Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 90 of 295
Found at i:26494789 original size:40 final size:39
Alignment explanation
Indices: 26494744--26494850 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 39
26494734 CATTTCTATT
*
26494744 CGTATAAACTGTAATTCATTCATATAACCAGTAGTTCATC
1 CGTATAAACTGTAATTCATTCATATAA-CAGTAATTCATC
* * *
26494784 TGTATAAACAGTAGTTCA-TCAATAATAACAGTAATTCATC
1 CGTATAAACTGTAATTCATTC-AT-ATAACAGTAATTCATC
* *
26494824 CGTATCAA-TAGTAATTCATCCATATAA
1 CGTATAAACT-GTAATTCATTCATATAA
26494851 ACACATATCT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
39 6 0.11
40 43 0.80
41 5 0.09
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (39 bp):
CGTATAAACTGTAATTCATTCATATAACAGTAATTCATC
Found at i:26495084 original size:22 final size:23
Alignment explanation
Indices: 26495021--26495111 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
26495011 TTAGCTGATG
* *
26495021 AACATTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
*
26495044 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
* *
26495066 AACAGTAAG-TTTATACGAGCTAA
1 AACAGTAAGCTCTAT-CGAGCTGA
*
26495089 AATAGTAAGCTCT-TACGAGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
26495112 TATATCGGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.07
22 14 0.25
23 36 0.64
24 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:26511110 original size:19 final size:19
Alignment explanation
Indices: 26511086--26511124 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26511076 ATGTTTTCCG
*
26511086 GAAAATGATTTACTTTTCT
1 GAAAATAATTTACTTTTCT
26511105 GAAAATAATTTACTTTTCT
1 GAAAATAATTTACTTTTCT
26511124 G
1 G
26511125 GTGTTTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (19 bp):
GAAAATAATTTACTTTTCT
Found at i:26514937 original size:6 final size:6
Alignment explanation
Indices: 26514903--26514940 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
26514893 GGGACGCAAT
* *
26514903 GAAGG- GAAGGG GAAGGG GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
26514941 AGCGTTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:26515127 original size:14 final size:14
Alignment explanation
Indices: 26515108--26515134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26515098 AGAAAATGCT
26515108 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
26515122 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
26515135 AGCTATACAA
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:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:26515639 original size:20 final size:20
Alignment explanation
Indices: 26515614--26515677 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
26515604 TTGCAATATG
26515614 TTTAAAAATTTAGAGTCGAA
1 TTTAAAAATTTAGAGTCGAA
* *
26515634 TTTAAAAA--TAAAAT-G--
1 TTTAAAAATTTAGAGTCGAA
*
26515649 TTTAAAAATTTAGCGTCGAA
1 TTTAAAAATTTAGAGTCGAA
26515669 TTTAAAAAT
1 TTTAAAAAT
26515678 AAAATGATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
15 8 0.24
17 4 0.12
18 5 0.15
20 17 0.50
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTAAAAATTTAGAGTCGAA
Found at i:26515657 original size:35 final size:35
Alignment explanation
Indices: 26515611--26515683 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
26515601 CGTTTGCAAT
26515611 ATGTTTAAAAATTTAGAGTCGAATTTAAAAATAAA
1 ATGTTTAAAAATTTAGAGTCGAATTTAAAAATAAA
*
26515646 ATGTTTAAAAATTTAGCGTCGAATTTAAAAATAAA
1 ATGTTTAAAAATTTAGAGTCGAATTTAAAAATAAA
26515681 ATG
1 ATG
26515684 ATAGTTTAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.34
Consensus pattern (35 bp):
ATGTTTAAAAATTTAGAGTCGAATTTAAAAATAAA
Found at i:26521736 original size:120 final size:120
Alignment explanation
Indices: 26521539--26521801 Score: 508
Period size: 120 Copynumber: 2.2 Consensus size: 120
26521529 TTTTCAAGTT
26521539 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
26521604 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
26521659 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
26521724 TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
26521779 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
26521802 TAAATATGAT
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 141 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:26521778 original size:18 final size:17
Alignment explanation
Indices: 26521750--26521784 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26521740 ATTATTAAGA
*
26521750 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
26521767 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
26521785 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:26522014 original size:44 final size:45
Alignment explanation
Indices: 26521949--26522039 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26521939 ACCTCTATTC
* * *
26521949 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
26521993 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
26522038 CA
1 CA
26522040 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:26522041 original size:16 final size:16
Alignment explanation
Indices: 26522020--26522088 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
26522010 GATTAGCTAT
26522020 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26522036 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
26522053 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
26522069 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
26522085 TACA
1 TACA
26522089 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26522062 original size:33 final size:32
Alignment explanation
Indices: 26522020--26522088 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
26522010 GATTAGCTAT
26522020 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
26522053 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
26522085 TACA
1 TACA
26522089 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:26529599 original size:10 final size:11
Alignment explanation
Indices: 26529584--26529608 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26529574 TTTCTAGAAC
26529584 TTTTTTTAAAT
1 TTTTTTTAAAT
26529595 TTTTTTTAAAT
1 TTTTTTTAAAT
26529606 TTT
1 TTT
26529609 GAGTTAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:26529674 original size:8 final size:9
Alignment explanation
Indices: 26529655--26529684 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
26529645 TAGTTGATTG
26529655 TTTTCTATT
1 TTTTCTATT
26529664 TTTTCTATT
1 TTTTCTATT
*
26529673 TTTTCAATT
1 TTTTCTATT
26529682 TTT
1 TTT
26529685 ATAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTATT
Found at i:26529875 original size:33 final size:30
Alignment explanation
Indices: 26529831--26529895 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 30
26529821 ATTTTTAGAA
*
26529831 TTTAAATTTAATA-TATTTTGAATTTTCTATTTT
1 TTTAAAATTAATAGT-TTTTG--TTTTC-ATTTT
26529864 TTTAAAATTAATAGTTTTTGTTTTCATTTT
1 TTTAAAATTAATAGTTTTTGTTTTCATTTT
26529894 TT
1 TT
26529896 GAATTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 5 0.17
33 17 0.57
34 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTAAAATTAATAGTTTTTGTTTTCATTTT
Found at i:26530676 original size:17 final size:17
Alignment explanation
Indices: 26530651--26530684 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26530641 TTAATTTAAT
26530651 TTTTAAAAATTTTATAA
1 TTTTAAAAATTTTATAA
*
26530668 TTTTGAAAATTTTATAA
1 TTTTAAAAATTTTATAA
26530685 GATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTAAAAATTTTATAA
Found at i:26536783 original size:25 final size:25
Alignment explanation
Indices: 26536755--26536817 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
26536745 CCATAGAGTA
26536755 TTTCCAAAAAATTCACCACAAAGGC
1 TTTCCAAAAAATTCACCACAAAGGC
* * * **
26536780 TTTCTAGAGAATTTTCCACAAAGGC
1 TTTCCAAAAAATTCACCACAAAGGC
26536805 TTTCCAAAGAAAT
1 TTTCCAAA-AAAT
26536818 CTGTGTTTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (25 bp):
TTTCCAAAAAATTCACCACAAAGGC
Found at i:26541918 original size:16 final size:16
Alignment explanation
Indices: 26541897--26541927 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26541887 AATTAATTTT
*
26541897 AATTAATTAGTTTTCC
1 AATTAAATAGTTTTCC
26541913 AATTAAATAGTTTTC
1 AATTAAATAGTTTTC
26541928 TTAACCCAAT
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:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (16 bp):
AATTAAATAGTTTTCC
Found at i:26545765 original size:12 final size:12
Alignment explanation
Indices: 26545739--26545776 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26545729 ATGAAAAATG
*
26545739 AAAATAAAAA-T
1 AAAATAAAAACA
26545750 AAAATAAAAACA
1 AAAATAAAAACA
*
26545762 AAAACAAAAACA
1 AAAATAAAAACA
26545774 AAA
1 AAA
26545777 GGGAAAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAATAAAAACA
Found at i:26547593 original size:26 final size:28
Alignment explanation
Indices: 26547550--26547603 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
26547540 GAGGGAAAGT
*
26547550 GGAAAAGGGGAAAAAGAGGGGA-GAAAA
1 GGAAAAGGGGAAAAAGAGAGGAGGAAAA
**
26547577 GGAAAA-GGGAAGTAGAGAGGAGGAAAA
1 GGAAAAGGGGAAAAAGAGAGGAGGAAAA
26547604 AATAGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.44, T:0.02
Consensus pattern (28 bp):
GGAAAAGGGGAAAAAGAGAGGAGGAAAA
Found at i:26562577 original size:64 final size:64
Alignment explanation
Indices: 26562472--26562596 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
26562462 CACACCTATT
* * * *
26562472 TGCGATCGGAGAAGACAACTGATGAGCGAGATTCTCGAAGCCAACAAGTCAAGCCAAAACTGTC
1 TGCGATCGGAGAAGACAACTGAGGAGCGAGATTCCCAAAGCCAACAAGTCAAACCAAAACTGTC
* *
26562536 TGCGATCGGAGAAGACGA-TAGAGGAGC-AGAATTCCCAAAGCCAACAAGTCAAACTAAAACT
1 TGCGATCGGAGAAGACAACT-GAGGAGCGAG-ATTCCCAAAGCCAACAAGTCAAACCAAAACT
26562597 TGAGTATTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.06
64 50 0.94
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.14
Consensus pattern (64 bp):
TGCGATCGGAGAAGACAACTGAGGAGCGAGATTCCCAAAGCCAACAAGTCAAACCAAAACTGTC
Found at i:26562730 original size:20 final size:19
Alignment explanation
Indices: 26562691--26562733 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
26562681 ACCCAGAATG
26562691 AAATAAAATAACAATAAAA
1 AAATAAAATAACAATAAAA
26562710 AAATAAATATAACCAATAAAA
1 AAATAAA-ATAA-CAATAAAA
26562731 AAA
1 AAA
26562734 ATTACTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATAAAATAACAATAAAA
Found at i:26564040 original size:16 final size:17
Alignment explanation
Indices: 26564021--26564059 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
26564011 CTTTATTCAC
26564021 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
26564037 TTAATATAATTATAATA
1 TTAATATAATTATAATA
26564054 -TAATAT
1 TTAATAT
26564060 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:26577464 original size:24 final size:23
Alignment explanation
Indices: 26577421--26577465 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
26577411 TTTCTTTTGT
*
26577421 TTCTTTTTCTATTTCATTTTCTC
1 TTCTTTTTCAATTTCATTTTCTC
*
26577444 TTCTTTCTTCAATTTCTTTTTC
1 TTCTTT-TTCAATTTCATTTTC
26577466 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (23 bp):
TTCTTTTTCAATTTCATTTTCTC
Found at i:26577508 original size:18 final size:18
Alignment explanation
Indices: 26577422--26577510 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
26577412 TTCTTTTGTT
* *
26577422 TCTTTTTCTATTTCATTT
1 TCTTTTTCTTTTTCATTC
*
26577440 TC-TCTTCTTTCTTCAATT-
1 TCTTTTTCTTT-TTC-ATTC
** * *
26577458 TCTTTTTCACTCTCAATC
1 TCTTTTTCTTTTTCATTC
26577476 TCTTTTTGCTCTTTTTCATTC
1 TC-TTTT--TCTTTTTCATTC
26577497 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
26577511 CTCACTTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.15
18 19 0.36
19 12 0.23
20 4 0.08
21 10 0.19
ACGTcount: A:0.09, C:0.25, G:0.01, T:0.65
Consensus pattern (18 bp):
TCTTTTTCTTTTTCATTC
Found at i:26583921 original size:27 final size:29
Alignment explanation
Indices: 26583857--26583927 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 29
26583847 TTGATTCAGG
*
26583857 CCAGATGGGCCATATGAATGTGATTTGGGC
1 CCAG-TGGGCCATATGAATGAGATTTGGGC
* *
26583887 CTAATGGGCCATATG-ATGAGA-TTGGGC
1 CCAGTGGGCCATATGAATGAGATTTGGGC
26583914 CCAGTGGGCCATAT
1 CCAGTGGGCCATAT
26583928 ATATGTATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.50
28 5 0.14
29 11 0.31
30 2 0.06
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
CCAGTGGGCCATATGAATGAGATTTGGGC
Found at i:26585265 original size:16 final size:17
Alignment explanation
Indices: 26585233--26585265 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26585223 TTTAAAGAAG
26585233 GGTTTTCAATGAAAACAA
1 GGTTTTCAA-GAAAACAA
26585251 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
26585266 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAA
Found at i:26588851 original size:11 final size:11
Alignment explanation
Indices: 26588834--26588871 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
26588824 CAATAACAAT
26588834 AAAATAATAGC
1 AAAATAATAGC
* *
26588845 AATATAATAGA
1 AAAATAATAGC
26588856 AAAATAATAGC
1 AAAATAATAGC
26588867 AAAAT
1 AAAAT
26588872 GGCAACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:26599436 original size:29 final size:30
Alignment explanation
Indices: 26599382--26599439 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
26599372 TTAAATATTT
26599382 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAATTTAATATT-AAGTGATTATCTTAA
*
26599413 TATTAAATTTAAT-TT-AGTGTTTATCTT
1 TATT-AATTTAATATTAAGTGATTATCTT
26599440 GTGGATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
TATTAATTTAATATTAAGTGATTATCTTAA
Found at i:26599499 original size:18 final size:17
Alignment explanation
Indices: 26599476--26599509 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
26599466 AAGATTTAAT
26599476 ATTAAATTTAAATATTAG
1 ATTAAATTT-AATATTAG
26599494 ATTAAATTTAATATTA
1 ATTAAATTTAATATTA
26599510 AAGTGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAATTTAATATTAG
Found at i:26601016 original size:28 final size:28
Alignment explanation
Indices: 26600976--26601032 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
26600966 GAAGTTTGTT
26600976 CACGCTTACTGCACCAAATTGTTGACTA
1 CACGCTTACTGCACCAAATTGTTGACTA
26601004 CACGCTTACTGCACCAAATTGTTGACTA
1 CACGCTTACTGCACCAAATTGTTGACTA
26601032 C
1 C
26601033 TTTTTAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
CACGCTTACTGCACCAAATTGTTGACTA
Found at i:26605038 original size:15 final size:15
Alignment explanation
Indices: 26605018--26605125 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
26605008 TTTATGGAAA
26605018 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
26605033 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
26605047 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
26605063 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
26605077 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
26605093 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
26605107 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
26605123 ATC
1 ATC
26605126 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:26605047 original size:30 final size:30
Alignment explanation
Indices: 26605011--26605125 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
26605001 ATCCATATTT
*
26605011 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
26605041 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
26605071 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
26605101 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
26605126 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:26609732 original size:15 final size:15
Alignment explanation
Indices: 26609712--26609789 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
26609702 TTTATGGAAA
26609712 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
26609727 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
26609741 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
26609757 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
26609771 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
26609787 ATC
1 ATC
26609790 GAGGTATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 7 0.16
15 31 0.69
16 7 0.16
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:26609740 original size:30 final size:30
Alignment explanation
Indices: 26609706--26609789 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
26609696 TCCATATTTA
*
26609706 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
26609736 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
26609766 TAGAAAGTCAAAGATATGGGTATC
1 TGGAAAGTCAAAGATATGGGTATC
26609790 GAGGTATTGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:26614399 original size:30 final size:30
Alignment explanation
Indices: 26614368--26614491 Score: 187
Period size: 30 Copynumber: 4.1 Consensus size: 30
26614358 TCTATATTTA
* * *
26614368 TGGAAAATCAAAGATATGAGTATCCAAT-T
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
26614397 ATGGAAAGTCAAAGATATGGGTATCAAATAT
1 -TGGAAAGTCAAAGATATGGGTATCAAATAT
26614428 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
26614458 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
26614489 TGG
1 TGG
26614492 CATAATAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
30 79 0.90
31 9 0.10
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:26614438 original size:15 final size:16
Alignment explanation
Indices: 26614396--26614476 Score: 80
Period size: 15 Copynumber: 5.3 Consensus size: 16
26614386 AGTATCCAAT
26614396 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
26614412 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
26614427 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
26614442 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
26614457 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
26614472 TATGG
1 TATGG
26614477 GTATCGAGAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.16
15 28 0.57
16 13 0.27
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:26616709 original size:19 final size:19
Alignment explanation
Indices: 26616685--26616723 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
26616675 ATGATGAGTT
*
26616685 AAAAAATAATATTTTTTTA
1 AAAAAATAATATTATTTTA
*
26616704 AAAAAATTATATTATTTTA
1 AAAAAATAATATTATTTTA
26616723 A
1 A
26616724 TTAAAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAAATAATATTATTTTA
Found at i:26616900 original size:31 final size:33
Alignment explanation
Indices: 26616862--26616923 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
26616852 GTCTCTAAGA
*
26616862 ATAACTTTTT-TCACCTTAGTCTC-AAATTTTG
1 ATAACTTTTTCTCAACTTAGTCTCTAAATTTTG
*
26616893 ATAACTTTTTCTCAATTTAGTCTCTAAATTT
1 ATAACTTTTTCTCAACTTAGTCTCTAAATTT
26616924 GTAATCCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 10 0.37
32 11 0.41
33 6 0.22
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (33 bp):
ATAACTTTTTCTCAACTTAGTCTCTAAATTTTG
Found at i:26622323 original size:37 final size:33
Alignment explanation
Indices: 26622273--26622362 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 33
26622263 TTATACCAAG
*
26622273 GAAGATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTA
1 GAAGATGTAAGCTCAAAA-TT-G-AAGTTGTACC-TA
*
26622310 GAAGATGTAAGCTCAAAATTGGAGTTGTACCTA
1 GAAGATGTAAGCTCAAAATTGAAGTTGTACCTA
26622343 GAGAGATGTAAGCTCAAAAT
1 GA-AGATGTAAGCTCAAAAT
26622363 CTAATGAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
33 4 0.08
34 25 0.50
35 1 0.02
36 2 0.04
37 18 0.36
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (33 bp):
GAAGATGTAAGCTCAAAATTGAAGTTGTACCTA
Found at i:26622350 original size:34 final size:36
Alignment explanation
Indices: 26622273--26622400 Score: 129
Period size: 37 Copynumber: 3.6 Consensus size: 36
26622263 TTATACCAAG
*
26622273 GAAGATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTA
1 GAAGATGTAAGCTCAAAA-TTAGTAAGTTGTACCTTA
*
26622310 GAAGATGTAAGCTCAAAATT-G-GAGTTGTACC-TA
1 GAAGATGTAAGCTCAAAATTAGTAAGTTGTACCTTA
* * *
26622343 GAGAGATGTAAGCTCAAAATCTAATGAGTTGTACACTGA
1 GA-AGATGTAAGCTCAAAAT-TAGTAAGTTGTAC-CTTA
* *
26622382 -AAAATGTAAACTCAAAATT
1 GAAGATGTAAGCTCAAAATT
26622401 TACTGAATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
33 4 0.05
34 25 0.32
35 2 0.03
36 3 0.04
37 42 0.53
38 2 0.03
39 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (36 bp):
GAAGATGTAAGCTCAAAATTAGTAAGTTGTACCTTA
Found at i:26622389 original size:37 final size:35
Alignment explanation
Indices: 26622277--26622417 Score: 117
Period size: 37 Copynumber: 3.9 Consensus size: 35
26622267 ACCAAGGAAG
* * *
26622277 ATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTAG-AAG
1 ATGTAAGCTCAAAA-TTA-TGAGTTGTACC-TAGAAAA
* * *
26622314 ATGTAAGCTCAAAATT-GGAGTTGTACCTAGAGAG
1 ATGTAAGCTCAAAATTATGAGTTGTACCTAGAAAA
26622348 ATGTAAGCTCAAAATCTAATGAGTTGTACACT-GAAAA
1 ATGTAAGCTCAAAAT-T-ATGAGTTGTAC-CTAGAAAA
* *
26622385 ATGTAAACTCAAAATTTACTGAATTGTACCTAG
1 ATGTAAGCTCAAAA-TTA-TGAGTTGTACCTAG
26622418 GATGGTGTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
33 3 0.03
34 25 0.29
35 1 0.01
36 5 0.06
37 50 0.57
38 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (35 bp):
ATGTAAGCTCAAAATTATGAGTTGTACCTAGAAAA
Found at i:26622470 original size:23 final size:23
Alignment explanation
Indices: 26622425--26622472 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26622415 TAGGATGGTG
* *
26622425 TAAGCTTAAAATTTAAGTTGATA
1 TAAGCTTAAAACTTAAGTAGATA
26622448 TAAGCTTAAAACTTAA-TGAGATA
1 TAAGCTTAAAACTTAAGT-AGATA
26622471 TA
1 TA
26622473 CTTGAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (23 bp):
TAAGCTTAAAACTTAAGTAGATA
Found at i:26625699 original size:14 final size:14
Alignment explanation
Indices: 26625680--26625721 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
26625670 TTATACTTAT
26625680 TTTTTATTTTTAAA
1 TTTTTATTTTTAAA
* *
26625694 TTTTTAATATTAAA
1 TTTTTATTTTTAAA
26625708 TTTTT-TTTTGTAAA
1 TTTTTATTTT-TAAA
26625722 CTTCTAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTATTTTTAAA
Found at i:26627790 original size:18 final size:18
Alignment explanation
Indices: 26627767--26627806 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
26627757 AATCACACGA
26627767 AAATAAATTGAAAAAAAT
1 AAATAAATTGAAAAAAAT
26627785 AAATAAATTGAAAAAAAT
1 AAATAAATTGAAAAAAAT
26627803 AAAT
1 AAAT
26627807 TTGGATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAATTGAAAAAAAT
Found at i:26628067 original size:38 final size:38
Alignment explanation
Indices: 26628025--26628104 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
26628015 CAGGGAATTT
*
26628025 GTTAGTGCAAAAAGGGGATGGGTTAGTTTAAGCTTTTG
1 GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
26628063 GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
1 GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
26628101 GTTA
1 GTTA
26628105 CCTTAGAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (38 bp):
GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
Found at i:26639108 original size:13 final size:12
Alignment explanation
Indices: 26639059--26639108 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
26639049 TCCTTCTGCT
26639059 TCATCACATTCCA
1 TCATC-CATTCCA
26639072 T-ATCCATGT-CA
1 TCATCCAT-TCCA
26639083 TCATCCATTCCA
1 TCATCCATTCCA
*
26639095 TCTTCCATTTCCA
1 TCATCCA-TTCCA
26639108 T
1 T
26639109 ACTCTCATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 7 0.22
12 18 0.56
13 7 0.22
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (12 bp):
TCATCCATTCCA
Found at i:26643380 original size:31 final size:32
Alignment explanation
Indices: 26643339--26643455 Score: 141
Period size: 32 Copynumber: 3.7 Consensus size: 32
26643329 TTTTAAAGGA
*
26643339 ATATTT-TTATCATTTAACAAAATTAAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* *
26643370 ATA-TTCTTATCATTTCACAAAATTGAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* * *
26643401 -TAATTTGTTACCATTTCACAAAATGAAAGGTG
1 AT-ATTTGTTATCATTTCACAAAATTAAAGTTG
*
26643433 ATATTTGTTATCAATTCACAAAA
1 ATATTTGTTATCATTTCACAAAA
26643456 CCGCGCATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
30 3 0.04
31 27 0.37
32 42 0.58
33 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (32 bp):
ATATTTGTTATCATTTCACAAAATTAAAGTTG
Found at i:26645715 original size:18 final size:19
Alignment explanation
Indices: 26645671--26645725 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
26645661 ATATATCACC
26645671 TCAACAAATAATTTAAAAAT
1 TCAA-AAATAATTTAAAAAT
*
26645691 T-ATAAAAT-ATTTTAAAAT
1 TCA-AAAATAATTTAAAAAT
*
26645709 TCAAAAA-AATATAAAAA
1 TCAAAAATAATTTAAAAA
26645726 AAAGTTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 21 0.72
19 6 0.21
20 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TCAAAAATAATTTAAAAAT
Found at i:26645947 original size:54 final size:56
Alignment explanation
Indices: 26645888--26645994 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 56
26645878 TAGGGTCAAC
26645888 TTTTTAAC-T-CAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
1 TTTTTAACTTACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
* *
26645942 TTTTTAACTTAAGAATAAGTATCAAATTGACAAAAATTATAAACATTAAGAGC
1 TTTTTAACTT-ACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGC
26645995 TTAATTTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
54 8 0.17
55 1 0.02
57 39 0.81
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (56 bp):
TTTTTAACTTACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
Found at i:26652324 original size:42 final size:42
Alignment explanation
Indices: 26652271--26652354 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
26652261 TATTTTTATT
26652271 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
26652313 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
26652355 AATTAGGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (42 bp):
TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
Found at i:26656177 original size:19 final size:19
Alignment explanation
Indices: 26656131--26656178 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
26656121 GTATATATTT
*
26656131 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
* * *
26656149 CAAATCTTATTTCGGAAGA
1 TAAATTTTATTTAGGAAGA
26656168 TAAATTTTATT
1 TAAATTTTATT
26656179 CATATTATAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:26656239 original size:43 final size:43
Alignment explanation
Indices: 26656192--26656282 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 43
26656182 ATTATAGGAA
**
26656192 TATTTTTATTTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
1 TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
* ** *
26656235 TA-TTTTCCCTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
26656277 TATTTT
1 TATTTT
26656283 CCCAATTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (43 bp):
TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
Found at i:26663356 original size:5 final size:6
Alignment explanation
Indices: 26663339--26663363 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26663329 GGTTATAATT
26663339 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
26663364 AGCTTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:26670793 original size:20 final size:20
Alignment explanation
Indices: 26670770--26670809 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26670760 TTTAATCTCT
26670770 TTTTAAAATTTAAATTTAAA
1 TTTTAAAATTTAAATTTAAA
* * *
26670790 TTTTATATTTTCAATTTAAA
1 TTTTAAAATTTAAATTTAAA
26670810 ACCAAATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATTTAAATTTAAA
Found at i:26671776 original size:25 final size:25
Alignment explanation
Indices: 26671742--26671792 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
26671732 AGCATCAACA
26671742 TACCCAATGACTCCATCTCTAGTTC
1 TACCCAATGACTCCATCTCTAGTTC
26671767 TACCCAATGACTCCATCTCTAGTTC
1 TACCCAATGACTCCATCTCTAGTTC
26671792 T
1 T
26671793 TCCAAACTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.33
Consensus pattern (25 bp):
TACCCAATGACTCCATCTCTAGTTC
Found at i:26677001 original size:23 final size:23
Alignment explanation
Indices: 26676952--26677001 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
26676942 TTTTTTTTTG
* * *
26676952 AGTTAACTCAAATAAGTATTTCG
1 AGTTAACTCAAATAAGTAATACA
*
26676975 AGTTAACTCAGATAAGTAATACA
1 AGTTAACTCAAATAAGTAATACA
26676998 AGTT
1 AGTT
26677002 TTGAGTTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (23 bp):
AGTTAACTCAAATAAGTAATACA
Found at i:26677177 original size:19 final size:20
Alignment explanation
Indices: 26677151--26677191 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
26677141 TAAAATTTAC
*
26677151 ATTTTTTAAAAAGTATAAAA
1 ATTTTTAAAAAAGTATAAAA
*
26677171 ATTTTTAAAAAATTATAAAA
1 ATTTTTAAAAAAGTATAAAA
26677191 A
1 A
26677192 ATATATAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTTTAAAAAAGTATAAAA
Found at i:26677192 original size:10 final size:10
Alignment explanation
Indices: 26677158--26677200 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
26677148 TACATTTTTT
*
26677158 AAAAAGTATA
1 AAAAATTATA
* *
26677168 AAAATTTTTA
1 AAAAATTATA
26677178 AAAAATTATA
1 AAAAATTATA
26677188 AAAAATATATA
1 AAAAAT-TATA
26677199 AA
1 AA
26677201 GAGAGTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:26677439 original size:21 final size:21
Alignment explanation
Indices: 26677415--26677454 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26677405 TTTTTAATTT
26677415 AATTTGA-TTCAATTTGACTTA
1 AATTTGATTTC-ATTTGACTTA
*
26677436 AATTTTATTTCATTTGACT
1 AATTTGATTTCATTTGACT
26677455 CAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
AATTTGATTTCATTTGACTTA
Found at i:26684001 original size:30 final size:31
Alignment explanation
Indices: 26683934--26684005 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
26683924 CAAGTTAATC
*
26683934 TTTAAACTTAACAATTGTTCCTATATTGAGA
1 TTTAAACTTAACAATTGTTCCTATACTGAGA
* * * *
26683965 TCTAAACTTGAGAATTGTTCC-ATGCTGAGA
1 TTTAAACTTAACAATTGTTCCTATACTGAGA
26683995 TTTAAACTTAA
1 TTTAAACTTAA
26684006 AGATTTTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTAAACTTAACAATTGTTCCTATACTGAGA
Found at i:26696418 original size:15 final size:16
Alignment explanation
Indices: 26696391--26696423 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
26696381 AAGAGAGAAA
26696391 AATAAAGGAAAAAAAG
1 AATAAAGGAAAAAAAG
26696407 AATAAA-GAAAAAAAG
1 AATAAAGGAAAAAAAG
26696422 AA
1 AA
26696424 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AATAAAGGAAAAAAAG
Found at i:26702180 original size:18 final size:19
Alignment explanation
Indices: 26702146--26702186 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
26702136 TTTCTTAAAT
*
26702146 ATTAATATAATTATTTTTA
1 ATTAACATAATTATTTTTA
26702165 ATTAACATAA-TATTTTTA
1 ATTAACATAATTATTTTTA
26702183 ATTA
1 ATTA
26702187 TATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAACATAATTATTTTTA
Found at i:26702196 original size:18 final size:18
Alignment explanation
Indices: 26702150--26702197 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
26702140 TTAAATATTA
*
26702150 ATATAATTATTTTTAATT
1 ATATATTTATTTTTAATT
* *
26702168 A-ACATAATATTTTTAATT
1 ATATAT-TTATTTTTAATT
26702186 ATATATTTATTT
1 ATATATTTATTT
26702198 ATAAACTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATTTATTTTTAATT
Found at i:26702221 original size:19 final size:19
Alignment explanation
Indices: 26702193--26702229 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26702183 ATTATATATT
*
26702193 TATTTATAAACTTTTTATA
1 TATTTATAAAATTTTTATA
*
26702212 TATTTTTAAAATTTTTAT
1 TATTTATAAAATTTTTAT
26702230 TTCAGTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATAAAATTTTTATA
Found at i:26702670 original size:9 final size:9
Alignment explanation
Indices: 26702655--26702696 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
26702645 CCTTAATTAT
26702655 ATATAAAAA
1 ATATAAAAA
*
26702664 TTATAAAAA
1 ATATAAAAA
26702673 ATATAGAAAA
1 ATATA-AAAA
*
26702683 TTATAAAAA
1 ATATAAAAA
26702692 ATATA
1 ATATA
26702697 TATAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
ATATAAAAA
Found at i:26702684 original size:19 final size:18
Alignment explanation
Indices: 26702655--26702696 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
26702645 CCTTAATTAT
26702655 ATATAAAAATTATAAAAA
1 ATATAAAAATTATAAAAA
26702673 ATATAGAAAATTATAAAAA
1 ATATA-AAAATTATAAAAA
26702692 ATATA
1 ATATA
26702697 TATAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATAAAAATTATAAAAA
Found at i:26704905 original size:12 final size:12
Alignment explanation
Indices: 26704850--26704905 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
26704840 TTAGTATAAT
26704850 TAAATAAATG-AA
1 TAAA-AAATGAAA
26704862 TAAAAAAT-AAA
1 TAAAAAATGAAA
26704873 TAAAGAAATGAGAA
1 TAAA-AAATGA-AA
*
26704887 TAGAAAATGAAA
1 TAAAAAATGAAA
26704899 TAGAAAA
1 TA-AAAA
26704906 GACTAGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 10 0.27
12 12 0.32
13 10 0.27
14 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (12 bp):
TAAAAAATGAAA
Found at i:26704952 original size:13 final size:12
Alignment explanation
Indices: 26704929--26704965 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
26704919 AACGAATAGG
26704929 AGAGAAA-AAAA
1 AGAGAAAGAAAA
26704940 AGAGAAAAGAAAA
1 AGAG-AAAGAAAA
26704953 AGAGAAAGAAAA
1 AGAGAAAGAAAA
26704965 A
1 A
26704966 AAGGAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.17
12 12 0.50
13 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AGAGAAAGAAAA
Found at i:26704966 original size:13 final size:12
Alignment explanation
Indices: 26704928--26704966 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
26704918 AAACGAATAG
26704928 GAGAGAAAAAAAA
1 GAGA-AAAAAAAA
26704941 GAGAAAAGAAAAA
1 GAGAAAA-AAAAA
26704954 GAGAAAGAAAAAA
1 GAGAAA-AAAAAA
26704967 AGGAGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 20 0.83
14 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
GAGAAAAAAAAA
Found at i:26706538 original size:126 final size:125
Alignment explanation
Indices: 26706378--26706607 Score: 372
Period size: 126 Copynumber: 1.8 Consensus size: 125
26706368 TAGCTTTAAG
*
26706378 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACACAGTACGTTAGGGCACGATCCTTT
1 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACACAGTACATTAGGGCACGATCCTTT
*
26706443 GAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAA
66 GAATTCTTTAAATACCGAACATTACCATTATTTT-AAAAATTTTGAGAGTGAACCGGTAAA
* *
26706504 AGGATATTCTG-ATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTT
1 AGGATATTC-GAATATTCAAAACAAACAAAGAAAGCAAAACACAGTACATTAGGGCACGATCCTT
** *
26706568 TGAATTCTTTAAATATTGAACATTGCCATTATTTTAAAAA
65 TGAATTCTTTAAATACCGAACATTACCATTATTTTAAAAA
26706608 CAATTGAGAA
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
125 5 0.05
126 90 0.94
127 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (125 bp):
AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACACAGTACATTAGGGCACGATCCTTT
GAATTCTTTAAATACCGAACATTACCATTATTTTAAAAATTTTGAGAGTGAACCGGTAAA
Found at i:26707257 original size:20 final size:21
Alignment explanation
Indices: 26707232--26707322 Score: 62
Period size: 21 Copynumber: 4.3 Consensus size: 21
26707222 ACGAACTATT
*
26707232 ATAATAGTAG-AATATAATAA
1 ATAATAGTAGTAATAAAATAA
*
26707252 ATAATATTAGTAATAAAATAA
1 ATAATAGTAGTAATAAAATAA
* ** *
26707273 TATTAACTATTAACAATAAAGTATA
1 -A-TAA-TAGTAGTAATAAAATA-A
*
26707298 ATAA-AATAGTAATAAAA-AA
1 ATAATAGTAGTAATAAAATAA
26707317 ATAATA
1 ATAATA
26707323 CTAAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
19 5 0.09
20 11 0.20
21 18 0.32
22 1 0.02
23 6 0.11
24 14 0.25
25 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATAATAGTAGTAATAAAATAA
Found at i:26707265 original size:16 final size:17
Alignment explanation
Indices: 26707246--26707277 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26707236 TAGTAGAATA
26707246 TAAT-AAATAATATTAG
1 TAATAAAATAATATTAG
26707262 TAATAAAATAATATTA
1 TAATAAAATAATATTA
26707278 ACTATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAAAATAATATTAG
Found at i:26708383 original size:17 final size:15
Alignment explanation
Indices: 26708350--26708385 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
26708340 TAGGTTTAGG
26708350 TGGGTTTTGGGGTAT
1 TGGGTTTTGGGGTAT
26708365 TGGGTTATTGGGTGTAT
1 TGGGTT-TTGGG-GTAT
26708382 TGGG
1 TGGG
26708386 CTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
TGGGTTTTGGGGTAT
Found at i:26710272 original size:27 final size:28
Alignment explanation
Indices: 26710231--26710307 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 28
26710221 CACGGAGCCT
* *
26710231 GCCATAAATGCTTA-TCTTTCATAGTTC
1 GCCACAAAGGCTTATTCTTTCATAGTTC
* * *
26710258 GCCACAAAGGTTTATTTTTTTCGTAGTTC
1 GCCACAAAGGCTTA-TTCTTTCATAGTTC
26710287 GCCACAAAGGCTTATTCTTTC
1 GCCACAAAGGCTTATTCTTTC
26710308 CTAACATGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 11 0.27
28 6 0.15
29 24 0.59
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (28 bp):
GCCACAAAGGCTTATTCTTTCATAGTTC
Found at i:26710284 original size:29 final size:29
Alignment explanation
Indices: 26710247--26710302 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
26710237 AATGCTTATC
*
26710247 TTTCATAGTTCGCCACAAAGGTTTATTTT
1 TTTCATAGTTCGCCACAAAGGCTTATTTT
*
26710276 TTTCGTAGTTCGCCACAAAGGCTTATT
1 TTTCATAGTTCGCCACAAAGGCTTATT
26710303 CTTTCCTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (29 bp):
TTTCATAGTTCGCCACAAAGGCTTATTTT
Found at i:26712617 original size:20 final size:20
Alignment explanation
Indices: 26712592--26712645 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
26712582 AGGGGCACAC
26712592 GCCCGTGTGGCCT-GAGACAA
1 GCCCGTGTGGCCTGGA-ACAA
* *
26712612 GCCCGTGTGACCTGGAACAT
1 GCCCGTGTGGCCTGGAACAA
26712632 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
26712646 CCTGTGGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAA
Found at i:26714593 original size:5 final size:5
Alignment explanation
Indices: 26714583--26714609 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26714573 AATTGCTCCT
26714583 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
26714610 CTTTCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:26714832 original size:3 final size:3
Alignment explanation
Indices: 26714824--26714867 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
26714814 ATAATATGAC
26714824 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26714868 GTAAATATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:26714846 original size:17 final size:18
Alignment explanation
Indices: 26714824--26714867 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
26714814 ATAATATGAC
26714824 ATAATAATAATAATAA-A
1 ATAATAATAATAATAATA
26714841 ATAATAATAATAATAATA
1 ATAATAATAATAATAATA
26714859 A-AATAATAA
1 ATAATAATAA
26714868 GTAAATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAATAATA
Found at i:26714849 original size:20 final size:20
Alignment explanation
Indices: 26714824--26714867 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
26714814 ATAATATGAC
26714824 ATAATAATAATAATAAAATA
1 ATAATAATAATAATAAAATA
26714844 ATAATAATAATAATAAAATA
1 ATAATAATAATAATAAAATA
26714864 ATAA
1 ATAA
26714868 GTAAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAATAAAATA
Found at i:26714874 original size:11 final size:11
Alignment explanation
Indices: 26714824--26714872 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
26714814 ATAATATGAC
26714824 ATAATAATAATA
1 ATAA-AATAATA
26714836 ATAAAATAATA
1 ATAAAATAATA
26714847 AT--AATAATA
1 ATAAAATAATA
26714856 ATAAAATAATA
1 ATAAAATAATA
26714867 AGTAAA
1 A-TAAA
26714873 TATCTTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.26
11 17 0.50
12 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:26716898 original size:27 final size:28
Alignment explanation
Indices: 26716847--26716899 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
26716837 TCTCTATATA
26716847 TTTAAAATTTAATGTCTCGTTTTTTATT
1 TTTAAAATTTAATGTCTCGTTTTTTATT
*
26716875 TTTAAGAATTT-A-GTCTCTTTTTTTA
1 TTTAA-AATTTAATGTCTCGTTTTTTA
26716900 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 12 0.52
28 6 0.26
29 5 0.22
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTAATGTCTCGTTTTTTATT
Found at i:26718968 original size:21 final size:21
Alignment explanation
Indices: 26718942--26718984 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26718932 GTCAACACAC
26718942 TTGTCTACATGGCATGCCATG
1 TTGTCTACATGGCATGCCATG
* *
26718963 TTGTCTACCTGGCATGTCATG
1 TTGTCTACATGGCATGCCATG
26718984 T
1 T
26718985 GTCAGCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (21 bp):
TTGTCTACATGGCATGCCATG
Found at i:26719482 original size:18 final size:18
Alignment explanation
Indices: 26719451--26719485 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26719441 CTATTGAATT
* *
26719451 AATTTTAATTTATATTAG
1 AATTTAAATGTATATTAG
26719469 AATTTAAATGTATATTA
1 AATTTAAATGTATATTA
26719486 AATGTTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTTAAATGTATATTAG
Found at i:26725013 original size:7 final size:7
Alignment explanation
Indices: 26725001--26725025 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26724991 AAATTTATCA
26725001 TTCCAAT
1 TTCCAAT
26725008 TTCCAAT
1 TTCCAAT
26725015 TTCCAAT
1 TTCCAAT
26725022 TTCC
1 TTCC
26725026 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCCAAT
Found at i:26728548 original size:31 final size:30
Alignment explanation
Indices: 26728510--26728606 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
26728500 AATGGCTTAA
*
26728510 TGACTAAAATGTTACAACATGAT-AACGTAAG
1 TGACTAAAATGTT--AACATGATAAACATAAG
**
26728541 TGACTAAAATG-TAACATTTTAAACATAAG
1 TGACTAAAATGTTAACATGATAAACATAAG
*
26728570 TGACTAAAATG-TAAC-TCGAAGTAAACAAAAG
1 TGACTAAAATGTTAACAT-G-A-TAAACATAAG
26728601 TGACTA
1 TGACTA
26728607 TTTTAGTTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 7 0.12
29 22 0.39
30 1 0.02
31 26 0.46
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (30 bp):
TGACTAAAATGTTAACATGATAAACATAAG
Found at i:26729484 original size:8 final size:8
Alignment explanation
Indices: 26729471--26729531 Score: 61
Period size: 8 Copynumber: 7.5 Consensus size: 8
26729461 TAATATTATT
26729471 TTTAAAAA
1 TTTAAAAA
26729479 TTTAAAAA
1 TTTAAAAA
*
26729487 GTT-AAAA
1 TTTAAAAA
*
26729494 TTTTAAAA
1 TTTAAAAA
*
26729502 TATAAAAAA
1 T-TTAAAAA
*
26729511 TTCAAAAA
1 TTTAAAAA
26729519 TTATAAAAA
1 TT-TAAAAA
26729528 TTTA
1 TTTA
26729532 TATATTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 6 0.14
8 25 0.57
9 13 0.30
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (8 bp):
TTTAAAAA
Found at i:26737998 original size:27 final size:27
Alignment explanation
Indices: 26737977--26738056 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
26737967 ATGCTGATTG
26737977 CCAGGCTGGTGTTCAAATTGCTGCTGA
1 CCAGGCTGGTGTTCAAATTGCTGCTGA
* * *
26738004 CTAGGCTGGTGTTCGAATTGCTGCTGG
1 CCAGGCTGGTGTTCAAATTGCTGCTGA
** * * *
26738031 GTAGGCCGGTGATCGAATTGCTGCTG
1 CCAGGCTGGTGTTCAAATTGCTGCTG
26738057 GTTAGGCCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (27 bp):
CCAGGCTGGTGTTCAAATTGCTGCTGA
Found at i:26738057 original size:27 final size:27
Alignment explanation
Indices: 26737992--26738224 Score: 259
Period size: 27 Copynumber: 8.6 Consensus size: 27
26737982 CTGGTGTTCA
** * *
26737992 AATTGCTGCTGACTAGGCTGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
26738019 AATTGCTGCTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
26738046 AATTGCTGCTGGTTAGGCCGGTGCTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * * *
26738073 TATGGCTGTTGGTTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * * *
26738100 AATGGCTGTTGGTTAGGCCGTTGATCA
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
26738127 AATTGCTGTTGGGTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
26738154 AATGGCTGTTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
** *
26738181 AATTGCTGCTGGGCCGGCAGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
26738208 AATTGCTGCTGGGTAGG
1 AATTGCTGCTGGGTAGG
26738225 GCAATAGTCG
Statistics
Matches: 178, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 178 1.00
ACGTcount: A:0.14, C:0.17, G:0.39, T:0.30
Consensus pattern (27 bp):
AATTGCTGCTGGGTAGGCCGGTGATCG
Found at i:26738237 original size:81 final size:81
Alignment explanation
Indices: 26738005--26738224 Score: 305
Period size: 81 Copynumber: 2.7 Consensus size: 81
26737995 TGCTGCTGAC
* *
26738005 TAGGCTGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGTTAGGCCGGTGC
1 TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGC
* *
26738070 TCGTATGGCTGTTGGT
66 TCGAATGGCTGTTGGG
* * * * * * *
26738086 TAGGCCGGTGTTCGAATGGCTGTTGGTTAGGCCGTTGATCAAATTGCTGTTGGGTAGGCCGGTGT
1 TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGC
26738151 TCGAATGGCTGTTGGG
66 TCGAATGGCTGTTGGG
* ** *
26738167 TAGGCCGGTGATCGAATTGCTGCTGGGCCGGCAGGTGATCGAATTGCTGCTGGGTAGG
1 TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGG
26738225 GCAATAGTCG
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 118 1.00
ACGTcount: A:0.13, C:0.17, G:0.40, T:0.30
Consensus pattern (81 bp):
TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGC
TCGAATGGCTGTTGGG
Found at i:26740639 original size:46 final size:45
Alignment explanation
Indices: 26740586--26740674 Score: 160
Period size: 46 Copynumber: 2.0 Consensus size: 45
26740576 AAAGTTGTAC
*
26740586 AAGCCCAATCTGAACCAGCCCAAACCTAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGA-CCAAAACAGACCCA
26740632 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCAAAACAGACC
26740675 TAACCCCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
45 12 0.29
46 30 0.71
ACGTcount: A:0.44, C:0.39, G:0.11, T:0.06
Consensus pattern (45 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCAAAACAGACCCA
Found at i:26744910 original size:9 final size:9
Alignment explanation
Indices: 26744898--26744930 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
26744888 GAATTATTCG
26744898 AATCGAGTT
1 AATCGAGTT
26744907 AATCGAGTT
1 AATCGAGTT
*
26744916 AATCGAATT
1 AATCGAGTT
26744925 AATCGA
1 AATCGA
26744931 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:26744931 original size:9 final size:9
Alignment explanation
Indices: 26744898--26744943 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
26744888 GAATTATTCG
*
26744898 AATCGAGTT
1 AATCGAATT
*
26744907 AATCGAGTT
1 AATCGAATT
26744916 AATCGAATT
1 AATCGAATT
*
26744925 AATCGAATC
1 AATCGAATT
26744934 AACTCGAATT
1 AA-TCGAATT
26744944 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:26745748 original size:5 final size:5
Alignment explanation
Indices: 26745738--26745768 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
26745728 CTCGAAAATT
*
26745738 TTCGA TTCGA TTCGA TTCGA TTTGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
26745769 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:26746005 original size:33 final size:33
Alignment explanation
Indices: 26745968--26746030 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
26745958 CTTTTACCTT
*
26745968 TTCAACATCACCCTCCCTAGCAGTTTCTACACC
1 TTCAACATCACCCTCCCTAGCAGCTTCTACACC
* *
26746001 TTCAACATCACCTTCCCTAGTAGCTTCTAC
1 TTCAACATCACCCTCCCTAGCAGCTTCTAC
26746031 CCCCTCCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.24, C:0.40, G:0.06, T:0.30
Consensus pattern (33 bp):
TTCAACATCACCCTCCCTAGCAGCTTCTACACC
Found at i:26746037 original size:54 final size:54
Alignment explanation
Indices: 26745978--26746127 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 54
26745968 TTCAACATCA
* *
26745978 CCCTCCCTAGCAGTTTCTACACC-TTCAACATCACCTTCCCTAGTAGCTTCTACC
1 CCCTCCCTAGCAATTTCTAC-CCATTCAACATCACCCTCCCTAGTAGCTTCTACC
* * * * * * * *
26746032 CCCTCCCTAGTAACTTCTACCCTTTCAAAAACACCCTCCTTAGTAGTTTGTACC
1 CCCTCCCTAGCAATTTCTACCCATTCAACATCACCCTCCCTAGTAGCTTCTACC
* * *
26746086 CCCTCCCCATCATTTTCTACCCATTCAACATCACCCTCCCTA
1 CCCTCCCTAGCAATTTCTACCCATTCAACATCACCCTCCCTA
26746128 TCAATTTCTT
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 2 0.03
54 75 0.97
ACGTcount: A:0.22, C:0.43, G:0.05, T:0.30
Consensus pattern (54 bp):
CCCTCCCTAGCAATTTCTACCCATTCAACATCACCCTCCCTAGTAGCTTCTACC
Found at i:26746038 original size:21 final size:21
Alignment explanation
Indices: 26746014--26746053 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26746004 AACATCACCT
*
26746014 TCCCTAGTAGCTTCTACCCCC
1 TCCCTAGTAACTTCTACCCCC
26746035 TCCCTAGTAACTTCTACCC
1 TCCCTAGTAACTTCTACCC
26746054 TTTCAAAAAC
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:0.17, C:0.45, G:0.07, T:0.30
Consensus pattern (21 bp):
TCCCTAGTAACTTCTACCCCC
Found at i:26748234 original size:20 final size:21
Alignment explanation
Indices: 26748209--26748248 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26748199 TTAATTAACG
26748209 TTAATTAA-TTAACTTAATCT
1 TTAATTAATTTAACTTAATCT
*
26748229 TTAATTAATTTACCTTAATC
1 TTAATTAATTTAACTTAATC
26748249 ATCATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTAATTTAACTTAATCT
Found at i:26749562 original size:175 final size:175
Alignment explanation
Indices: 26749271--26749620 Score: 700
Period size: 175 Copynumber: 2.0 Consensus size: 175
26749261 TTTGCTTTAA
26749271 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
1 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
26749336 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
66 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
26749401 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
131 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
26749446 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
1 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
26749511 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
66 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
26749576 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
131 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
26749621 TAGGAACTCA
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 175 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (175 bp):
AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
Found at i:26762863 original size:134 final size:134
Alignment explanation
Indices: 26762281--26762977 Score: 629
Period size: 134 Copynumber: 5.2 Consensus size: 134
26762271 TAAGTAGAAG
* * * *** * * *
26762281 GTCGTGATCGTAAATCAGGGAATTGTTTAAATGGAGTTGTGATTGTAAATTGACGAACTGTTTAA
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * * * * *
26762346 GAAGTGATCATGATCATAAATCGATGAACTAAAGCTGTGATCGTAAATCAGTGAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
*
26762411 TACA
131 GACA
* * * ** * * * * **
26762415 GTTGTGATCATAAATAAGCTTACTGTTTAGGTGAAGTCACGACCGTAAATCGATGAACTCTTTTT
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* ** * * * * * *
26762480 GAAGTGTTTGTGATCGTAAATCAATGAACCGAAACTGTTATTATAAATCAACAAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
*
26762545 AACA
131 GACA
* * * *
26762549 GTCGTGATCGTAAATCAGCTAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTATTTAA
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * ** * * *
26762614 AAAGTGATCATGATCGTAAGTGGATGAACTGAAGTTATAATTGTAAATCAACGAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
26762679 GACA
131 GACA
* * * * * * *
26762683 GTTGTGATCATAAATTAGTGAACTGTTTAAGTGGAGTCACAATCGTAAATCGGCGAACTCTTTAT
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * * * * ** *
26762748 GAAGTGTTCATGATCGTAAATTAATGAACTAAAACCGTAAACGTAAATCAGCGAGTTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
*
26762813 GGCA
131 GACA
* * *** * * *
26762817 GTCATGATCGTAAATCAGCGAACTGTTTAAGTGGGGTGTTGGTCGTAAATTGACGAACTCTTTAC
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * * * * * ** *
26762882 GAAATGGTCATAATCATAAATTAATGAACTGAAGCTGTGATTGTAAATTTGCAAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
26762947 GACA
131 GACA
* * * *
26762951 ATCATGATTGTAAATCAACGAACTGTT
1 GTCGTGATCGTAAATCAGCGAACTGTT
26762978 AGAAAATCGA
Statistics
Matches: 446, Mismatches: 117, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
134 446 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (134 bp):
GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
GACA
Found at i:26762976 original size:268 final size:265
Alignment explanation
Indices: 26762285--26762977 Score: 711
Period size: 268 Copynumber: 2.6 Consensus size: 265
26762275 TAGAAGGTCG
* * * * * *
26762285 TGATCGTAAATCAGGGAATTGTTTAAATGGAGTTGTGATTGTAAATTGACGAACTGTTTAAGAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTT-TGATCGTAAATTGACGAACTATTT-AGAAA
* * * *
26762350 TGATCATGATCATAAATCGATGAACTAAAGCTGTGATCGTAAATCAGTGAGCTTTAAAAATTACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
** * * * *
26762415 GTTGTGATCATAAATAAGCTTACTGTTTAGGTGAAGTCACGACCGTAAATCGATGAACTCTTTTT
129 GTTGTGATCATAAATAA-CGAACTGTTTAAGTGAAGTCACAACCGTAAATCGACGAACTCTTTAT
** * * * **
26762480 GAAGTGTTTGTGATCGTAAATCAATGAACCGAAACTGTTATTATAAATCAACAAGCTTTAAAAAT
193 GAAGTGTTCATGATCGTAAATCAATGAACCAAAACCGTAAACATAAATCAACAAGCTTTAAAAAT
*
26762545 AACAGTCG
258 AACAGTCA
* *** * * *
26762553 TGATCGTAAATCAGCTAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTATTTAAAAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGT-TTGATCGTAAATTGACGAACTATTTAGAAA-
* * * * * * *
26762618 TGATCATGATCGTAAGTGGATGAACTGAAGTTATAATTGTAAATCAACGAGCTTTAAAAATGACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
** * * *
26762683 GTTGTGATCATAAATTAGTGAACTGTTTAAGTGGAGTCACAATCGTAAATCGGCGAACTCTTTAT
129 GTTGTGATCATAAA-TAACGAACTGTTTAAGTGAAGTCACAACCGTAAATCGACGAACTCTTTAT
* * * * * *
26762748 GAAGTGTTCATGATCGTAAATTAATGAACTAAAACCGTAAACGTAAATCAGCGAGTTTTAAAAAT
193 GAAGTGTTCATGATCGTAAATCAATGAACCAAAACCGTAAACATAAATCAACAAGCTTTAAAAAT
**
26762813 GGCAGTCA
258 AACAGTCA
* * *
26762821 TGATCGTAAATCAGCGAACTGTTTAAGTGGGGTGTTGGTCGTAAATTGACGAACTCTTTACGAAA
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGT-TTGATCGTAAATTGACGAACTATTTA-GAAA
* * ** ** *
26762886 TGGTCATAATCATAAATTAATGAACTGAAGCTGTGATTGTAAATTTGCAAGCTTTAAAAATGACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
* ** **
26762951 ATCATGATTGTAAATCAACGAACTGTT
129 GTTGTGATCATAAAT-AACGAACTGTT
26762978 AGAAAATCGA
Statistics
Matches: 338, Mismatches: 82, Indels: 10
0.79 0.19 0.02
Matches are distributed among these distances:
267 4 0.01
268 329 0.97
269 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (265 bp):
TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTTTGATCGTAAATTGACGAACTATTTAGAAATG
ATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
TGTGATCATAAATAACGAACTGTTTAAGTGAAGTCACAACCGTAAATCGACGAACTCTTTATGAA
GTGTTCATGATCGTAAATCAATGAACCAAAACCGTAAACATAAATCAACAAGCTTTAAAAATAAC
AGTCA
Found at i:26766457 original size:30 final size:30
Alignment explanation
Indices: 26766421--26766480 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
26766411 TAGCAAAAAA
26766421 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
*
26766451 CTCTTAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
26766481 TTCTCTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (30 bp):
CTCTTAAATTTCTCCCTAAATTTCTCAAAG
Found at i:26766905 original size:4 final size:4
Alignment explanation
Indices: 26766885--26766927 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
26766875 GAGTTTACGA
* *
26766885 ATTT -TTT ATTT -TTT ATTT ATTT GTTT ATTT ATTT ATTT TTTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
26766928 GGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (4 bp):
ATTT
Found at i:26767006 original size:14 final size:14
Alignment explanation
Indices: 26766987--26767016 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26766977 TTATATCGAG
26766987 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
26767001 ACCAATCCAATTCA
1 ACCAATCCAAATCA
26767015 AC
1 AC
26767017 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:26773114 original size:98 final size:98
Alignment explanation
Indices: 26772999--26773184 Score: 248
Period size: 98 Copynumber: 1.9 Consensus size: 98
26772989 GGAAGTACTA
* * * ** * **
26772999 TAGAAAAAGAGCGTCCACGTGGGAGC-TTTCTTCATCAATTTTGTTGACAGTACATCTTGCTTGA
1 TAGAAAAAGAACATCCACATGGGAGCATTT-TTCATCAATTTTACTGACAGTACATCCTAATTGA
*
26773063 AGCATTTTTAACACTATTTTTTCAAGAACTATTG
65 AGCATTTTTAACACTATTTGTTCAAGAACTATTG
*
26773097 TAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACTGACAGTGCATCCTAATTGAA
1 TAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACTGACAGTACATCCTAATTGAA
**
26773162 GTGTTTTTAACACTATTTGTTCA
66 GCATTTTTAACACTATTTGTTCA
26773185 GAATCGTCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
98 72 0.96
99 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (98 bp):
TAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACTGACAGTACATCCTAATTGAA
GCATTTTTAACACTATTTGTTCAAGAACTATTG
Found at i:26773356 original size:126 final size:126
Alignment explanation
Indices: 26773077--26773355 Score: 391
Period size: 126 Copynumber: 2.2 Consensus size: 126
26773067 TTTTTAACAC
* *
26773077 TATTTTTTCAAGAACTATTGTAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACT
1 TATTTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGGGAACATTTTTCATCAATTTTACT
* * *
26773142 GACAGTGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAATCGTCTTTTCAAATT
66 GACAATGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAATCGTCTTCTCAAAAT
* * * * * * *
26773203 TATTTTTTCAGGACCTACTGTAGAAAAAGAGCATCCACGTGGGAACTTTTTTTAGT-AATTTTGC
1 TATTTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGGGAACATTTTTCA-TCAATTTTAC
** * *
26773267 TGACAATGCATCCTGCTTGAAGT-TTTTTGACATTATTTGTTCAGAATCGTCTTCTCAAAAT
65 TGACAATGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAATCGTCTTCTCAAAAT
26773328 TATTTTTTCAAGAACTACTGTAGAAAAA
1 TATTTTTTCAAGAACTACTGTAGAAAAA
26773356 AACCAAAGTC
Statistics
Matches: 134, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
125 60 0.45
126 73 0.54
127 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
TATTTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGGGAACATTTTTCATCAATTTTACT
GACAATGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAATCGTCTTCTCAAAAT
Found at i:26773472 original size:34 final size:33
Alignment explanation
Indices: 26773428--26773524 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 33
26773418 TTAAAAAAAC
*
26773428 TAAACCCAAATTTAATTAATTTTCTTAAAAAT-AA
1 TAAAACCAAATTTAATTAATTTT-TT-AAAATCAA
* * *
26773462 TAAAATCAAATTTAATTTATTTATTTAAAATCCA
1 TAAAACCAAATTTAATTAATTT-TTTAAAATCAA
* * *
26773496 TAAACCCTAATTTAATTAATTTTTAAAAA
1 TAAAACCAAATTTAATTAATTTTTTAAAA
26773525 AGAACACTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
33 11 0.21
34 40 0.77
35 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (33 bp):
TAAAACCAAATTTAATTAATTTTTTAAAATCAA
Found at i:26783343 original size:6 final size:6
Alignment explanation
Indices: 26783305--26783339 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
26783295 AATCTTCTAG
* *
26783305 GGCTGT GGCTGT GGCTGT GGCTGT GACTGG GGCTG
1 GGCTGT GGCTGT GGCTGT GGCTGT GGCTGT GGCTG
26783340 GGGCCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.17, G:0.51, T:0.29
Consensus pattern (6 bp):
GGCTGT
Found at i:26783588 original size:22 final size:22
Alignment explanation
Indices: 26783561--26783602 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26783551 AACATTTTCA
26783561 AATATAATTTTATTTAATCTGC
1 AATATAATTTTATTTAATCTGC
*
26783583 AATATAATTTTATTTTATCT
1 AATATAATTTTATTTAATCT
26783603 AATTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
AATATAATTTTATTTAATCTGC
Found at i:26783734 original size:15 final size:16
Alignment explanation
Indices: 26783698--26783752 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 16
26783688 TAAAATTAAT
26783698 ATAACTTTTCTTAAATA
1 ATAA-TTTTCTTAAATA
*
26783715 A-AATTTT-TTAACTA
1 ATAATTTTCTTAAATA
*
26783729 ATAATTGTCATTTAAATA
1 ATAATTTTC--TTAAATA
26783747 ATAATT
1 ATAATT
26783753 ATCACAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.29
16 2 0.06
17 1 0.03
18 12 0.39
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (16 bp):
ATAATTTTCTTAAATA
Found at i:26784361 original size:21 final size:19
Alignment explanation
Indices: 26784327--26784371 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
26784317 TAAATAATCC
*
26784327 AAAAAATTTAAAAATTTAA
1 AAAAAATTTAAAAATATAA
*
26784346 ATAAAAATCTTGAAAATATAA
1 A-AAAAAT-TTAAAAATATAA
26784367 AAAAA
1 AAAAA
26784372 CTATAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 10 0.45
21 11 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATTTAAAAATATAA
Found at i:26784519 original size:20 final size:21
Alignment explanation
Indices: 26784466--26784520 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
26784456 CTTTGTGATT
* *
26784466 TGATGTGGTGGGATTACATGG
1 TGATGTGATGGGGTTACATGG
*
26784487 T-ATGTTAAT-GGGTTA-ATGG
1 TGATG-TGATGGGGTTACATGG
26784506 TGATGTGATGGGGTT
1 TGATGTGATGGGGTT
26784521 GTCCAACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 3 0.11
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (21 bp):
TGATGTGATGGGGTTACATGG
Found at i:26785283 original size:18 final size:17
Alignment explanation
Indices: 26785260--26785294 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26785250 AAACTGCCTA
26785260 CTATGTCGCAACATCGAC
1 CTATGTCGCAACA-CGAC
*
26785278 CTATGTTGCAACACGAC
1 CTATGTCGCAACACGAC
26785295 TTCTGCACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (17 bp):
CTATGTCGCAACACGAC
Found at i:26788175 original size:46 final size:47
Alignment explanation
Indices: 26788108--26788230 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 47
26788098 TATATGCGCT
*
26788108 AGTGTAAGACATGTTTGGGACACGCATCAGCAAC-AG-TA-TGAGAGCC
1 AGTGTAAGACATG-TTGGGACATGCATCAGCAACGAGATATTGA-AGCC
* ** *
26788154 AGTGTAAGACATGCTTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATG-TTGGGACATGCATCAGCAACGAGATATTGAAGCC
26788202 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGT-TGGGACATGCATCA
26788231 ACATTGATAC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
46 29 0.44
47 3 0.05
48 32 0.48
49 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTTGGGACATGCATCAGCAACGAGATATTGAAGCC
Found at i:26791977 original size:16 final size:17
Alignment explanation
Indices: 26791951--26791985 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26791941 TAGAATTGGG
*
26791951 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
26791968 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
26791984 TT
1 TT
26791986 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:26798504 original size:24 final size:23
Alignment explanation
Indices: 26798477--26798535 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
26798467 TCTACTACAA
* *
26798477 GTAGGAGGAGTTGTGTTACTCTTT
1 GTAGGAGCA-TTGTCTTACTCTTT
*
26798501 GTAGGGAGCATTGTCTTACTGTTT
1 GTA-GGAGCATTGTCTTACTCTTT
26798525 GTAGAGAGCAT
1 GTAG-GAGCAT
26798536 CAAAAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 24 0.80
25 5 0.17
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.37
Consensus pattern (23 bp):
GTAGGAGCATTGTCTTACTCTTT
Found at i:26802506 original size:6 final size:7
Alignment explanation
Indices: 26802487--26802513 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26802477 TGGAGGTTGT
26802487 ATAAAAA
1 ATAAAAA
26802494 ATAAAAA
1 ATAAAAA
26802501 ATAAAAA
1 ATAAAAA
26802508 ATAAAA
1 ATAAAA
26802514 GTGGGTGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:26811936 original size:5 final size:5
Alignment explanation
Indices: 26811920--26811949 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
26811910 TTTCATTTAG
26811920 TAATT T-ATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT TAATT T
26811950 TGAATTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TAATT
Found at i:26812294 original size:11 final size:10
Alignment explanation
Indices: 26812248--26812295 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
26812238 CCAAACGACC
26812248 AAGAAAGAAA
1 AAGAAAGAAA
*
26812258 AAGAAGGAAA
1 AAGAAAGAAA
*
26812268 AA-AGAGAAA
1 AAGAAAGAAA
26812277 AAG-AAGAAA
1 AAGAAAGAAA
26812286 AAGGAAAGAA
1 AA-GAAAGAA
26812296 GGGCCCAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 14 0.45
10 12 0.39
11 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Done.