATT ATATT ATATT -ATATT ATATT ATATT ATATT ATATT ATATT
*
1942032 ATATT -TAATT AT-TT TTATT ATATTT ATATT ATAT
1 ATATT AT-ATT ATATT ATATT ATA-TT ATATT ATAT
1942066 AAGTACGTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
4 8 0.12
5 46 0.71
6 11 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
ATATT
Found at i:1944574 original size:19 final size:18
Alignment explanation
Indices: 1944551--1944603 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
1944541 ATCATCACAT
1944551 ATTTAAAAATATTATATA
1 ATTTAAAAATATTATATA
* *
1944569 ATTTTAATATATT-TAT-
1 ATTTAAAAATATTATATA
* *
1944585 ATTAAAAAATAATATATA
1 ATTTAAAAATATTATATA
1944603 A
1 A
1944604 GTAGACAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAAAAATATTATATA
Found at i:1945417 original size:20 final size:21
Alignment explanation
Indices: 1945392--1945431 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1945382 ATCAATTAAT
1945392 TTTAAAAAATTA-AAAAAATA
1 TTTAAAAAATTATAAAAAATA
*
1945412 TTTAAATAATTATAAAAAAT
1 TTTAAAAAATTATAAAAAAT
1945432 TTCATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTAAAAAATTATAAAAAATA
Found at i:1945754 original size:13 final size:12
Alignment explanation
Indices: 1945736--1945806 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 12
1945726 GGAGTTTTGT
1945736 TATTATATATTCA
1 TATTATATATT-A
1945749 TATTATAT-TTA
1 TATTATATATTA
1945760 TA-TATATCATTA
1 TATTATAT-ATTA
1945772 TATTATA-ATTA
1 TATTATATATTA
*
1945783 TATT-TA-A-AA
1 TATTATATATTA
*
1945792 TATTTTATATTA
1 TATTATATATTA
1945804 TAT
1 TAT
1945807 AAATTTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
9 5 0.10
10 10 0.20
11 12 0.24
12 11 0.22
13 12 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATATATTA
Found at i:1945774 original size:23 final size:23
Alignment explanation
Indices: 1945735--1945785 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1945725 TGGAGTTTTG
*
1945735 TTAT-TATATATTCATATTATAT
1 TTATATATATATTCATATTATAA
1945757 TTATATATATCATT-ATATTATAA
1 TTATATATAT-ATTCATATTATAA
1945780 TTATAT
1 TTATAT
1945786 TTAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 19 0.73
24 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATATATATATTCATATTATAA
Found at i:1945808 original size:29 final size:28
Alignment explanation
Indices: 1945741--1945805 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
1945731 TTTGTTATTA
*
1945741 TATATTCAT-ATTATATTTATATATATCAT
1 TATATT-ATAATTATATTTA-AAATATCAT
*
1945770 TATATTATAATTATATTTAAAATAT-TT
1 TATATTATAATTATATTTAAAATATCAT
1945797 TATATTATA
1 TATATTATA
1945806 TAAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.30
28 7 0.21
29 16 0.48
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (28 bp):
TATATTATAATTATATTTAAAATATCAT
Found at i:1947946 original size:19 final size:19
Alignment explanation
Indices: 1947907--1947948 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1947897 GATCAGCGAT
* *
1947907 AGTTTATATTAATAGTGAA
1 AGTTTATATTAATAATAAA
1947926 AGTTTATATTAATAATAAA
1 AGTTTATATTAATAATAAA
1947945 AGTT
1 AGTT
1947949 CGTGATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (19 bp):
AGTTTATATTAATAATAAA
Found at i:1947980 original size:15 final size:16
Alignment explanation
Indices: 1947956--1947990 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1947946 GTTCGTGATT
*
1947956 ATAAATAATAAT-ATA
1 ATAAAAAATAATAATA
1947971 ATAAAAAATAATAATA
1 ATAAAAAATAATAATA
1947987 ATAA
1 ATAA
1947991 TAACTCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAAATAATAATA
Found at i:1947981 original size:18 final size:19
Alignment explanation
Indices: 1947958--1947993 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1947948 TCGTGATTAT
1947958 AAATAATAAT-ATAATAAA
1 AAATAATAATAATAATAAA
1947976 AAATAATAATAATAATAA
1 AAATAATAATAATAATAA
1947994 CTCGTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAATAATAATAATAAA
Found at i:1950147 original size:43 final size:43
Alignment explanation
Indices: 1950099--1950182 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
1950089 GTAAAGCATA
* * *
1950099 TTAGGTGTATTAGGTGATGTATTTGGTGAAAATGTTAGGTGAG
1 TTAGGTGTATTAGGTAATATATTTGGTGAAAATATTAGGTGAG
* *
1950142 TTAGGTGTGTTAGGTAATATATTTGGTGAGAATATTAGGTG
1 TTAGGTGTATTAGGTAATATATTTGGTGAAAATATTAGGTG
1950183 TATTAAGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (43 bp):
TTAGGTGTATTAGGTAATATATTTGGTGAAAATATTAGGTGAG
Found at i:1954991 original size:21 final size:21
Alignment explanation
Indices: 1954965--1955004 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1954955 TTTTGTGAGA
*
1954965 ATGTTAGGTGAGTTAGATAAT
1 ATGTTAGGTGAGTAAGATAAT
1954986 ATGTTAGGTGAGTAAGATA
1 ATGTTAGGTGAGTAAGATA
1955005 TTTTATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (21 bp):
ATGTTAGGTGAGTAAGATAAT
Found at i:1955480 original size:22 final size:22
Alignment explanation
Indices: 1955445--1955489 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1955435 AAAAAATCAT
* *
1955445 AAAATATTATAAAT-TATTTTA
1 AAAATATTAAAAATAAATTTTA
1955466 AAAATTATTAAAAATAAATTTTA
1 AAAA-TATTAAAAATAAATTTTA
1955489 A
1 A
1955490 TGATTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 9 0.45
23 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATTAAAAATAAATTTTA
Found at i:1956620 original size:19 final size:20
Alignment explanation
Indices: 1956596--1956638 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1956586 GTGTTTAAAA
*
1956596 ATATTAAAAA-ATTATTTTT
1 ATATTAAAAATATTATATTT
*
1956615 ATATTAAAAATTTTATATTT
1 ATATTAAAAATATTATATTT
1956635 ATAT
1 ATAT
1956639 AATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTAAAAATATTATATTT
Found at i:1956824 original size:44 final size:45
Alignment explanation
Indices: 1956769--1956864 Score: 178
Period size: 44 Copynumber: 2.2 Consensus size: 45
1956759 ATTTGCCTTC
1956769 TTTTCTTTCATTTCCTATCTTCAATCCTTTAACCTTACAAAATAA
1 TTTTCTTTCATTTCCTATCTTCAATCCTTTAACCTTACAAAATAA
1956814 TTTT-TTTCATTTCCTATCTTCAATCCTTTAACCTTACAAAATAA
1 TTTTCTTTCATTTCCTATCTTCAATCCTTTAACCTTACAAAATAA
1956858 -TTTCTTT
1 TTTTCTTT
1956865 AAGTGATTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
43 3 0.06
44 43 0.86
45 4 0.08
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (45 bp):
TTTTCTTTCATTTCCTATCTTCAATCCTTTAACCTTACAAAATAA
Found at i:1957030 original size:2 final size:2
Alignment explanation
Indices: 1957023--1957060 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1957013 GACCACCTTC
1957023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1957061 TATGGCCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1957585 original size:21 final size:21
Alignment explanation
Indices: 1957551--1957592 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1957541 TTTAACTTCA
*
1957551 TATTATAAAAATATATATAAT
1 TATTATAAAAATATACATAAT
**
1957572 TATTATAAGTATATACATAAT
1 TATTATAAAAATATACATAAT
1957593 ATACATAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATTATAAAAATATACATAAT
Found at i:1957699 original size:21 final size:21
Alignment explanation
Indices: 1957673--1957717 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1957663 AAATATAAAT
1957673 AAAATAAATAAAAT-ATTTTAA
1 AAAATAAA-AAAATAATTTTAA
*
1957694 AAAATAAAATAATAATTTTAA
1 AAAATAAAAAAATAATTTTAA
1957715 AAA
1 AAA
1957718 GTGAAGGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAAAAAAATAATTTTAA
Found at i:1957717 original size:22 final size:21
Alignment explanation
Indices: 1957668--1957717 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1957658 ATTGAAAATA
1957668 TAAATAAAATAAATAAAATATT
1 TAAA-AAAATAAATAAAATATT
*
1957690 TTAAAAAATAAAATAATAAT-TT
1 TAAAAAAAT-AAATAA-AATATT
1957712 TAAAAA
1 TAAAAA
1957718 GTGAAGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.21
22 16 0.67
23 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAAATAAATAAAATATT
Found at i:1960290 original size:16 final size:17
Alignment explanation
Indices: 1960264--1960295 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1960254 TGTTTGAAGA
1960264 TATTATTTAAATTAATT
1 TATTATTTAAATTAATT
1960281 TATT-TTTAAATTAAT
1 TATTATTTAAATTAAT
1960296 ATTTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTAAATTAATT
Found at i:1962045 original size:2 final size:2
Alignment explanation
Indices: 1962038--1962064 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1962028 TTGATCTGTG
1962038 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1962065 TCAATTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1965612 original size:2 final size:2
Alignment explanation
Indices: 1965605--1965630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1965595 CAACTTTCTT
1965605 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1965631 AACTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1967137 original size:27 final size:28
Alignment explanation
Indices: 1967073--1967138 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
1967063 TAACTTGAAA
* **
1967073 ATAATTAATTTTATATGTTTAATAGTTTT
1 ATAATTAA-TTAATATGTTTAATAAATTT
1967102 AT-ATATAATTAATAT-TTTAATAAATTT
1 ATAAT-TAATTAATATGTTTAATAAATTT
1967129 ATAATTAATT
1 ATAATTAATT
1967139 TTAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 17 0.53
28 10 0.31
29 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
ATAATTAATTAATATGTTTAATAAATTT
Found at i:1967245 original size:18 final size:19
Alignment explanation
Indices: 1967224--1967266 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1967214 TATAATTTAT
*
1967224 ATATTTAATAATTAA-AAA
1 ATATTTAATAAATAATAAA
* *
1967242 ATATTAAATAAATAATTAA
1 ATATTTAATAAATAATAAA
1967261 ATATTT
1 ATATTT
1967267 TAATTTACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATTTAATAAATAATAAA
Found at i:1967341 original size:20 final size:19
Alignment explanation
Indices: 1967318--1967373 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
1967308 ATATAAAAAT
1967318 AATAATTAAATTAAATAACA
1 AATAATTAAATTAAATAA-A
* *
1967338 AATATTTAAAATT-TATAAA
1 AATAATT-AAATTAAATAAA
*
1967357 AATATATTTAATTAAAT
1 AATA-ATTAAATTAAAT
1967374 TATTTTTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
19 9 0.32
20 14 0.50
21 5 0.18
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAATTAAATTAAATAAA
Found at i:1967413 original size:2 final size:2
Alignment explanation
Indices: 1967406--1967441 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1967396 ATCACTTATT
*
1967406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1967442 GAAATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1967854 original size:33 final size:34
Alignment explanation
Indices: 1967817--1967889 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 34
1967807 AAAAAATAAT
* *
1967817 AATAAATTTTTAT-TTTAAATTTAATAATATT-AA
1 AATAAATTATCATCTTT-AATTTAATAATATTAAA
1967850 AATAAA-TATCATCTTTAATTTAATAATATTAAA
1 AATAAATTATCATCTTTAATTTAATAATATTAAA
1967883 AATAAAT
1 AATAAAT
1967890 ATTATTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 18 0.51
33 17 0.49
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
AATAAATTATCATCTTTAATTTAATAATATTAAA
Found at i:1967875 original size:32 final size:34
Alignment explanation
Indices: 1967834--1967901 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 34
1967824 TTTTATTTTA
1967834 AATTTAATAATATT-AAAATAAATATCA-TCTTT
1 AATTTAATAATATTAAAAATAAATATCATTCTTT
*
1967866 AATTTAATAATATTAAAAATAAATATTATTCTTT
1 AATTTAATAATATTAAAAATAAATATCATTCTTT
1967900 AA
1 AA
1967902 ATTTTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 14 0.42
33 12 0.36
34 7 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (34 bp):
AATTTAATAATATTAAAAATAAATATCATTCTTT
Found at i:1968237 original size:13 final size:13
Alignment explanation
Indices: 1968219--1968247 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1968209 ATAATTAATA
1968219 ATTATTTAAATTT
1 ATTATTTAAATTT
1968232 ATTATTTAAATTT
1 ATTATTTAAATTT
1968245 ATT
1 ATT
1968248 TTATTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTTAAATTT
Done.