Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 75 of 144
Found at i:22650692 original size:17 final size:18
Alignment explanation
Indices: 22650648--22650692 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
22650638 AAATCATAAT
22650648 TTAAAATATTATAAAAAA
1 TTAAAATATTATAAAAAA
*
22650666 TTAAATAATATT-TAAAATA
1 TT-AA-AATATTATAAAAAA
22650685 TTAAAATA
1 TTAAAATA
22650693 ATAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 10 0.42
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAATATTATAAAAAA
Found at i:22650701 original size:29 final size:28
Alignment explanation
Indices: 22650645--22650706 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
22650635 TAAAAATCAT
*
22650645 AATTTAAAATATTATAAAAAATTAAATA
1 AATTTAAAATATTATAAAAAATAAAATA
*
22650673 ATATTTAAAATATTA-AAATAATAATAATA
1 A-ATTTAAAATATTATAAAAAATAA-AATA
22650702 AATTT
1 AATTT
22650707 GAAAGGTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTTAAAATATTATAAAAAATAAAATA
Found at i:22650744 original size:26 final size:23
Alignment explanation
Indices: 22650715--22650801 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 23
22650705 TTGAAAGGTC
*
22650715 ATATCTTTAAAATATTTAAATATTTT
1 ATAT-TTTAAAATA--TAAATATTTA
*
22650741 ATATTATTAAAATATATATATTTA
1 ATATT-TTAAAATATAAATATTTA
* *
22650765 ATATTTTAAAAAAT-AATATTCA
1 ATATTTTAAAATATAAATATTTA
*
22650787 AAATTTTAAAA-ATAA
1 ATATTTTAAAATATAA
22650802 TTTAAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.04
22 17 0.32
23 8 0.15
24 13 0.25
25 1 0.02
26 12 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTTTAAAATATAAATATTTA
Found at i:22650792 original size:22 final size:22
Alignment explanation
Indices: 22650747--22650810 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
22650737 TTTTATATTA
* * *
22650747 TTAAAATATATATATTTAATATT
1 TTAAAAAATA-ATATTAAAAATT
*
22650770 TTAAAAAATAATATTCAAAATT
1 TTAAAAAATAATATTAAAAATT
22650792 TT-AAAAATAAT-TTAAAAAT
1 TTAAAAAATAATATTAAAAAT
22650811 AATAGTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 7 0.19
21 9 0.24
22 12 0.32
23 9 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAAAAATAATATTAAAAATT
Found at i:22650807 original size:11 final size:11
Alignment explanation
Indices: 22650773--22650813 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22650763 TAATATTTTA
22650773 AAAAATAATATT
1 AAAAATAAT-TT
*
22650785 CAAAAT--TTT
1 AAAAATAATTT
22650794 AAAAATAATTT
1 AAAAATAATTT
22650805 AAAAATAAT
1 AAAAATAAT
22650814 AGTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 12 0.48
12 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:22650831 original size:33 final size:33
Alignment explanation
Indices: 22650764--22650830 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
22650754 ATATATATTT
*
22650764 AATATTTTAAAAAATAATATTCAAAATTTTAAA
1 AATAATTTAAAAAATAATATTCAAAATTTTAAA
22650797 AATAATTT-AAAAATAATAGTT-AAAATTTTAAA
1 AATAATTTAAAAAATAATA-TTCAAAATTTTAAA
22650829 AA
1 AA
22650831 AATATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 23 0.72
33 9 0.28
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (33 bp):
AATAATTTAAAAAATAATATTCAAAATTTTAAA
Found at i:22650901 original size:9 final size:9
Alignment explanation
Indices: 22650874--22650918 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
22650864 TCAATTTTTT
*
22650874 TAAAATTAA
1 TAAAATAAA
22650883 TAACAATAAA
1 TAA-AATAAA
22650893 TAAAATAAA
1 TAAAATAAA
22650902 T-AAATAAA
1 TAAAATAAA
*
22650910 CAAAATAAA
1 TAAAATAAA
22650919 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:22650964 original size:19 final size:19
Alignment explanation
Indices: 22650941--22650992 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
22650931 ATAAAACTTA
*
22650941 AAAAAAGAAAAAATTTAA-
1 AAAAAAGAAAAAAGTTAAT
*
22650959 AGAAAAAGACAAAAGTTAAT
1 A-AAAAAGAAAAAAGTTAAT
22650979 AAAAAAGTAAAAAA
1 AAAAAAG-AAAAAA
22650993 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.04
19 21 0.75
20 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.13
Consensus pattern (19 bp):
AAAAAAGAAAAAAGTTAAT
Found at i:22650997 original size:16 final size:15
Alignment explanation
Indices: 22650976--22651005 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22650966 GACAAAAGTT
22650976 AATAAAAAAGTAAAAA
1 AATAAAAAA-TAAAAA
22650992 AATAAAAAATAAAA
1 AATAAAAAATAAAA
22651006 TAAGGGTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:22652028 original size:7 final size:7
Alignment explanation
Indices: 22652018--22652072 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
22652008 AAAAAAGGAA
22652018 AAAGAAC
1 AAAGAAC
22652025 AAAGAAC
1 AAAGAAC
*
22652032 AAAGAAG
1 AAAGAAC
* *
22652039 ATAACGGGAT
1 A-AA--GAAC
22652049 AAAGAAC
1 AAAGAAC
22652056 AAAGAAC
1 AAAGAAC
22652063 AAAGAAC
1 AAAGAAC
22652070 AAA
1 AAA
22652073 AAAGAGGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 33 0.82
8 2 0.05
9 2 0.05
10 3 0.08
ACGTcount: A:0.67, C:0.11, G:0.18, T:0.04
Consensus pattern (7 bp):
AAAGAAC
Found at i:22652719 original size:18 final size:17
Alignment explanation
Indices: 22652687--22652720 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22652677 CGACCGCGAC
22652687 AAACGCGACGCGACCGA
1 AAACGCGACGCGACCGA
*
22652704 AAACGTGACTGCGACCG
1 AAACGCGAC-GCGACCG
22652721 CAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.32, G:0.29, T:0.06
Consensus pattern (17 bp):
AAACGCGACGCGACCGA
Found at i:22653180 original size:25 final size:26
Alignment explanation
Indices: 22653125--22653180 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
22653115 AACGTCCACT
*
22653125 ACCTATCGACCACTTAATGCCCGCAAT
1 ACCTATCGACCACTT-ATGCCCGCAAA
*
22653152 ACCTATCGACCACTT-TGCCCGTAAA
1 ACCTATCGACCACTTATGCCCGCAAA
22653177 ACCT
1 ACCT
22653181 GAACCCACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.29, C:0.38, G:0.11, T:0.23
Consensus pattern (26 bp):
ACCTATCGACCACTTATGCCCGCAAA
Found at i:22656382 original size:41 final size:41
Alignment explanation
Indices: 22656337--22656455 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
22656327 CCTGATTCAA
* *
22656337 TTCACCAGCAATT-AGCCTGCTAGACTTAAAGTCTGAATTAT
1 TTCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
* * *
22656378 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
* * * *
22656419 ATCACCGGCCTTAAGCCTGCTAGACTTTAAGCCTGAA
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAA
22656456 AATGTCCATT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 3 0.05
41 62 0.95
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
Found at i:22658113 original size:13 final size:13
Alignment explanation
Indices: 22658095--22658120 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22658085 TCAAACGATC
22658095 AAATTTTCACACA
1 AAATTTTCACACA
22658108 AAATTTTCACACA
1 AAATTTTCACACA
22658121 TATAACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:22665539 original size:26 final size:26
Alignment explanation
Indices: 22665489--22665542 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
22665479 TTGAATTTTT
* *
22665489 TTCGAATCGAGTCGAGTGAAATGAAA
1 TTCGAATCGAGTCGAATCAAATGAAA
* *
22665515 TTCGAGTCGAGTCGAATCAAGTGAAA
1 TTCGAATCGAGTCGAATCAAATGAAA
22665541 TT
1 TT
22665543 GTTCGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (26 bp):
TTCGAATCGAGTCGAATCAAATGAAA
Found at i:22665783 original size:20 final size:20
Alignment explanation
Indices: 22665744--22665884 Score: 259
Period size: 20 Copynumber: 7.2 Consensus size: 20
22665734 TTCTAGAACA
*
22665744 TTTTT-AATTTTT-TAACTT
1 TTTTTAAATTTTTATAATTT
22665762 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
22665782 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
22665802 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
22665822 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
22665842 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
22665862 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
22665882 TTT
1 TTT
22665885 AAAAAATATA
Statistics
Matches: 120, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
18 5 0.04
19 7 0.06
20 108 0.90
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTAAATTTTTATAATTT
Found at i:22665960 original size:21 final size:20
Alignment explanation
Indices: 22665904--22665969 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
22665894 AAATTTTGGG
*
22665904 ATTTTTATAAA-TATTTT-A
1 ATTTTTAAAAATTATTTTGA
*
22665922 AATTTTAAAAATTATTTTGA
1 ATTTTTAAAAATTATTTTGA
* *
22665942 ATTTTTGAAAATTATTTTTTA
1 ATTTTTAAAAATTA-TTTTGA
22665963 ATTTTTA
1 ATTTTTA
22665970 TTGAGAGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 9 0.23
19 6 0.15
20 13 0.33
21 11 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAAATTATTTTGA
Found at i:22665967 original size:20 final size:19
Alignment explanation
Indices: 22665763--22665959 Score: 67
Period size: 20 Copynumber: 10.2 Consensus size: 19
22665753 TTTTAACTTT
* * *
22665763 TTTTAAATTTTTATAATTTT
1 TTTTAAA-TTTTAAAAATTA
* * *
22665783 TTTTAAATTTTTATAATTTT
1 TTTTAAA-TTTTAAAAATTA
* * *
22665803 TTTTAAATTTTTATAATTTT
1 TTTTAAA-TTTTAAAAATTA
* * *
22665823 TTTTAAATTTTTATAATTTT
1 TTTTAAA-TTTTAAAAATTA
* * *
22665843 TTTTAAATTTTTATAATTTT
1 TTTTAAA-TTTTAAAAATTA
* *
22665863 TTTTAAATTTTTATAATT-
1 TTTTAAATTTTAAAAATTA
*** *
22665881 TTTTAAAAAATATAAATT-
1 TTTTAAATTTTAAAAATTA
*** * *
22665899 TTGGGATTTTTATAAA-TA
1 TTTTAAATTTTAAAAATTA
22665917 TTTTAAATTTTAAAAATTA
1 TTTTAAATTTTAAAAATTA
* *
22665936 TTTTGAATTTTTGAAAATTA
1 TTTT-AAATTTTAAAAATTA
22665956 TTTT
1 TTTT
22665960 TTAATTTTTA
Statistics
Matches: 150, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
17 1 0.01
18 32 0.21
19 13 0.09
20 104 0.69
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAAATTTTAAAAATTA
Found at i:22672788 original size:54 final size:54
Alignment explanation
Indices: 22672670--22672791 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 54
22672660 GTGTTTCAAG
* ** * * *
22672670 TCAGTGAGTTACACGGCCTATCACATGGCTCGGCACACGGGCGTCTGTGGCAAT
1 TCAGTAAGTTACACAACCTAGCACACGGCTCGGCACACGGGCGTCTGTGGCAAC
* *
22672724 TGAG-AGAGTTACACAACCTAGCACACGGC-CTGGCACACGGGCGTGT-TGGGCAAC
1 TCAGTA-AGTTACACAACCTAGCACACGGCTC-GGCACACGGGCGTCTGT-GGCAAC
22672778 TCAGTAAGTTACAC
1 TCAGTAAGTTACAC
22672792 GGGTGAGGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
53 2 0.04
54 52 0.95
55 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.20
Consensus pattern (54 bp):
TCAGTAAGTTACACAACCTAGCACACGGCTCGGCACACGGGCGTCTGTGGCAAC
Found at i:22698848 original size:24 final size:24
Alignment explanation
Indices: 22698818--22698871 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
22698808 CTGTGGAGAT
* *
22698818 TGATGATGCTT-TGGTGATTGAAGA
1 TGATGATACTTCTGATGA-TGAAGA
*
22698842 TGATGATATTTCTGATGATGAAGA
1 TGATGATACTTCTGATGATGAAGA
22698866 TGATGA
1 TGATGA
22698872 ACATGAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (24 bp):
TGATGATACTTCTGATGATGAAGA
Found at i:22703581 original size:18 final size:19
Alignment explanation
Indices: 22703558--22703597 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
22703548 AAACACCAGA
22703558 AAAGTAAATCA-TTTCTAG
1 AAAGTAAATCATTTTCTAG
22703576 AAAGTAAATCATTTTCTAG
1 AAAGTAAATCATTTTCTAG
22703595 AAA
1 AAA
22703598 TCATTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
AAAGTAAATCATTTTCTAG
Found at i:22703600 original size:14 final size:14
Alignment explanation
Indices: 22703581--22703611 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22703571 TCTAGAAAGT
*
22703581 AAATCATTTTCTAG
1 AAATCATTTTCCAG
22703595 AAATCATTTTCCAG
1 AAATCATTTTCCAG
22703609 AAA
1 AAA
22703612 AAATTCTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:22708210 original size:30 final size:30
Alignment explanation
Indices: 22708174--22708240 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
22708164 TCTCTAATAA
22708174 AATATGTGAAAAGTGAATAACTAGAATTAT
1 AATATGTGAAAAGTGAATAACTAGAATTAT
22708204 AATATGTGAAAAGTGAATAACTAGAATTAT
1 AATATGTGAAAAGTGAATAACTAGAATTAT
*
22708234 AACATGT
1 AATATGT
22708241 TTCCTGTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.30
Consensus pattern (30 bp):
AATATGTGAAAAGTGAATAACTAGAATTAT
Found at i:22724909 original size:15 final size:15
Alignment explanation
Indices: 22724889--22724919 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22724879 GTTATGTAAG
22724889 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
22724904 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
22724919 T
1 T
22724920 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:22725883 original size:15 final size:15
Alignment explanation
Indices: 22725859--22725888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22725849 TGGAGATCGA
*
22725859 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
22725874 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
22725889 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:22729270 original size:15 final size:15
Alignment explanation
Indices: 22729250--22729280 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22729240 GTTATGTAAG
22729250 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
22729265 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
22729280 T
1 T
22729281 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:22737436 original size:16 final size:16
Alignment explanation
Indices: 22737415--22737449 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22737405 GATGCTTGAA
22737415 GCTTGTCTTCGACCAC
1 GCTTGTCTTCGACCAC
22737431 GCTTGTCTTCGACCAC
1 GCTTGTCTTCGACCAC
22737447 GCT
1 GCT
22737450 AACTTAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.37, G:0.20, T:0.31
Consensus pattern (16 bp):
GCTTGTCTTCGACCAC
Found at i:22740526 original size:31 final size:31
Alignment explanation
Indices: 22740485--22740582 Score: 178
Period size: 31 Copynumber: 3.2 Consensus size: 31
22740475 TATATACACT
*
22740485 TATATTCACCTATGCCGAATGCATACATATA
1 TATATCCACCTATGCCGAATGCATACATATA
*
22740516 TATATCCACCTATGCCGAATGCTTACATATA
1 TATATCCACCTATGCCGAATGCATACATATA
22740547 TATATCCACCTATGCCGAATGCATACATATA
1 TATATCCACCTATGCCGAATGCATACATATA
22740578 TATAT
1 TATAT
22740583 ATATATCTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (31 bp):
TATATCCACCTATGCCGAATGCATACATATA
Found at i:22740589 original size:37 final size:35
Alignment explanation
Indices: 22740455--22740586 Score: 145
Period size: 31 Copynumber: 3.9 Consensus size: 35
22740445 ACTTATACCT
* * *
22740455 ACCTATGCCGAATGCATACATATATACACTTATATTC
1 ACCTATGCCGAATGCATACTTATATATA--TATATCC
22740492 ACCTATGCCGAATGCATAC----ATATATATATCC
1 ACCTATGCCGAATGCATACTTATATATATATATCC
*
22740523 ACCTATGCCGAATG----CTTACATATATATATCC
1 ACCTATGCCGAATGCATACTTATATATATATATCC
*
22740554 ACCTATGCCGAATGCATACATATATATATATAT
1 ACCTATGCCGAATGCATACTTATATATATATAT
22740587 ATCTATCAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
27 1 0.01
31 46 0.55
33 4 0.05
35 13 0.16
37 19 0.23
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (35 bp):
ACCTATGCCGAATGCATACTTATATATATATATCC
Found at i:22740848 original size:41 final size:39
Alignment explanation
Indices: 22740798--22740905 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 39
22740788 CCAGCTCTTG
*
22740798 AGCCTGCTAGACTTATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCTGAAAT-T-TCACCGGCATTA
22740839 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCTG-A-AATTTCACCGGCATTA
*
22740880 AGCCTGCTAGACGTAAAGTCT-AAATT
1 AGCCTGCTAGACGTATAGTCTGAAATT
22740906 ATGTCACTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
38 4 0.06
39 1 0.02
41 53 0.84
42 2 0.03
43 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (39 bp):
AGCCTGCTAGACGTATAGTCTGAAATTTCACCGGCATTA
Found at i:22754598 original size:265 final size:261
Alignment explanation
Indices: 22753929--22754746 Score: 984
Period size: 265 Copynumber: 3.1 Consensus size: 261
22753919 TTATCACCCG
* * * * *
22753929 AAATTTGAGGGAAGAAGAACTTA-ATCACACCTGTGAAATTA-AGTATTGATAAGTTCTTCAGGC
1 AAATTTGAGGGAAGAAAAACATATTTCA-ACC-GTGAAATTACA-TATTGATAACTTCTTGAGGC
* *
22753992 TAAATGTTGTGCAAGCATGATTTATAGTCTAAGACATACGTGCCTCCACATTGAT-ATTTACAAA
63 TAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCACATTGATCA-TTACAAA
* *
22754056 TCTTGTTCTAATCTTTTTTTACCAGTTGTTGTTGCTCCAGAAGGGTAATGATTTCTCATACTTTA
127 TCTTATTCTAATCTTTTTTTACCAGTTGTTGTTGCTCTAGAAGGGTAATGA-TTCTCATACTTTA
* *
22754121 TGCGGTGTATTTATGTATTTTCCCTTAACATAATAC-GAAGGGAATCTCCATTTACTTTTCACAC
191 TGCGGTGTATTTACGTATTTTCCCTTAACATAATACTG-AGGGAACCTCC-TTTACTTTTCACAC
** *
22754185 ATTTTACCA
254 -TTCAACTA
* * ** * * *
22754194 AAATTTGAGGGAAG---AACGTAATTACAATTGTGAAATTTCATATTGGTAACTTCTTGAGGCCA
1 AAATTTGAGGGAAGAAAAACAT-ATTTCAACCGTGAAATTACATATTGATAACTTCTTGAGGCTA
* * * *
22754256 AATGTTGTGCAAACATGATTTATAGTCCAAGACATACGTTCCTTTATATTGATCATTACAAATCT
65 AATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCACATTGATCATTACAAATCT
* *
22754321 TATTCTAATCTTTTTTTTCCAGTTGTTGTTGCTCTAGAAGGGTAATGATTCGTCATAATTTATGC
130 TATTCTAATCTTTTTTTACCAGTTGTTGTTGCTCTAGAAGGGTAATGATTC-TCATACTTTATGC
** * * *
22754386 AATGTATTTACGTATTTGCCCTTAACATAATACTGAGGAAACCTCGCTTTTCTTTTCACACGTTC
194 GGTGTATTTACGTATTTTCCCTTAACATAATACTGAGGGAACCTC-CTTTACTTTTCACAC-TTC
22754451 AACTA
257 AACTA
** * *
22754456 AAATTTGAGGGAAGAAAAACATATTTTTACCGATGAAATTACATATTGATAACTTGTTGAGACTA
1 AAATTTGAGGGAAGAAAAACATATTTCAACCG-TGAAATTACATATTGATAACTTCTTGAGGCTA
* * * *
22754521 AATGTTGTGCAAGCATGATTTATAGCCCGAGACATAAGTGCCTTCACATTGATCATTATAAATCT
65 AATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCACATTGATCATTACAAATCT
* * * * * * *
22754586 TATTCTAATCTTTTTTTGCTAGTTGTTCTTACTCTAGAAGGGTAATGATTCCTAATCCTTTATGG
130 TATTCTAATCTTTTTTTACCAGTTGTTGTTGCTCTAGAAGGGTAATGATT-CTCATACTTTATGC
* * *
22754651 GGTGCATTTACGTATTTTCCCTTTACATAATACTGAGGGAACCTCCCTTTGCTTTTCACATCTTC
194 GGTGTATTTACGTATTTTCCCTTAACATAATACTGAGGGAACCT-CCTTTACTTTTCACA-CTTC
22754716 AACTA
257 AACTA
*
22754721 AAATTTTAGGGAAGAAAAACATATTT
1 AAATTTGAGGGAAGAAAAACATATTT
22754747 ACACTAGTAA
Statistics
Matches: 473, Mismatches: 66, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
261 3 0.01
262 213 0.45
263 6 0.01
264 7 0.01
265 241 0.51
266 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (261 bp):
AAATTTGAGGGAAGAAAAACATATTTCAACCGTGAAATTACATATTGATAACTTCTTGAGGCTAA
ATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCACATTGATCATTACAAATCTT
ATTCTAATCTTTTTTTACCAGTTGTTGTTGCTCTAGAAGGGTAATGATTCTCATACTTTATGCGG
TGTATTTACGTATTTTCCCTTAACATAATACTGAGGGAACCTCCTTTACTTTTCACACTTCAACT
A
Found at i:22755274 original size:260 final size:263
Alignment explanation
Indices: 22754793--22755331 Score: 647
Period size: 260 Copynumber: 2.0 Consensus size: 263
22754783 CCCTAAACCT
* * *
22754793 TTAACCATAATACTGAGGGAACCTCCCTTTGCTTTTCACATGTTCAACCAAAAATTCAGGGAAAA
1 TTAA-CATAATACTAAGAGAACCTCCCTTTGCTTTTCACATATTCAACCAAAAATTCAGGGAAAA
* * * *
22754858 AGAACATAATTATACAAGTAAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGGAAGCA
65 AGAACATAATTATAC-ACTAAAATTAAGTAGTGATAACTTCTTGAGACCAAATGTTGTGCAAGCA
* * * * * *
22754923 TGATTTATATTCCGAGACATACGTGCCATCATGTTAATCATTACAAATCTTATTCTAATATTTTT
129 CGATTTATATTCCAAAACATACGTGCCATCACGTTAACCATTACAAATATTATTCTAATATTTTT
* * * * * * *
22754988 TTTCTAGTTTTTCTTGCTCTAGAAGGGTAAT-TATCGTCATACTTTATGTAATGTTTTTACGTAT
194 TTGCCAGTTTTTCTTACTCCAGAAGGGTAATATATC-TCATACTTTATGCAATATATTTACGTAT
*
22755052 TTTCCC
258 TTGCCC
* * * * *
22755058 TTAACATAATACTAAGAGAACCTCCCTTTGCTTTTCACATATTTAATCGAAAATTGAGGGAATAA
1 TTAACATAATACTAAGAGAACCTCCCTTTGCTTTTCACATATTCAACCAAAAATTCAGGGAAAAA
* * * * *
22755123 GAACATATTTGTAC-CTATAA-TACGTAGTGATAACTTGCTT-AGACCAGATGTT-TGCAAGCAC
66 GAACATAATTATACACTAAAATTAAGTAGTGATAACTT-CTTGAGACCAAATGTTGTGCAAGCAC
* * * * * *
22755184 GATTTATATTCTAAAACATACGTGTCTTCACGTTGACCATTACAAATATTATTTTAATCTTTTTT
130 GATTTATATTCCAAAACATACGTGCCATCACGTTAACCATTACAAATATTATTCTAATATTTTTT
* *
22755249 TGCCAGTTTTTCTTACTCCAGAAGGGTAATGATTTCTCATACTTTATGCGATATATTTACGTATT
195 TGCCAGTTTTTCTTACTCCAGAAGGGTAAT-ATATCTCATACTTTATGCAATATATTTACGTATT
22755314 TGCCC
259 TGCCC
22755319 TTAACATAATACT
1 TTAACATAATACT
22755332 GAGGGAAGAA
Statistics
Matches: 232, Mismatches: 39, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
260 87 0.38
261 66 0.28
262 10 0.04
264 65 0.28
265 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (263 bp):
TTAACATAATACTAAGAGAACCTCCCTTTGCTTTTCACATATTCAACCAAAAATTCAGGGAAAAA
GAACATAATTATACACTAAAATTAAGTAGTGATAACTTCTTGAGACCAAATGTTGTGCAAGCACG
ATTTATATTCCAAAACATACGTGCCATCACGTTAACCATTACAAATATTATTCTAATATTTTTTT
GCCAGTTTTTCTTACTCCAGAAGGGTAATATATCTCATACTTTATGCAATATATTTACGTATTTG
CCC
Found at i:22760695 original size:12 final size:12
Alignment explanation
Indices: 22760678--22760716 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
22760668 ACTAGTATAA
22760678 ACATATATCTAT
1 ACATATATCTAT
*
22760690 ACATATATTTAT
1 ACATATATCTAT
22760702 ACTATATATACTAT
1 AC-ATATAT-CTAT
22760716 A
1 A
22760717 ATACTATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 6 0.26
14 4 0.17
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (12 bp):
ACATATATCTAT
Found at i:22761965 original size:103 final size:103
Alignment explanation
Indices: 22761786--22761994 Score: 301
Period size: 103 Copynumber: 2.0 Consensus size: 103
22761776 GCTATATCTG
* * * * ** *
22761786 ATTTTTCTATTCTGAGTATAGTGCTGACTTTTCCGTTGTTTGTATTCTAGTAGTTTGAACTCCCT
1 ATTTTTCTATTCTGAGTACAGTGCTGACTTTTCCATTGCTTGTATTCTACTAGACTAAACTCCCT
* *
22761851 GTTGTGTCTTTATTGCTATATATGCTATTGCCATAAGA
66 GTTGTATCTTTATTGCCATATATGCTATTGCCATAAGA
* *
22761889 ATTTTTCTATTCTGAGTACAGTGTTGACTTTTCCATTGCTTGTATTCTACTAGACTAAACTCCGT
1 ATTTTTCTATTCTGAGTACAGTGCTGACTTTTCCATTGCTTGTATTCTACTAGACTAAACTCCCT
* *
22761954 GTTGTATCTTTATTGCCATATATGTTATTTCCATAAGA
66 GTTGTATCTTTATTGCCATATATGCTATTGCCATAAGA
22761992 ATT
1 ATT
22761995 CCCTGGTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (103 bp):
ATTTTTCTATTCTGAGTACAGTGCTGACTTTTCCATTGCTTGTATTCTACTAGACTAAACTCCCT
GTTGTATCTTTATTGCCATATATGCTATTGCCATAAGA
Found at i:22762149 original size:23 final size:23
Alignment explanation
Indices: 22762123--22762199 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
22762113 TGGCTTGATA
22762123 GTTTTTACTTCTTTCTTGTATTT
1 GTTTTTACTTCTTTCTTGTATTT
* * * *
22762146 GTTTATTA-TTATGTCCATGGATTGAT
1 GTTT-TTACTTCT-TTCTTGTATT--T
22762172 AGTTTTTACTTCTTTCTTGTATTT
1 -GTTTTTACTTCTTTCTTGTATTT
22762196 GTTT
1 GTTT
22762200 GTTCTCTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
23 11 0.28
24 11 0.28
26 11 0.28
27 7 0.17
ACGTcount: A:0.14, C:0.10, G:0.13, T:0.62
Consensus pattern (23 bp):
GTTTTTACTTCTTTCTTGTATTT
Found at i:22762157 original size:50 final size:50
Alignment explanation
Indices: 22762097--22762199 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
22762087 TTAGGCCTTA
*
22762097 TTTATCATTATGTCCATGGCTTGATAGTTTTTACTTCTTTCTTGTATTTG
1 TTTATCATTATGTCCATGGATTGATAGTTTTTACTTCTTTCTTGTATTTG
*
22762147 TTTATTATTATGTCCATGGATTGATAGTTTTTACTTCTTTCTTGTATTTG
1 TTTATCATTATGTCCATGGATTGATAGTTTTTACTTCTTTCTTGTATTTG
22762197 TTT
1 TTT
22762200 GTTCTCTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.58
Consensus pattern (50 bp):
TTTATCATTATGTCCATGGATTGATAGTTTTTACTTCTTTCTTGTATTTG
Found at i:22769424 original size:47 final size:48
Alignment explanation
Indices: 22769306--22769430 Score: 184
Period size: 46 Copynumber: 2.7 Consensus size: 48
22769296 GGATGGTTGA
** *
22769306 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTTGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACGAAG
*
22769354 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAAC-TAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACGAAG
*
22769399 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
22769431 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
45 2 0.03
46 39 0.56
47 28 0.40
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (48 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACGAAG
Found at i:22772401 original size:15 final size:15
Alignment explanation
Indices: 22772362--22772441 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
22772352 GTATCTTGGG
*
22772362 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
22772377 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
22772392 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
22772407 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
22772422 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
22772436 TTTCTT
1 TTTCTT
22772442 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22772431 original size:30 final size:30
Alignment explanation
Indices: 22772353--22772440 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
22772343 CATAGTATCG
* * *
22772353 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
22772383 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
22772413 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
22772441 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:22774883 original size:46 final size:46
Alignment explanation
Indices: 22774833--22775008 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
22774823 TGGTTGAGCA
22774833 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22774879 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22774924 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22774972 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22775009 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22774989 original size:93 final size:93
Alignment explanation
Indices: 22774830--22775000 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
22774820 GGATGGTTGA
* *
22774830 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22774895 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22774923 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22774988 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22775001 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22779886 original size:5 final size:5
Alignment explanation
Indices: 22779876--22779908 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
22779866 AAAACTCATA
22779876 AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
22779909 CTAGTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:22780629 original size:40 final size:40
Alignment explanation
Indices: 22780546--22780622 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
22780536 GGTGCTTTAA
* * *
22780546 AAAAAACGCCACTAAAGATCGAGTTCTAGTGGCGCTTTTG
1 AAAAAACGCCGCTAAAAATCGAGTTCTAGCGGCGCTTTTG
22780586 AAAAAACGCCGCTAAAAAT-GAGTAT-TAGCGGCG-TTTT
1 AAAAAACGCCGCTAAAAATCGAGT-TCTAGCGGCGCTTTT
22780623 CCGAAAAGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.12
39 11 0.33
40 18 0.55
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCGAGTTCTAGCGGCGCTTTTG
Found at i:22780768 original size:41 final size:41
Alignment explanation
Indices: 22780677--22780999 Score: 328
Period size: 41 Copynumber: 7.9 Consensus size: 41
22780667 TGAGTTTTCG
* * * * * *
22780677 GGGGCTTTCGCGGCGTTTATAAAAAAGTGCCGCTAATGCTC
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
22780718 TGGGTTTTAGCAGCATTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
22780759 GGGGCTTTAGCAGCGTTTTTAAAGAAGCGCCGCTAATGCTC
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
22780800 GGGGTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTT
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
22780841 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCACTAATGCTTC
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC-TC
* * * *
22780883 -GGGATTTAGCGGCGTTTTTGAGGAGGCACCGCTAATGCTA
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * ** *
22780923 GGGGCTTTAGCGACATTTTTGGGGAAGCGCCGCTAATGATC
1 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
**** *
22780964 -TATTTTTAGCGGCGTTTTTTGGA-AAGCGCCGCTAAT
1 GGGGATTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAAT
22781000 ACTCAAATTT
Statistics
Matches: 239, Mismatches: 40, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
40 22 0.09
41 216 0.90
42 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:22780819 original size:82 final size:81
Alignment explanation
Indices: 22780677--22780999 Score: 369
Period size: 82 Copynumber: 4.0 Consensus size: 81
22780667 TGAGTTTTCG
* * * * * *
22780677 GGGGCTTTCGCGGCGTTTATAAAAAAGTGCCGCTAATGCTCTGGGTTTTAGCAGCATTTTTGAAG
1 GGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC-GGGTTTTAGCGGCGTTTTTGAAG
*
22780742 AAGCGCCGCTAATGCTC
65 AAGCGCCGCTAATGCTA
*
22780759 GGGGCTTTAGCAGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAG
1 GGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC-GGGTTTTAGCGGCGTTTTTGAAG
*
22780824 AAGCGCCGCTAATGCTT
65 AAGCGCCGCTAATGCTA
* * * * *
22780841 GGGGATTTAGCGGCGTTTTTGAAGAAGCGCCACTAATGCTTCGGGATTTAGCGGCGTTTTTGAGG
1 GGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC-TCGGGTTTTAGCGGCGTTTTTGAAG
* *
22780906 AGGCACCGCTAATGCTA
65 AAGCGCCGCTAATGCTA
* * *** * *** *
22780923 GGGGCTTTAGCGACATTTTTGGGGAAGCGCCGCTAATGATCTATTTTTAGCGGCGTTTTTTGGA-
1 GGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGTTTTAGCGGCG-TTTTTGAAG
22780987 AAGCGCCGCTAAT
65 AAGCGCCGCTAAT
22781000 ACTCAAATTT
Statistics
Matches: 206, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
81 23 0.11
82 181 0.88
83 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (81 bp):
GGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGTTTTAGCGGCGTTTTTGAAGA
AGCGCCGCTAATGCTA
Found at i:22781265 original size:15 final size:15
Alignment explanation
Indices: 22781227--22781261 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22781217 TATTTTAAAA
22781227 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
22781242 GGTTTAGGGATTAT-
1 GGTTTAGGGAGTATG
22781256 GGTTTA
1 GGTTTA
22781262 AGGGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:22781282 original size:21 final size:20
Alignment explanation
Indices: 22781248--22781288 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
22781238 TATGGGTTTA
*
22781248 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
22781268 GGGATTTAAGGTTTATGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
22781289 AGGGGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:22781313 original size:14 final size:14
Alignment explanation
Indices: 22781294--22781334 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
22781284 GGGTTAGGGG
22781294 GTTAGGGGTTAA-A
1 GTTAGGGGTTAAGA
22781307 CGTTAGGGGTTAAGA
1 -GTTAGGGGTTAAGA
*
22781322 GTTAGGGATTAAG
1 GTTAGGGGTTAAG
22781335 GGTTTAGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 24 0.96
15 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.39, T:0.29
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:22781556 original size:15 final size:15
Alignment explanation
Indices: 22781518--22781552 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22781508 TATTTTAAAA
22781518 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
22781533 GGTTTAGGGATTAT-
1 GGTTTAGGGAGTATG
22781547 GGTTTA
1 GGTTTA
22781553 AGGGTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:22781561 original size:86 final size:84
Alignment explanation
Indices: 22781471--22781632 Score: 297
Period size: 86 Copynumber: 1.9 Consensus size: 84
22781461 TTAGGGGATA
*
22781471 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAAAGGTTTAGGGAGTATGGGT
1 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTT--AAGGTTTAGGGAGTATGGAT
22781536 TTAGGGATTATGGTTTAAGGG
64 TTAGGGATTATGGTTTAAGGG
22781557 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
1 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
22781622 AGGGATTATGG
66 AGGGATTATGG
22781633 ATTAGGGATT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
84 32 0.43
86 43 0.57
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.39
Consensus pattern (84 bp):
TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
AGGGATTATGGTTTAAGGG
Found at i:22781639 original size:14 final size:15
Alignment explanation
Indices: 22781604--22781650 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
22781594 TATTTTAAGG
*
22781604 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
22781619 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
22781634 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
22781647 TTTA
1 TTTA
22781651 AGGGTTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:22781702 original size:15 final size:15
Alignment explanation
Indices: 22781661--22781703 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
22781651 AGGGTTGATA
22781661 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGGGG
22781676 -TTAGAGGTTTAGGGG
1 TTTA-AGGTTTAGGGG
*
22781691 TTTAAGGGTTAGG
1 TTTAAGGTTTAGG
22781704 CATTAGGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
TTTAAGGTTTAGGGG
Found at i:22781910 original size:311 final size:311
Alignment explanation
Indices: 22781557--22782150 Score: 1179
Period size: 311 Copynumber: 1.9 Consensus size: 311
22781547 GGTTTAAGGG
22781557 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
1 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
22781622 AGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGATATTTAAGGTTTAGGGGTTAGAGGTTTA
66 AGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGATATTTAAGGTTTAGGGGTTAGAGGTTTA
22781687 GGGGTTTAAGGGTTAGGCATTAGGGGTTAAGAGTTAAGGATTTAAGGTTTAGGGATGCAGGGGTT
131 GGGGTTTAAGGGTTAGGCATTAGGGGTTAAGAGTTAAGGATTTAAGGTTTAGGGATGCAGGGGTT
22781752 GGGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAA
196 GGGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAA
*
22781817 TTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATA
261 TTGTAAAAGAGAGAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATA
22781868 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
1 TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
22781933 AGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGATATTTAAGGTTTAGGGGTTAGAGGTTTA
66 AGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGATATTTAAGGTTTAGGGGTTAGAGGTTTA
22781998 GGGGTTTAAGGGTTAGGCATTAGGGGTTAAGAGTTAAGGATTTAAGGTTTAGGGATGCAGGGGTT
131 GGGGTTTAAGGGTTAGGCATTAGGGGTTAAGAGTTAAGGATTTAAGGTTTAGGGATGCAGGGGTT
22782063 GGGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAA
196 GGGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAA
22782128 TTGTAAAAGAGAGAATAATAAAT
261 TTGTAAAAGAGAGAATAATAAAT
22782151 CAAATATTTT
Statistics
Matches: 282, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
311 282 1.00
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.41
Consensus pattern (311 bp):
TAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTT
AGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGATATTTAAGGTTTAGGGGTTAGAGGTTTA
GGGGTTTAAGGGTTAGGCATTAGGGGTTAAGAGTTAAGGATTTAAGGTTTAGGGATGCAGGGGTT
GGGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAA
TTGTAAAAGAGAGAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATA
Found at i:22781950 original size:14 final size:15
Alignment explanation
Indices: 22781915--22781961 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
22781905 TATTTTAAGG
*
22781915 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
22781930 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
22781945 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
22781958 TTTA
1 TTTA
22781962 AGGGTTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:22781984 original size:397 final size:388
Alignment explanation
Indices: 22781229--22781951 Score: 1148
Period size: 397 Copynumber: 1.8 Consensus size: 388
22781219 TTTTAAAAGG
* * * *
22781229 TTTAGGGAGTATGGGTTTAGGGATTATGGTTTAAGGGTTGGGATTTAAGGTTTATGGGTTAGGGG
1 TTTAGGGAGTATGGGATTAGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGAGG
* * *
22781294 GTTAGGGGTTAAACGTTAGGGGTTAAGAGTTAGGGATTAAGGGTTTAGGGATTCAGGGGTCAGGT
66 GTTAGGGGTTAAACATTAGGGGTTAAGAGTTAAGGATTAAGGGTTTAGGGATGCAGGGGTCAGGT
*
22781359 TAGGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGT
131 TAAGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGT
22781424 AAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGGATATAATTAATTTAAGATTTA
196 AAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGGATATAATTAATTTAAGATTTA
* *
22781489 AGGCCGGTTTAGGAGTTCATATTTTAAAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGTTTAA
261 AGGCCGGTTTAGGAGTTCATATTTT-AAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAA
**
22781554 GGGTAATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGA
325 GGG-AATTAATTTAAGATTTAAGGAAGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGA
* *
22781619 TTTAGGGATTAT-GGATTAGGGATTATGGTTTAAGGGTTGATATTTAAGGTTTAGGGGTTAGAGG
1 TTTAGGGAGTATGGGATTAGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGAGG
*
22781683 TTTAGGGGTTTAAGGGTTAGGCATTAGGGGTTAAGAGTTAAGGATTTAA-GGTTTAGGGATGCAG
66 GTTAGGGG-TTAA-----A--CATTAGGGGTTAAGAGTTAAGGA-TTAAGGGTTTAGGGATGCAG
** *
22781747 GGGTTGGGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTA
122 GGGTCAGGTTAAGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTA
*
22781812 TATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATAATTAATT
187 TATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGGATATAATTAATT
22781877 TAAGATTTAAGGCCGGTTTAGGAGTTCATATTTT-AAGGTTTAGGGAGTATGGATTTAGGGATTA
252 TAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAAGGTTTAGGGAGTATGGATTTAGGGATTA
22781941 TGGATT-AGGGA
317 TGGATTAAGGGA
22781952 TTATGGTTTA
Statistics
Matches: 307, Mismatches: 17, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
389 54 0.18
390 15 0.05
393 1 0.00
394 4 0.01
395 35 0.11
397 194 0.63
398 4 0.01
ACGTcount: A:0.28, C:0.02, G:0.29, T:0.41
Consensus pattern (388 bp):
TTTAGGGAGTATGGGATTAGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGAGG
GTTAGGGGTTAAACATTAGGGGTTAAGAGTTAAGGATTAAGGGTTTAGGGATGCAGGGGTCAGGT
TAAGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGT
AAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGGATATAATTAATTTAAGATTTA
AGGCCGGTTTAGGAGTTCATATTTTAAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAAG
GGAATTAATTTAAGATTTAAGGAAGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGA
Found at i:22782013 original size:15 final size:15
Alignment explanation
Indices: 22781972--22782014 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
22781962 AGGGTTGATA
22781972 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGGGG
22781987 -TTAGAGGTTTAGGGG
1 TTTA-AGGTTTAGGGG
*
22782002 TTTAAGGGTTAGG
1 TTTAAGGTTTAGG
22782015 CATTAGGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
TTTAAGGTTTAGGGG
Found at i:22786972 original size:86 final size:85
Alignment explanation
Indices: 22786813--22787113 Score: 297
Period size: 86 Copynumber: 3.5 Consensus size: 85
22786803 GATATGTTTT
* * * * * * *
22786813 TAGCGGCGTTTTTGCGAGAAGCGTTGCTAAAAGT-TTGTTCTATAGTGGCATTTGT--AAAAAAA
1 TAGCGGCG-TTTTGGGAAAAGCGCTGCTAAAGGTCGTGGTCTATAGTGGCGTTTGTGGAAAAAAA
*
22786875 GCGTCGTTAAAGGTCGTGGTCTA
65 GC--CGCTAAAGGTCGTGGTCTA
22786898 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCGTGGTCTATAGTGGCGTTTGTGGAAAAAAA
1 TAGCGGCGTTT-TGGGAAAAGCGCTGCTAAAGGTCGTGGTCTATAGTGGCGTTTGTGGAAAAAAA
* * *
22786963 GCCGCTAAAGGTCCTAGTCTT
65 GCCGCTAAAGGTCGTGGTCTA
* * * * * **
22786984 TAGTGGCGTTTATGGGTAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTTTTGG-AAAATC
1 TAGCGGCGTTT-TGGGAAAAGCGCTGCTAAAGGTCGTGGTCTATAGTGGCGTTTGTGGAAAAAAA
*
22787048 GCCGCTAAATGTCGTGGTCTA
65 GCCGCTAAAGGTCGTGGTCTA
* * * * *
22787069 TAGTGGAGTTTTTGGAAAAGCG-TCGCTAAAGGTCATAGTCTATAG
1 TAGCGGCGTTTTGGGAAAAGCGCT-GCTAAAGGTCGTGGTCTATAG
22787114 CTGCGATTAT
Statistics
Matches: 182, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
84 31 0.17
85 57 0.31
86 85 0.47
88 9 0.05
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (85 bp):
TAGCGGCGTTTTGGGAAAAGCGCTGCTAAAGGTCGTGGTCTATAGTGGCGTTTGTGGAAAAAAAG
CCGCTAAAGGTCGTGGTCTA
Found at i:22787062 original size:42 final size:42
Alignment explanation
Indices: 22786871--22787114 Score: 272
Period size: 43 Copynumber: 5.7 Consensus size: 42
22786861 CATTTGTAAA
* * *
22786871 AAAAGCGTCGTTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTT-TTGG
* * *
22786914 AAAAGCGCTGCTAAAGGTCGTGGTCTATAGTGGCGTTTGTGG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTTTTGG
** * * * * *
22786956 AAAAAAAGCCGCTAAAGGTCCTAGTCTTTAGTGGCGTTTATGGG
1 -AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTT-TTGG
*
22787000 TAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTTTTGG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTTTTGG
* * * *
22787042 AAAATCGCCGCTAAATGTCGTGGTCTATAGTGGAGTTTTTGG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTTTTGG
* * *
22787084 AAAAGCGTCGCTAAAGGTCATAGTCTATAGC
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGC
22787115 TGCGATTATT
Statistics
Matches: 166, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
42 67 0.40
43 97 0.58
44 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGCGTTTTTGG
Found at i:22787497 original size:18 final size:18
Alignment explanation
Indices: 22787466--22787517 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
22787456 TGTATTATAA
* *
22787466 TATTAATTAATAAAATAT
1 TATTACTTATTAAAATAT
22787484 TATTACTTATTAAAATAT
1 TATTACTTATTAAAATAT
22787502 TATTACTTAATTAAAA
1 TATTACTT-ATTAAAA
22787518 AATCATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 24 0.77
19 7 0.23
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTACTTATTAAAATAT
Found at i:22796592 original size:43 final size:43
Alignment explanation
Indices: 22796526--22796645 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
22796516 AGCTCGTACA
* *
22796526 ATGCCAACATCCCAGAC-GTGGTCTTACATG-TAATCACAAATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACATGAAAAT-ACAAATCG
* *
22796569 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAAATACAAGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACATGAAAATACAAATCG
* *
22796612 ATGCCAACGTCCCAAACATGGTCTTACATGAAAA
1 ATGCCAACGTCCCAGACAGGGTCTTACATGAAAA
22796646 CACTTATTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.03
43 58 0.88
44 6 0.09
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGAAAATACAAATCG
Found at i:22804818 original size:43 final size:43
Alignment explanation
Indices: 22804752--22804869 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 43
22804742 CTCGTACAAC
* *
22804752 GCCAATGTCCCAAACATGGTCTTACATG-TAATCACAAATCGAT
1 GCCACTGTCCCAAACATGGTCTTACATGAAAAT-ACAAATCGAT
* * *
22804795 GCCACTGTCCCAAACAGGGTCTTACACGAAAATACAAGTCGAT
1 GCCACTGTCCCAAACATGGTCTTACATGAAAATACAAATCGAT
* *
22804838 GCCAAC-GTCCTAGACATGGTCTTACATGAAAA
1 GCC-ACTGTCCCAAACATGGTCTTACATGAAAA
22804870 CACGTATCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 59 0.92
44 5 0.08
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCACTGTCCCAAACATGGTCTTACATGAAAATACAAATCGAT
Found at i:22806779 original size:5 final size:5
Alignment explanation
Indices: 22806771--22806795 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22806761 TTCAAATTAG
22806771 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
22806796 CTTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:22806815 original size:84 final size:84
Alignment explanation
Indices: 22806704--22807350 Score: 401
Period size: 84 Copynumber: 7.6 Consensus size: 84
22806694 ACCAATATCG
* * * * *
22806704 AATAAAATATTGTTAAACGGCGGGAATAAATCCCAAAACATATTTTGTTTAATTCAATTCAAATT
1 AATAAAATCTTGTTAAACGGAGGGAATAAATCCCGAAACAGATTTTATTTAATTCAATTCAAATT
*
22806769 AGAAAATAAAATAAAATAA
66 AGGAAATAAAATAAAATAA
* * * * *
22806788 AATAAAATCTTATTAAATGGAGGGAATAAATCTCGAAATAGATTTTATTTAATTCAATCCAAATT
1 AATAAAATCTTGTTAAACGGAGGGAATAAATCCCGAAACAGATTTTATTTAATTCAATTCAAATT
* *
22806853 AGGAAACAAAATAAAATCA
66 AGGAAATAAAATAAAATAA
* *
22806872 AATAAAATCTTGTTAAACGGCA-GGAATAAATCCTGAAACAGATTTTATTTAATTCAATTCATAT
1 AATAAAATCTTGTTAAACGG-AGGGAATAAATCCCGAAACAGATTTTATTTAATTCAATTCAAAT
22806936 TAGGAAATAAAATAAAATAA
65 TAGGAAATAAAATAAAATAA
* * * *
22806956 AATAAAATAGAATCTTGTTAAAC-GACGGGAAGAAATACCGAAATAGATTTTATTTAATTTAATT
1 AAT---A-A-AATCTTGTTAAACGGA-GGGAATAAATCCCGAAACAGATTTTATTTAATTCAA--
*** * * * *
22807020 TCTCGTTTTTGGAAA-AATATCAAATCA
58 T-TCAAATTAGGAAATAAAATAAAATAA
* * *
22807047 AA-AAAATCATT-ATAAACGGTA-GGAATAAATCCCGAAACAGATTTAATTTAATTTAATTTCTA
1 AATAAAATC-TTGTTAAACGG-AGGGAATAAATCCCGAAACAGATTTTATTTAATTCAA-TTC-A
* * * * **
22807109 ATTTTTGGCAACAAAATCAAAATGT
62 A-ATTAGGAAATAAAAT-AAAATAA
* * * * ** * * * *
22807134 AAT-AAATC-CGTTGAACGGTGGGAATCAATCCTAAAACTA-ATTTTATTTTACTC-GTT---TT
1 AATAAAATCTTGTTAAACGGAGGGAATAAATCCCGAAAC-AGATTTTATTTAATTCAATTCAAAT
* *
22807192 TA-GAAATAAAACAAAATATGG
65 TAGGAAATAAAATAAAATA--A
* * * * * * **
22807213 AATAAAA--TTGTTAAATGGCGGGAATCAATCCCGAAACGGATTTTATTTACCTTTAATTTCTCA
1 AATAAAATCTTGTTAAACGGAGGGAATAAATCCCGAAACAGATTTTATTTA-ATTCAA-TTCAAA
* *
22807276 TTTGGAAATAGAAACAAAATAATA
64 TTAGGAAATA-AAATAAAAT-A-A
* * * *
22807300 TAATAAAATC-CGTTGAACGGTGGGAATAAATCCCGAAACGGATTTTATTTA
1 -AATAAAATCTTGTTAAACGGAGGGAATAAATCCCGAAACAGATTTTATTTA
22807351 CCTTTAATTT
Statistics
Matches: 440, Mismatches: 84, Indels: 73
0.74 0.14 0.12
Matches are distributed among these distances:
77 5 0.01
78 7 0.02
79 38 0.09
80 4 0.01
82 2 0.00
83 2 0.00
84 151 0.34
85 51 0.12
86 44 0.10
87 25 0.06
88 10 0.02
89 79 0.18
91 12 0.03
92 10 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (84 bp):
AATAAAATCTTGTTAAACGGAGGGAATAAATCCCGAAACAGATTTTATTTAATTCAATTCAAATT
AGGAAATAAAATAAAATAA
Found at i:22806948 original size:5 final size:5
Alignment explanation
Indices: 22806940--22806964 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22806930 TCATATTAGG
22806940 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
22806965 GAATCTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:22807337 original size:89 final size:88
Alignment explanation
Indices: 22807194--22807449 Score: 345
Period size: 89 Copynumber: 2.9 Consensus size: 88
22807184 CTCGTTTTTA
* * * *
22807194 GAAATAAAACAAAAT-ATGGAATAAAAT-TGTTAAATGGCGGGAATCAATCCCGAAACGGATTTT
1 GAAATAAAACAAAATAATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAACGGATTTT
*
22807257 ATTTACCTTTAATTTCTCATTTG
66 ATTTACCTTTAATTTCCCATTTG
** *
22807280 GAAATAGAAACAAAATAATATAATAAAATCCGTTGAACGGTGGGAATAAATCCCGAAACGGATTT
1 GAAATA-AAACAAAATAATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAACGGATTT
*
22807345 TATTTACCTTTAATTTCCCGTTTG
65 TATTTACCTTTAATTTCCCATTTG
* ** * *
22807369 AAAATAAAATCAAAATAATGGAATAAAATCCGTTGAACAACGAGAATAAATCTCGAAACGGATTT
1 GAAATAAAA-CAAAATAATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAACGGATTT
*
22807434 TATTTACTTTTAATTT
65 TATTTACCTTTAATTT
22807450 TGGAAACAAA
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
86 6 0.04
87 9 0.06
88 13 0.09
89 120 0.81
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (88 bp):
GAAATAAAACAAAATAATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAACGGATTTT
ATTTACCTTTAATTTCCCATTTG
Found at i:22809796 original size:27 final size:26
Alignment explanation
Indices: 22809765--22809833 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
22809755 TCTTCGTTGT
22809765 ATATATACACATACATGTGTTATTATA
1 ATATATA-ACATACATGTGTTATTATA
* *
22809792 ATATAT-ATATACATGTGTTTTTATA
1 ATATATAACATACATGTGTTATTATA
*
22809817 ATATAT-ATATACATGTG
1 ATATATAACATACATGTG
22809834 CATATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 34 0.85
27 6 0.15
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (26 bp):
ATATATAACATACATGTGTTATTATA
Found at i:22809847 original size:29 final size:25
Alignment explanation
Indices: 22809775--22809833 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
22809765 ATATATACAC
*
22809775 ATACATGTGTTATTATAATATATAT
1 ATACATGTGTTTTTATAATATATAT
22809800 ATACATGTGTTTTTATAATATATAT
1 ATACATGTGTTTTTATAATATATAT
22809825 ATACATGTG
1 ATACATGTG
22809834 CATATTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.47
Consensus pattern (25 bp):
ATACATGTGTTTTTATAATATATAT
Found at i:22810193 original size:37 final size:36
Alignment explanation
Indices: 22810129--22810199 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
22810119 AAATATGTGT
22810129 ACATATACATATTTTCATATTTCCATAATTTTATAC
1 ACATATACATATTTTCATATTTCCATAATTTTATAC
* * *
22810165 ACATATATATATCTTTTATATTTTCATAATTTTAT
1 ACATATACATAT-TTTCATATTTCCATAATTTTAT
22810200 TCATTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 11 0.35
37 20 0.65
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (36 bp):
ACATATACATATTTTCATATTTCCATAATTTTATAC
Found at i:22812943 original size:30 final size:30
Alignment explanation
Indices: 22812885--22812946 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
22812875 TCAAATAAAG
*
22812885 TTAATTGATTCGGCGCTGATAAGCGTACTA
1 TTAATTGATTCGGCGCTAATAAGCGTACTA
* * *
22812915 TTAATTGATTCGGCGTTAATTAGTGTACTA
1 TTAATTGATTCGGCGCTAATAAGCGTACTA
22812945 TT
1 TT
22812947 GAAAGTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (30 bp):
TTAATTGATTCGGCGCTAATAAGCGTACTA
Found at i:22815289 original size:3 final size:3
Alignment explanation
Indices: 22815281--22815309 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22815271 AATTAATACA
22815281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22815310 ACCTCATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22825082 original size:16 final size:16
Alignment explanation
Indices: 22825061--22825091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22825051 TTGTATATAC
*
22825061 ATGAATTGATGATGAG
1 ATGAATTGATAATGAG
22825077 ATGAATTGATAATGA
1 ATGAATTGATAATGA
22825092 TGATATATGA
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:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGAATTGATAATGAG
Found at i:22826437 original size:18 final size:19
Alignment explanation
Indices: 22826409--22826444 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22826399 AGATGATGAA
*
22826409 AATGTAAATTGTGTTATTT
1 AATGTAAATTGTATTATTT
22826428 AATG-AAATTGTATTATT
1 AATGTAAATTGTATTATT
22826445 GGTTACCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (19 bp):
AATGTAAATTGTATTATTT
Found at i:22834813 original size:16 final size:17
Alignment explanation
Indices: 22834792--22834824 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22834782 TGATTATATT
22834792 TAAAAT-ATAAATTAGA
1 TAAAATAATAAATTAGA
*
22834808 TAAAATAATAATTTAGA
1 TAAAATAATAAATTAGA
22834825 ACAATTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAATAATAAATTAGA
Found at i:22835978 original size:16 final size:16
Alignment explanation
Indices: 22835953--22836000 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
22835943 AATACCAATA
*
22835953 TTTTAGTTTTATATT-T
1 TTTTAATTTTA-ATTGT
22835969 TTTTAATTTTAATTGT
1 TTTTAATTTTAATTGT
22835985 TTTTAAAATTTTAATT
1 TTTT--AATTTTAATT
22836001 ACAATTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 3 0.11
16 15 0.54
18 10 0.36
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTAATTTTAATTGT
Found at i:22842181 original size:18 final size:18
Alignment explanation
Indices: 22842158--22842192 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22842148 ACCCATAGTC
22842158 AGACCGCAAACCTTAGGT
1 AGACCGCAAACCTTAGGT
*
22842176 AGACCGCAACCCTTAGG
1 AGACCGCAAACCTTAGG
22842193 CAGCTACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.14
Consensus pattern (18 bp):
AGACCGCAAACCTTAGGT
Found at i:22844450 original size:31 final size:31
Alignment explanation
Indices: 22844391--22844451 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
22844381 CTACATATAG
* *
22844391 CCCACACGACCTACCTAACCTGCCCGTGTGT
1 CCCACACGACCTACCCAAACTGCCCGTGTGT
* * *
22844422 CCCACACGGCCTACCCAAATTGCTCGTGTG
1 CCCACACGACCTACCCAAACTGCCCGTGTG
22844452 ATCGCACATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.20, C:0.43, G:0.18, T:0.20
Consensus pattern (31 bp):
CCCACACGACCTACCCAAACTGCCCGTGTGT
Found at i:22846091 original size:12 final size:12
Alignment explanation
Indices: 22846061--22846085 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22846051 TAAAGACTTC
22846061 TAAATTTTTTTA
1 TAAATTTTTTTA
22846073 TAAATTTTTTTA
1 TAAATTTTTTTA
22846085 T
1 T
22846086 TGATTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAAATTTTTTTA
Found at i:22852505 original size:18 final size:15
Alignment explanation
Indices: 22852455--22852497 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 15
22852445 TTTAATATAT
22852455 ATTATAAAATAAAAA
1 ATTATAAAATAAAAA
22852470 ATTATAAAGACTCAAAAA
1 ATTATAAA-A-T-AAAAA
22852488 ATTATAAAAT
1 ATTATAAAAT
22852498 TGAGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 2 0.08
17 2 0.08
18 13 0.52
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (15 bp):
ATTATAAAATAAAAA
Found at i:22856452 original size:44 final size:44
Alignment explanation
Indices: 22856384--22856512 Score: 170
Period size: 44 Copynumber: 2.9 Consensus size: 44
22856374 CTATACGCAT
* *
22856384 AAAATGAGTAAAACCATAGCTGAAAGATGCTAT-GACGTCATGAC
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGGA-ATCATGAC
* *
22856428 AAAATGAGTAAGACCATAGTTGAAAGATGCTATGGAATCATGAT
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGGAATCATGAC
* * * *
22856472 AAAATGAGTAAGACCATATCTAAAAGATGATATGGCATCAT
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGGAATCAT
22856513 ATGAAAGCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
44 73 0.97
45 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (44 bp):
AAAATGAGTAAGACCATAGCTGAAAGATGCTATGGAATCATGAC
Found at i:22860010 original size:55 final size:55
Alignment explanation
Indices: 22859946--22860125 Score: 188
Period size: 55 Copynumber: 3.3 Consensus size: 55
22859936 TGTCTAAGCT
22859946 AAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCG
1 AAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCG
** ** * ** ** * *
22860001 AAGACACATTAAAAATTGGTATTAA-G-CTAAG--ACATATTAATAACATGCATTAAACT
1 AAGACACATT-AAAA-T-CAAACAATGACTAAGACACAAATTAATTTCA-GCA-GCAGCG
22860057 AAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCG
1 AAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCG
22860112 AAGACACATTAAAA
1 AAGACACATTAAAA
22860126 ATTGGTATTA
Statistics
Matches: 94, Mismatches: 22, Indels: 18
0.70 0.16 0.13
Matches are distributed among these distances:
53 3 0.03
54 13 0.14
55 38 0.40
56 24 0.26
57 13 0.14
58 3 0.03
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (55 bp):
AAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCG
Found at i:22860032 original size:28 final size:27
Alignment explanation
Indices: 22860001--22860180 Score: 91
Period size: 28 Copynumber: 6.5 Consensus size: 27
22859991 AGCAGCAGCG
* *
22860001 AAGACACATTAAAA-ATTGGTATTAAGCT
1 AAGACACATTAAAACA-T-GCATTAAACT
*
22860029 AAGACATATTAATAACATGCATTAAACT
1 AAGACACATTAA-AACATGCATTAAACT
** * *
22860057 AAGACACATTAAAATCAAACAAT-GACT
1 AAGACACATTAAAA-CATGCATTAAACT
** ** * *
22860084 AAGACACAAATTAATTTCA-GCA-GCAGCG
1 AAGACAC--ATTAA-AACATGCATTAAACT
* *
22860112 AAGACACATTAAAA-ATTGGTATTAAGCT
1 AAGACACATTAAAACA-T-GCATTAAACT
*
22860140 AAGACATATTAATAACATGCATTAAACT
1 AAGACACATTAA-AACATGCATTAAACT
22860168 AAGACACATTAAA
1 AAGACACATTAAA
22860181 CACTACAATT
Statistics
Matches: 114, Mismatches: 25, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
24 1 0.01
26 5 0.04
27 15 0.13
28 78 0.68
29 13 0.11
30 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.24
Consensus pattern (27 bp):
AAGACACATTAAAACATGCATTAAACT
Found at i:22860211 original size:111 final size:111
Alignment explanation
Indices: 22859944--22860180 Score: 474
Period size: 111 Copynumber: 2.1 Consensus size: 111
22859934 TTTGTCTAAG
22859944 CTAAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCGAAGACACA
1 CTAAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCGAAGACACA
22860009 TTAAAAATTGGTATTAAGCTAAGACATATTAATAACATGCATTAAA
66 TTAAAAATTGGTATTAAGCTAAGACATATTAATAACATGCATTAAA
22860055 CTAAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCGAAGACACA
1 CTAAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCGAAGACACA
22860120 TTAAAAATTGGTATTAAGCTAAGACATATTAATAACATGCATTAAA
66 TTAAAAATTGGTATTAAGCTAAGACATATTAATAACATGCATTAAA
22860166 CTAAGACACATTAAA
1 CTAAGACACATTAAA
22860181 CACTACAATT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 126 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.23
Consensus pattern (111 bp):
CTAAGACACATTAAAATCAAACAATGACTAAGACACAAATTAATTTCAGCAGCAGCGAAGACACA
TTAAAAATTGGTATTAAGCTAAGACATATTAATAACATGCATTAAA
Found at i:22862602 original size:18 final size:18
Alignment explanation
Indices: 22862577--22862656 Score: 85
Period size: 18 Copynumber: 4.4 Consensus size: 18
22862567 CTTTCTCGCA
22862577 CTCTTTTTCTTTTTCAAT
1 CTCTTTTTCTTTTTCAAT
* *
22862595 CTCGTTTTGCTTTCTCTCACT
1 CTC-TTTTTCTTT-T-TCAAT
22862616 CTCTTTTTCTTTTTCAAT
1 CTCTTTTTCTTTTTCAAT
*
22862634 TTCTTTTTC--TTTC-AT
1 CTCTTTTTCTTTTTCAAT
22862649 CTCTTTTT
1 CTCTTTTT
22862657 TTCTTCTCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 9 0.17
16 4 0.08
18 15 0.28
19 9 0.17
20 9 0.17
21 7 0.13
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
CTCTTTTTCTTTTTCAAT
Found at i:22862628 original size:39 final size:35
Alignment explanation
Indices: 22862548--22862651 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 35
22862538 ATTCTCGCTC
* *
22862548 TCTTTTTCAATTTGCTTTTCTTTCTCGCACTCTTTT
1 TCTTTTTCAATTCG-TTTTCTTTCTCTCACTCTTTT
22862584 TCTTTTTCAATCTCGTTTTGCTTTCTCTCACTCTCTTTT
1 TCTTTTTCAAT-TCGTTTT-CTTTCTCTCA--CTCTTTT
*
22862623 TCTTTTTCAATTTCTTTTTCTTTCATCTC
1 TCTTTTTCAA-TTCGTTTTCTTTC-TCTC
22862652 TTTTTTTCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
36 15 0.25
37 11 0.19
38 5 0.08
39 27 0.46
40 1 0.02
ACGTcount: A:0.09, C:0.26, G:0.04, T:0.62
Consensus pattern (35 bp):
TCTTTTTCAATTCGTTTTCTTTCTCTCACTCTTTT
Found at i:22862652 original size:33 final size:37
Alignment explanation
Indices: 22862548--22862656 Score: 104
Period size: 36 Copynumber: 3.0 Consensus size: 37
22862538 ATTCTCGCTC
* * *
22862548 TCTTTTTCAATTTGCTTTTCTTTCTCGCA--CTCTTTT
1 TCTTTTTCAATCT-CTCTTCTTTCTCTCACTCTCTTTT
*
22862584 TCTTTTTCAATCTCGTTTTGCTTTCTCTCACTCTCTTTT
1 TCTTTTTCAATCTC-TCTT-CTTTCTCTCACTCTCTTTT
*
22862623 TCTTTTTCAAT-T-TCTT-TTTCTTTCA-TCTCTTTT
1 TCTTTTTCAATCTCTCTTCTTTCTCTCACTCTCTTTT
22862656 T
1 T
22862657 TTCTTCTCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 9 0.14
34 8 0.12
35 1 0.02
36 19 0.29
37 9 0.14
38 1 0.02
39 18 0.28
ACGTcount: A:0.08, C:0.25, G:0.04, T:0.63
Consensus pattern (37 bp):
TCTTTTTCAATCTCTCTTCTTTCTCTCACTCTCTTTT
Found at i:22863005 original size:18 final size:18
Alignment explanation
Indices: 22862984--22863021 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22862974 CTTCTACCTT
22862984 TTCCCCTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
*
22863002 TTCCCTTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
22863020 TT
1 TT
22863022 GGATTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCCCCTTTCCCTTCCCC
Found at i:22863115 original size:25 final size:25
Alignment explanation
Indices: 22863081--22863130 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22863071 CAGGTAAGGC
*
22863081 TCCTTCTTCTTCTTCCGTTTTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
22863106 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
22863131 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:22866499 original size:15 final size:15
Alignment explanation
Indices: 22866460--22866512 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
22866450 GAACATTTGG
22866460 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
22866477 AACTTTTATTAATAAAA
1 AA--TTTATTAATAAAA
*
22866494 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
22866510 AAT
1 AAT
22866513 CATTGCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 10 0.31
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:22866586 original size:22 final size:20
Alignment explanation
Indices: 22866543--22866581 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22866533 TAATTTAAAA
22866543 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
22866563 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
22866582 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:22866705 original size:20 final size:20
Alignment explanation
Indices: 22866680--22866719 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22866670 AATATTTTCC
*
22866680 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
22866700 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
22866720 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:22866725 original size:34 final size:35
Alignment explanation
Indices: 22866668--22866734 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22866658 CAAACACTAG
*
22866668 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
22866703 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
22866735 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:22866726 original size:14 final size:14
Alignment explanation
Indices: 22866703--22866742 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22866693 ACAGAAAAGT
*
22866703 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
22866717 AAATCATTTTACGG
1 AAAACATTTTACAG
22866731 AAAACATTTTAC
1 AAAACATTTTAC
22866743 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:22868632 original size:11 final size:11
Alignment explanation
Indices: 22868616--22868649 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22868606 AGAACGTCCT
22868616 TTGAAGCTTCC
1 TTGAAGCTTCC
*
22868627 TTGAAGGTTCC
1 TTGAAGCTTCC
*
22868638 TTGAAGTTTCC
1 TTGAAGCTTCC
22868649 T
1 T
22868650 AGCATGAGAG
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:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:22871038 original size:27 final size:27
Alignment explanation
Indices: 22871001--22871065 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
22870991 AAAAATTATA
22871001 ATATATATATGT-ACA-TATAAGAAAAAT
1 ATATATATATGTGA-ATTATAA-AAAAAT
*
22871028 ATATATGTATGTGAATTATAAAAAAAT
1 ATATATATATGTGAATTATAAAAAAAT
*
22871055 AAAATATATAT
1 -ATATATATAT
22871066 AAATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (27 bp):
ATATATATATGTGAATTATAAAAAAAT
Found at i:22871791 original size:21 final size:20
Alignment explanation
Indices: 22871765--22871838 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 20
22871755 AATCATATCT
*
22871765 TCTAAGATTGCATTTATCAAA
1 TCTAAGATTGCA-TTATCATA
22871786 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCAT-TATCATA
*
22871807 TCTAAGATTACA-TATCATA
1 TCTAAGATTGCATTATCATA
22871826 TCTAAGATTGCAT
1 TCTAAGATTGCAT
22871839 ATCCTTGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 1 0.02
21 29 0.60
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCATTATCATA
Found at i:22871823 original size:19 final size:19
Alignment explanation
Indices: 22871765--22871841 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
22871755 AATCATATCT
* *
22871765 TCTAAGATTGCATTTATCAAA
1 TCTAAGATTACA--TATCATA
*
22871786 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
22871807 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
22871826 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
22871842 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 24 0.49
21 24 0.49
23 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:22875062 original size:28 final size:26
Alignment explanation
Indices: 22874998--22875143 Score: 114
Period size: 28 Copynumber: 5.1 Consensus size: 26
22874988 TTTTATTTGT
22874998 TTAGGGTTTATGATTTTGGAGAAAATAAA
1 TTAGGGTTTATGATTTT--A-AAAATAAA
*
22875027 TTAAGGTTTATGAATTTTAAAAACTAAA
1 TTAGGGTTTATG-ATTTTAAAAA-TAAA
*
22875055 TTAGGGTTTATGGTTTTAAAAAATAAATTAAA
1 TTAGGGTTTATGATTTT----AA-AAA-TAAA
*
22875087 TTAGGGTTTATGTTTTTAAAAAATAAA
1 TTAGGGTTTATGATTTT-AAAAATAAA
*
22875114 TT-GCGGTTTAGGGATTTTTAAAAATAAA
1 TTAG-GGTTTA-TGA-TTTTAAAAATAAA
22875142 TT
1 TT
22875144 TGTGTTTAGG
Statistics
Matches: 100, Mismatches: 7, Indels: 21
0.78 0.05 0.16
Matches are distributed among these distances:
26 1 0.01
27 20 0.20
28 31 0.31
29 18 0.18
30 5 0.05
31 2 0.02
32 23 0.23
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.41
Consensus pattern (26 bp):
TTAGGGTTTATGATTTTAAAAATAAA
Found at i:22875092 original size:32 final size:32
Alignment explanation
Indices: 22875051--22875115 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
22875041 TTTTAAAAAC
22875051 TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
1 TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
*
22875083 TAAATTAGGGTTTATGTTTTTAAAAAATAAAT
1 TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
22875115 T
1 T
22875116 GCGGTTTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (32 bp):
TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
Found at i:22875095 original size:60 final size:60
Alignment explanation
Indices: 22875023--22875143 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
22875013 TTGGAGAAAA
* *
22875023 TAAATTAAGGTTTATGAATTTTAAAAACTAAATTAG-GGTTTATGG-TTTTAAAAAATAAAT
1 TAAATTAAGGTTTATG-ATTTTAAAAAATAAATT-GCGGTTTAGGGATTTTAAAAAATAAAT
* * *
22875083 TAAATTAGGGTTTATGTTTTTAAAAAATAAATTGCGGTTTAGGGATTTTTAAAAATAAAT
1 TAAATTAAGGTTTATGATTTTAAAAAATAAATTGCGGTTTAGGGATTTTAAAAAATAAAT
22875143 T
1 T
22875144 TGTGTTTAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 1 0.02
59 23 0.43
60 30 0.56
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (60 bp):
TAAATTAAGGTTTATGATTTTAAAAAATAAATTGCGGTTTAGGGATTTTAAAAAATAAAT
Found at i:22875159 original size:28 final size:29
Alignment explanation
Indices: 22875098--22875159 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
22875088 TAGGGTTTAT
22875098 GTTTTTAAAAAATAAATTGCGGTTTAGGG
1 GTTTTTAAAAAATAAATTGCGGTTTAGGG
* *
22875127 ATTTTT-AAAAATAAATTTG-TGTTTAGGG
1 GTTTTTAAAAAATAAA-TTGCGGTTTAGGG
22875155 GTTTT
1 GTTTT
22875160 AGGGTTTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (29 bp):
GTTTTTAAAAAATAAATTGCGGTTTAGGG
Found at i:22875164 original size:8 final size:8
Alignment explanation
Indices: 22875148--22875177 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
22875138 TAAATTTGTG
22875148 TTTAGGGGT
1 TTTA-GGGT
22875157 TTTAGGGT
1 TTTAGGGT
22875165 TTTAGGGT
1 TTTAGGGT
22875173 TTTAG
1 TTTAG
22875178 TAATAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (8 bp):
TTTAGGGT
Found at i:22875390 original size:126 final size:125
Alignment explanation
Indices: 22875247--22875671 Score: 598
Period size: 126 Copynumber: 3.4 Consensus size: 125
22875237 TTTTTGTTCA
* * * *
22875247 GTCAGCAAAAGTACTGAAAAAAGCTCCCAGTTGGACACTATTTTTCTACCATAGTTTCTAAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACTTAGACACTCTTTTTCTACAATAGTTTCT-AAAAA
22875312 ATAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
65 ATAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
* * * *
22875373 GTTAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACGCTCTTTTTCTACAATAGTTTTTGAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACTTAGACACTCTTTTTCTACAATAGTTTCT-AAAAA
* * * *
22875438 ATAATTTTGAGAAGATGATTCTGAAAAAACAGGGTAAAAAACGTTTCAAGCAAGATGCATT
65 ATAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
* * ** * * *
22875499 GTCAGCAAAAGTACTGAAAAAAGCTCTCACTTGGATGCTCTTTTTCTATAGTAGTATCTAAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACTTAGACACTCTTTTTCTACAATAGTTTCTAAAAAA
* * * * *
22875564 TGATTTAGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATCCTTCAAGCAGGATGCACT
66 TAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
* *
22875624 GTCAGCAAAAGTACTGAAAAAAGCTTCCACCTAGACACTCTTTTTCTA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACTTAGACACTCTTTTTCTA
22875672 TAGTACATCC
Statistics
Matches: 262, Mismatches: 37, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
125 99 0.38
126 163 0.62
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (125 bp):
GTCAGCAAAAGTACTGAAAAAAGCTCCCACTTAGACACTCTTTTTCTACAATAGTTTCTAAAAAA
TAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
Found at i:22875789 original size:25 final size:25
Alignment explanation
Indices: 22875753--22875815 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
22875743 GAGAAACTAG
22875753 AGAAGTTCAGAAGAATAAAAATTGA
1 AGAAGTTCAGAAGAATAAAAATTGA
* * *
22875778 AGAAGTTTAGAAGAATATAAATTTA
1 AGAAGTTCAGAAGAATAAAAATTGA
22875803 AGAAGTTCAGAAG
1 AGAAGTTCAGAAG
22875816 GTATAAGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.52, C:0.03, G:0.21, T:0.24
Consensus pattern (25 bp):
AGAAGTTCAGAAGAATAAAAATTGA
Found at i:22878984 original size:61 final size:60
Alignment explanation
Indices: 22878834--22879013 Score: 233
Period size: 62 Copynumber: 3.0 Consensus size: 60
22878824 TCTATTGCCT
* * * *
22878834 TATTCAAAAGAACTTTTATTTTATTAAGTAGGACAAAATATAAAAATAATTTATTATTAAAA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTT-GTA-CAAAA
* *
22878896 TATTCAAAATAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAA-A
*
22878957 TATTCAAAACAACTTTTATTTTATTAAAT--GA-AACAATA-AAAAATAGTTTGTACAAAA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAA-AATATAAAAATAATTTGTACAAAA
22879014 AAATTAAAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
57 1 0.01
58 19 0.18
59 6 0.06
60 3 0.03
61 30 0.28
62 49 0.45
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (60 bp):
TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAAA
Found at i:22881856 original size:12 final size:12
Alignment explanation
Indices: 22881839--22881871 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
22881829 CGGCCCGGCC
22881839 ATATTAATTTTT
1 ATATTAATTTTT
22881851 ATATT-ATTTTT
1 ATATTAATTTTT
22881862 ATA-TAATTTT
1 ATATTAATTTT
22881872 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:22882027 original size:30 final size:30
Alignment explanation
Indices: 22881993--22882055 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
22881983 ACTTAATAAG
*
22881993 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
22882023 CAAATGTCTTTAAAATAATAACAGAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
22882053 CAA
1 CAA
22882056 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:22882336 original size:170 final size:170
Alignment explanation
Indices: 22882054--22882395 Score: 666
Period size: 170 Copynumber: 2.0 Consensus size: 170
22882044 CAGAATTAAC
22882054 AATAAAATAAGTTTTATACAATATCCAAACAATAACAACAAATTAGTAACAACATAATAGTAAAA
1 AATAAAATAAGTTTTATACAATATCCAAACAATAACAACAAATTAGTAACAACATAATAGTAAAA
* *
22882119 TTATAGCAAAATAGGGAGAAAATAACAAGATAATAATATTAAAAAACAAAAAAAAGGTAACTTTG
66 TTATAGCAAAATAGGGAGAAAATAACAAGACAACAATATTAAAAAACAAAAAAAAGGTAACTTTG
22882184 TTTGTCATTTAGAGAATTCTGGCTGGGCTAAGCCCGCGCT
131 TTTGTCATTTAGAGAATTCTGGCTGGGCTAAGCCCGCGCT
22882224 AATAAAATAAGTTTTATACAATATCCAAACAATAACAACAAATTAGTAACAACATAATAGTAAAA
1 AATAAAATAAGTTTTATACAATATCCAAACAATAACAACAAATTAGTAACAACATAATAGTAAAA
22882289 TTATAGCAAAATAGGGAGAAAATAACAAGACAACAATATTAAAAAACAAAAAAAAGGTAACTTTG
66 TTATAGCAAAATAGGGAGAAAATAACAAGACAACAATATTAAAAAACAAAAAAAAGGTAACTTTG
22882354 TTTGTCATTTAGAGAATTCTGGCTGGGCTAAGCCCGCGCT
131 TTTGTCATTTAGAGAATTCTGGCTGGGCTAAGCCCGCGCT
22882394 AA
1 AA
22882396 AAATGTCTTA
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (170 bp):
AATAAAATAAGTTTTATACAATATCCAAACAATAACAACAAATTAGTAACAACATAATAGTAAAA
TTATAGCAAAATAGGGAGAAAATAACAAGACAACAATATTAAAAAACAAAAAAAAGGTAACTTTG
TTTGTCATTTAGAGAATTCTGGCTGGGCTAAGCCCGCGCT
Found at i:22885380 original size:16 final size:16
Alignment explanation
Indices: 22885341--22885385 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22885331 TTGAAATATT
*
22885341 ATAGAGTTGTAATGTA
1 ATAGAGTTGTAATGGA
*
22885357 AT-GAAGTTTTAATGGA
1 ATAG-AGTTGTAATGGA
22885373 ATAGAGTTGTAAT
1 ATAGAGTTGTAAT
22885386 TAGTAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (16 bp):
ATAGAGTTGTAATGGA
Found at i:22885600 original size:26 final size:26
Alignment explanation
Indices: 22885563--22885672 Score: 86
Period size: 26 Copynumber: 4.3 Consensus size: 26
22885553 TATATTGAAC
*
22885563 TTTAATAGTATTGTTAT-TAAATATAA
1 TTTAATAATATTGTTATATAAAT-TAA
* *
22885589 TTTAATAATATTTTTAATATAAATTAT
1 TTTAATAATATTGTT-ATATAAATTAA
* * *
22885616 TTTAA-AAGATTTTTTATATTAAAAT-A
1 TTTAATAATA-TTGTTATA-TAAATTAA
*
22885642 TTTAA-CATATTG-TATATAAATTAA
1 TTTAATAATATTGTTATATAAATTAA
22885666 TTTAATA
1 TTTAATA
22885673 TTTTAAATTA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
23 5 0.07
24 10 0.15
25 2 0.03
26 26 0.39
27 19 0.28
28 5 0.07
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAATAATATTGTTATATAAATTAA
Found at i:22885710 original size:34 final size:34
Alignment explanation
Indices: 22885670--22885734 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
22885660 AATTAATTTA
*
22885670 ATATTTTAAATTAAATTATAATAAAATATTTAAC
1 ATATTTTAAATTAAATTATAATAAAAGATTTAAC
* *
22885704 ATATTTTATATTAAATTATATTAAAAGATTT
1 ATATTTTAAATTAAATTATAATAAAAGATTT
22885735 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (34 bp):
ATATTTTAAATTAAATTATAATAAAAGATTTAAC
Found at i:22887659 original size:12 final size:12
Alignment explanation
Indices: 22887642--22887671 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
22887632 ATAGGCATAG
22887642 CCTTTGCGCTTA
1 CCTTTGCGCTTA
22887654 CCTTTGCGCTTA
1 CCTTTGCGCTTA
22887666 CACTTT
1 C-CTTT
22887672 AAGCTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.10, C:0.33, G:0.13, T:0.43
Consensus pattern (12 bp):
CCTTTGCGCTTA
Found at i:22893156 original size:53 final size:53
Alignment explanation
Indices: 22893096--22893201 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
22893086 TGTTGTGCAC
*
22893096 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATTAGAAAATCT
1 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
*
22893149 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAATATCT
1 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
22893202 TGGTTTAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (53 bp):
ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
Found at i:22894408 original size:22 final size:22
Alignment explanation
Indices: 22894378--22894424 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
22894368 CATGTTAGCG
22894378 AATAAATATAT-AAATATAAATA
1 AATAAATATATAAAATA-AAATA
*
22894400 AATATATATATAAAATAAAATA
1 AATAAATATATAAAATAAAATA
22894422 AAT
1 AAT
22894425 TGAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAATATATAAAATAAAATA
Found at i:22894421 original size:18 final size:18
Alignment explanation
Indices: 22894378--22894418 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22894368 CATGTTAGCG
22894378 AATAAATATATAAATATA
1 AATAAATATATAAATATA
*
22894396 AATAAATATATATATA-A
1 AATAAATATATAAATATA
22894413 AATAAA
1 AATAAA
22894419 ATAAATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAAATATA
Found at i:22897962 original size:13 final size:15
Alignment explanation
Indices: 22897928--22897964 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
22897918 TAATTATCAC
22897928 TTAATTAATATTATAG
1 TTAATT-ATATTATAG
22897944 TTAATTATATTA-A-
1 TTAATTATATTATAG
22897957 TTAATTAT
1 TTAATTAT
22897965 TACTTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 6 0.29
16 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTAATTATATTATAG
Found at i:22901274 original size:15 final size:15
Alignment explanation
Indices: 22901254--22901305 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
22901244 GTTACAAAAC
22901254 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
22901269 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
22901288 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
22901303 ATT
1 ATT
22901306 AATATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:22901291 original size:19 final size:20
Alignment explanation
Indices: 22901267--22901313 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
22901257 TATTATTAAT
*
22901267 ATATTTATAATTATAATA-A
1 ATATTTATAATTAAAATATA
*
22901286 ATATTTATTATTAAAATATTA
1 ATATTTATAATTAAAATA-TA
22901307 ATATTTA
1 ATATTTA
22901314 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTATAATTAAAATATA
Found at i:22901369 original size:16 final size:16
Alignment explanation
Indices: 22901338--22901374 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
22901328 ATGTGAATAA
22901338 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
22901354 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
22901370 TATTA
1 TATTA
22901375 AATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:22907362 original size:21 final size:21
Alignment explanation
Indices: 22907323--22907362 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22907313 ATGTTAGTAT
** *
22907323 TTTTTAATTATTGTGTTTTAA
1 TTTTTAATTAAAGTATTTTAA
22907344 TTTTTAATTAAAGTATTTT
1 TTTTTAATTAAAGTATTTT
22907363 TTGTGTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTTAATTAAAGTATTTTAA
Found at i:22910686 original size:12 final size:12
Alignment explanation
Indices: 22910669--22910698 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22910659 CGGTAAGGAT
22910669 ACGGGCTGGGAC
1 ACGGGCTGGGAC
22910681 ACGGGCTGGGAC
1 ACGGGCTGGGAC
*
22910693 ATGGGC
1 ACGGGC
22910699 GTTTGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.50, T:0.10
Consensus pattern (12 bp):
ACGGGCTGGGAC
Done.