Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 104 of 259
Found at i:33656040 original size:14 final size:14
Alignment explanation
Indices: 33655991--33656043 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
33655981 TCAAATCATA
*
33655991 AACCCTTAAAACTCC
1 AACCCTT-AAACCCC
*
33656006 AACCCCTAAACCCC
1 AACCCTTAAACCCC
33656020 AACCCTTAAACCCC
1 AACCCTTAAACCCC
*
33656034 AAGCCTTAAA
1 AACCCTTAAA
33656044 ACTAGCCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 28 0.82
15 6 0.18
ACGTcount: A:0.40, C:0.43, G:0.02, T:0.15
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:33656092 original size:14 final size:14
Alignment explanation
Indices: 33656053--33656135 Score: 78
Period size: 14 Copynumber: 5.8 Consensus size: 14
33656043 AACTAGCCTC
33656053 TAAACCCATAAACTA
1 TAAACCC-TAAACTA
* * * *
33656068 TAGATCGTAAATTA
1 TAAACCCTAAACTA
33656082 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
33656096 TAAACCATAAA-TCA
1 TAAACCCTAAACT-A
*
33656110 TAAACTCTTAAACTA
1 TAAAC-CCTAAACTA
33656125 TAAACCCTAAA
1 TAAACCCTAAA
33656136 ATCTAAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
13 1 0.02
14 37 0.69
15 15 0.28
16 1 0.02
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:33656095 original size:28 final size:28
Alignment explanation
Indices: 33656053--33656135 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
33656043 AACTAGCCTC
* * * *
33656053 TAAACCCATAAACTATAGATCGTAAATTA
1 TAAACCC-TAAACTATAAACCATAAATCA
33656082 TAAACCCTAAACTATAAACCATAAATCA
1 TAAACCCTAAACTATAAACCATAAATCA
* *
33656110 TAAACTCTTAAACTATAAACCCTAAA
1 TAAAC-CCTAAACTATAAACCATAAA
33656136 ATCTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.47
29 25 0.53
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAACTATAAACCATAAATCA
Found at i:33656142 original size:14 final size:14
Alignment explanation
Indices: 33656075--33656142 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
33656065 CTATAGATCG
*
33656075 TAAATTATAAACCC
1 TAAAATATAAACCC
* *
33656089 TAAACTATAAACCA
1 TAAAATATAAACCC
*
33656103 T-AAATCATAAACTCT
1 TAAAAT-ATAAAC-CC
*
33656118 TAAACTATAAACCC
1 TAAAATATAAACCC
*
33656132 TAAAATCTAAA
1 TAAAATATAAA
33656143 AAATAAATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
13 3 0.07
14 29 0.67
15 8 0.19
16 3 0.07
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAATATAAACCC
Found at i:33656609 original size:7 final size:7
Alignment explanation
Indices: 33656594--33656682 Score: 61
Period size: 7 Copynumber: 12.0 Consensus size: 7
33656584 AAATATTCAA
*
33656594 AAAAATT
1 AAAATTT
33656601 AAAATTT
1 AAAATTT
**
33656608 AAAAATAA
1 -AAAATTT
* *
33656616 AAAAATA
1 AAAATTT
33656623 AAAATTT
1 AAAATTT
33656630 AAAAATTT
1 -AAAATTT
33656638 AAAAATTT
1 -AAAATTT
33656646 AAAAATTT
1 -AAAATTT
*
33656654 AAAACTTA
1 AAAA-TTT
33656662 AAAATTT
1 AAAATTT
*
33656669 AATATTT
1 AAAATTT
*
33656676 AATATTT
1 AAAATTT
33656683 TAATCCATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
7 35 0.51
8 34 0.49
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:33656612 original size:8 final size:8
Alignment explanation
Indices: 33656601--33656670 Score: 92
Period size: 8 Copynumber: 9.1 Consensus size: 8
33656591 CAAAAAAATT
33656601 AAAATTTA
1 AAAATTTA
33656609 AAAA--TA
1 AAAATTTA
**
33656615 AAAAAATA
1 AAAATTTA
33656623 AAAATTTA
1 AAAATTTA
33656631 AAAATTTA
1 AAAATTTA
33656639 AAAATTTA
1 AAAATTTA
33656647 AAAATTT-
1 AAAATTTA
*
33656654 AAAACTTA
1 AAAATTTA
33656662 AAAATTTA
1 AAAATTTA
33656670 A
1 A
33656671 TATTTAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.11
7 6 0.11
8 43 0.78
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAATTTA
Found at i:33656620 original size:22 final size:22
Alignment explanation
Indices: 33656592--33656677 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
33656582 AAAAATATTC
33656592 AAAAAAATTAAAATTTAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
*
33656614 AAAAAAATAAAAATTTAAAAATT
1 AAAAAAATTAAAATTTAAAAA-T
* * *
33656637 TAAAAATTTAAAAATTTAAAACT
1 AAAAAAATT-AAAATTTAAAAAT
* * *
33656660 TAAAAATTTAATATTTAA
1 AAAAAAATTAAAATTTAA
33656678 TATTTTAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.50
23 17 0.30
24 11 0.20
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAATTAAAATTTAAAAAT
Found at i:33656677 original size:15 final size:15
Alignment explanation
Indices: 33656601--33656677 Score: 91
Period size: 15 Copynumber: 5.1 Consensus size: 15
33656591 CAAAAAAATT
* *
33656601 AAAATTTAAAAATAA
1 AAAATTTAAAATTTA
* *
33656616 AAAAATAAAAATTTA
1 AAAATTTAAAATTTA
33656631 AAAATTTAAAAATTTA
1 AAAATTT-AAAATTTA
*
33656647 AAAATTTAAAACTTA
1 AAAATTTAAAATTTA
*
33656662 AAAATTTAATATTTA
1 AAAATTTAAAATTTA
33656677 A
1 A
33656678 TATTTTAATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
15 37 0.71
16 15 0.29
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTTAAAATTTA
Found at i:33656800 original size:18 final size:17
Alignment explanation
Indices: 33656764--33656802 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
33656754 TTTGAAAGAA
**
33656764 AAAAATAAAAAAATGTT
1 AAAAATAAAAAAAAATT
33656781 AAAAATAAAAAAAAAATT
1 AAAAAT-AAAAAAAAATT
33656799 AAAA
1 AAAA
33656803 TTGAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAAAAATT
Found at i:33661087 original size:19 final size:21
Alignment explanation
Indices: 33661059--33661106 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
33661049 TTATTATTTA
33661059 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
33661079 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
33661099 TTTTAGTT
1 TTTTAGTT
33661107 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:33661298 original size:43 final size:43
Alignment explanation
Indices: 33661225--33661371 Score: 219
Period size: 43 Copynumber: 3.5 Consensus size: 43
33661215 TTTTTAAATT
* *
33661225 TCATTACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * *
33661268 TCATGACTTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
33661311 TCATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
33661354 TC---ACCTTTAGCGGCGTTT
1 TCATGACCTTTAGCGGCGTTT
33661372 TTTTAAATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 15 0.16
43 79 0.84
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:33661814 original size:52 final size:52
Alignment explanation
Indices: 33661673--33661823 Score: 180
Period size: 52 Copynumber: 2.9 Consensus size: 52
33661663 ATGGTACATA
* ** *
33661673 AATTTTTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATCAAATGCATT
1 AATTATTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATTGAATGCATG
* *
33661725 AA-CAGTTTTGTGATGAAATGCATATGCCAA-TTTTCATTGCATTGAATGCATG
1 AATTA-TTTTGTGATGAAATGTATATG-CAAGTTTTCATTGCATTGAATGCATG
** * *
33661777 AATTATTTTGTGATGAAATGTATATGTGAGTTGTCATTGTATTGAAT
1 AATTATTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATTGAAT
33661824 AAGTGAATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
51 1 0.01
52 78 0.94
53 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (52 bp):
AATTATTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATTGAATGCATG
Found at i:33664688 original size:23 final size:23
Alignment explanation
Indices: 33664658--33664821 Score: 204
Period size: 23 Copynumber: 7.1 Consensus size: 23
33664648 CATTGTAATA
* * **
33664658 TAGCCGAAGCTATCACTATAACG
1 TAGCCGAAGCTACCACTGTATTG
*
33664681 TAGCCGAAGATACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* * *
33664704 CAGCTGAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGTATTG
33664727 TAGCCGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
*
33664750 TAGCCCAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
33664773 TAGCCCAAGCTACCACTG-AGATG
1 TAGCCGAAGCTACCACTGTA-TTG
*
33664796 TAGCCAAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
33664819 TAG
1 TAG
33664822 TCTATAGATT
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
22 1 0.01
23 121 0.98
24 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGTATTG
Found at i:33669292 original size:46 final size:47
Alignment explanation
Indices: 33669147--33669415 Score: 225
Period size: 46 Copynumber: 5.7 Consensus size: 47
33669137 GGTTATTTGT
* * * * *
33669147 GAGCTAGTGTAAGACATGTCTGGAACAT-GAATCAGCCACATTATG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCA-GATGTA
* * * * *
33669193 GAGCCAGTGTAAGACTATGTCTGGGACATGGTATCGGCATTGAGACG-A
1 GAGCTAGTGTAAGAC-ATGTCTGGGACATGGCATCGGC-CTCAGATGTA
*
33669241 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCATGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCA-GATGTA
*
33669288 -AGCTAGTGTAAGACATGTTTGGGACAT-GCATCGG-CTACGAGATGT-
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCT-C-AGATGTA
* * **
33669333 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGAGATGTGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CTCAGATGT-A
*
33669381 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATC
33669416 AACTTGATGG
Statistics
Matches: 185, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 76 0.41
47 26 0.14
48 25 0.14
49 2 0.01
50 29 0.16
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCAGATGTA
Found at i:33671028 original size:28 final size:28
Alignment explanation
Indices: 33670962--33671143 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
33670952 ATATTAAGTC
* *
33670962 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33670989 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33671017 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
33671045 CGCACACCTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33671073 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33671101 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33671129 CGCTCACTTAGTGCT
1 CGCACACTTAGTGCT
33671144 GTACAATTTA
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 124 0.85
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:33677880 original size:11 final size:11
Alignment explanation
Indices: 33677844--33677899 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
33677834 CATGGTATGT
33677844 ATGATATGCAC
1 ATGATATGCAC
* *
33677855 ATGAAATG--T
1 ATGATATGCAC
33677864 ATGATATGCAC
1 ATGATATGCAC
*
33677875 ATGATATG--T
1 ATGATATGCAC
33677884 ATGATATGCAC
1 ATGATATGCAC
33677895 ATGAT
1 ATGAT
33677900 GTCTTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33677899 original size:20 final size:20
Alignment explanation
Indices: 33677833--33677899 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
33677823 ATTTTGATAA
*
33677833 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33677853 ACATGAAATGTATGATATGC
1 ACATGATATGTATGATATGC
33677873 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33677893 ACATGAT
1 ACATGAT
33677900 GTCTTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33677977 original size:25 final size:24
Alignment explanation
Indices: 33677949--33678069 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
33677939 GAGGAAGTGC
*
33677949 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33677973 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
33677998 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33678022 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33678046 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33678070 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
24 54 0.61
25 34 0.39
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33685888 original size:25 final size:25
Alignment explanation
Indices: 33685859--33685906 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
33685849 TTATAACATG
*
33685859 AAAATGACCGTT-TTGCCCCTAGGTA
1 AAAATGACCATTATT-CCCCTAGGTA
33685884 AAAATGACCATTATTCCCCTAGG
1 AAAATGACCATTATTCCCCTAGG
33685907 GTTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATTCCCCTAGGTA
Found at i:33686009 original size:20 final size:20
Alignment explanation
Indices: 33685943--33686009 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
33685933 ATTTTGATAA
* *
33685943 ACATGGTATGTATGCTATGC
1 ACATGATATGTATGATATGC
*
33685963 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
33685983 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33686003 ACATGAT
1 ACATGAT
33686010 GGCTTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33686086 original size:24 final size:24
Alignment explanation
Indices: 33686059--33686141 Score: 139
Period size: 24 Copynumber: 3.4 Consensus size: 24
33686049 GAGGAAGTGC
*
33686059 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33686083 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
33686108 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33686132 AAAAGAGGCT
1 AAAAG-GGCT
33686142 AGGCCTCTAG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
24 29 0.52
25 27 0.48
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33686087 original size:25 final size:25
Alignment explanation
Indices: 33686059--33686135 Score: 138
Period size: 25 Copynumber: 3.1 Consensus size: 25
33686049 GAGGAAGTGC
*
33686059 AAAAGGGCTTATGCCCTAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
33686084 AAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTA
33686108 AAAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
33686133 AAA
1 AAA
33686136 GAGGCTAGGC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 24 0.48
25 26 0.52
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATTA
Found at i:33690203 original size:40 final size:40
Alignment explanation
Indices: 33690012--33690196 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
33690002 TCGAATGATG
* * * *
33690012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
33690052 TTCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33690092 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33690131 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
33690172 T-CGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33690197 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33690218 original size:79 final size:79
Alignment explanation
Indices: 33690065--33690229 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
33690055 GGACTAAGAT
* * **
33690065 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
33690130 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
33690144 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
33690207 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33690223 CCGAAGG
1 CCGAAGG
33690230 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 48 0.66
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33694910 original size:21 final size:23
Alignment explanation
Indices: 33694865--33694907 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33694855 ATATGATATA
*
33694865 TAATCTTAGAAGATATGATTTTG
1 TAATATTAGAAGATATGATTTTG
*
33694888 TAATATTAGAGGAT-TGATTT
1 TAATATTAGAAGATATGATTT
33694908 GTAGATGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (23 bp):
TAATATTAGAAGATATGATTTTG
Found at i:33703050 original size:13 final size:13
Alignment explanation
Indices: 33703028--33703060 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
33703018 GTTTCAACTT
33703028 CATATA-TCAATA
1 CATATACTCAATA
33703040 CATATACTCAATA
1 CATATACTCAATA
33703053 CATATACT
1 CATATACT
33703061 TTTAGCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (13 bp):
CATATACTCAATA
Found at i:33704819 original size:44 final size:43
Alignment explanation
Indices: 33704736--33704846 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
33704726 GGATCCAATA
* * ** * *
33704736 TATGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCG-ACT
1 TATGATTTCGTGTAAGACCATGTCTAGGACATCGACATCGTA-T
*
33704779 TATGATTTACGTGTAAGACCATGTCTGGGACATCGACATCGTAT
1 TATGATTT-CGTGTAAGACCATGTCTAGGACATCGACATCGTAT
*
33704823 T-TGATTTCGTGTAAGACCCTGTCT
1 TATGATTTCGTGTAAGACCATGTCT
33704847 TGGATAGTGG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 16 0.28
43 13 0.22
44 28 0.48
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (43 bp):
TATGATTTCGTGTAAGACCATGTCTAGGACATCGACATCGTAT
Found at i:33704861 original size:42 final size:42
Alignment explanation
Indices: 33704741--33704871 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
33704731 CAATATATGT
33704741 TTTCGTGTAAGACCAC-GTCTAGGAT-GTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACC-CTGTCTAGGATAG-TGGCATCGTA-TT-TGA
* * * *
33704784 TTTACGTGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGA
1 TTT-CGTGTAAGACCCTGTCTAGGATAGT-GGCATCGTATTTGA
*
33704827 TTTCGTGTAAGACCCTGTCTTGGATAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCG-TATTTGA
33704870 TT
1 TT
33704872 ACATGTAGGA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
42 26 0.36
43 20 0.27
44 26 0.36
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCGTATTTGA
Found at i:33726997 original size:43 final size:43
Alignment explanation
Indices: 33726935--33727025 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 43
33726925 ATGTGATTTC
* **
33726935 GATATGTGTTTACGAGTAAGACCTTGTCTGGGACAG-TGGCATT
1 GATATGTGGTTACGAGTAAGACCACGTCTGGGAC-GTTGGCATT
33726978 GATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCATT
33727021 G-TATG
1 GATATG
33727026 ATTTATGTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 6 0.14
43 37 0.86
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (43 bp):
GATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCATT
Found at i:33731293 original size:40 final size:40
Alignment explanation
Indices: 33731248--33731594 Score: 543
Period size: 40 Copynumber: 8.6 Consensus size: 40
33731238 CAAGCTCAAT
* * * * *
33731248 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33731288 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
33731328 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
33731368 CGCCATCGGGTCTTTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTC--TTAGCCCGGATATATCAATTCGCACAAA
* *
33731410 TGCCTTCGGGTCTTATCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33731450 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
33731490 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33731530 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
33731570 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
33731595 CATTCAAATG
Statistics
Matches: 284, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 244 0.86
41 1 0.00
42 37 0.13
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:33738902 original size:40 final size:40
Alignment explanation
Indices: 33738857--33739201 Score: 548
Period size: 40 Copynumber: 8.6 Consensus size: 40
33738847 CAAGCTCAAT
* * * * *
33738857 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33738897 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
33738937 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
33738977 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33739017 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
33739057 TGCCTTCAGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33739097 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
33739137 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGGACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
33739177 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
33739202 CATTCAAATG
Statistics
Matches: 285, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 282 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:33744659 original size:27 final size:26
Alignment explanation
Indices: 33744629--33744681 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
33744619 CTCATATCTA
*
33744629 TAGGCTAGT-ATTACTGAAATGCCCTTG
1 TAGGCTA-TAATTACTG-AATACCCTTG
*
33744656 TAGGGTATAATTACTGAATACCCTTG
1 TAGGCTATAATTACTGAATACCCTTG
33744682 GTTTACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (26 bp):
TAGGCTATAATTACTGAATACCCTTG
Found at i:33744881 original size:81 final size:78
Alignment explanation
Indices: 33744664--33744939 Score: 243
Period size: 81 Copynumber: 3.4 Consensus size: 78
33744654 TGTAGGGTAT
* * * *
33744664 AATTACTGAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATTAGCAAAATCACCAAAAT
1 AATTACTAAATACCCTTGATTTGCAAAATTA-CAAAATACCCTCAATTA-CAAAATTACCAAAAT
**
33744729 ACCCCTGGTTTGTAA
64 ACCCCTAATTTGTAA
* * * *
33744744 AATTACCGAAATACCCATGATTTGTAAAATTACTAAAATACCCTCAATTCCTAAAATTACCAAAA
1 AATTA-CTAAATACCCTTGATTTGCAAAATTAC-AAAATACCCTCAATTAC-AAAATTACCAAAA
33744809 TACCCCTAATTTAG-AA
63 TACCCCTAATTT-GTAA
*
33744825 AATTATCTAAATACCCTTGATTTGGAAAATTACAGAAATACCC-CTAATTTACAAAATTA-CAGA
1 AATTA-CTAAATACCCTTGATTTGCAAAATTACA-AAATACCCTC-AA-TTACAAAATTACCA-A
* * * **
33744888 AATATCCTTGACTTTCAAA
61 AATACCCCT-AATTTGTAA
* * *
33744907 AATTACAGAAATACCATTGGTTTGCAAAATTAC
1 AATTAC-TAAATACCCTTGATTTGCAAAATTAC
33744940 CGAAAAACCC
Statistics
Matches: 162, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
80 11 0.07
81 114 0.70
82 37 0.23
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (78 bp):
AATTACTAAATACCCTTGATTTGCAAAATTACAAAATACCCTCAATTACAAAATTACCAAAATAC
CCCTAATTTGTAA
Found at i:33744891 original size:54 final size:53
Alignment explanation
Indices: 33744672--33744921 Score: 204
Period size: 54 Copynumber: 4.6 Consensus size: 53
33744662 ATAATTACTG
* *
33744672 AATACCCTTGGTTTAC-AAAATTACCA-AAATA-CCCTCAA-TTAGCAAAATCACCAA
1 AATACCCTTGATTT-CTAAAATTA-CAGAAATACCCCT-AATTTA-CAAAATTA-CAA
* * * * * * **
33744726 AATACCCCTGGTTTGTAAAATTACCGAAATACCCATGATTTGTAAAATTACTAA
1 AATACCCTTGATTTCTAAAATTACAGAAATACCCCTAATTTACAAAATTAC-AA
** * * *
33744780 AATACCCTCAATTCCTAAAATTACCA-AAATACCCCTAATTTAGAAAATTATCTA
1 AATACCCTTGATTTCTAAAATTA-CAGAAATACCCCTAATTTACAAAATTA-CAA
**
33744834 AATACCCTTGATTTGGAAAATTACAGAAATACCCCTAATTTACAAAATTACAGA
1 AATACCCTTGATTTCTAAAATTACAGAAATACCCCTAATTTACAAAATTACA-A
* *
33744888 AATATCCTTGACTTTCAAAAATTACAGAAATACC
1 AATACCCTTGA-TTTCTAAAATTACAGAAATACC
33744922 ATTGGTTTGC
Statistics
Matches: 156, Mismatches: 30, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
53 5 0.03
54 124 0.79
55 27 0.17
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (53 bp):
AATACCCTTGATTTCTAAAATTACAGAAATACCCCTAATTTACAAAATTACAA
Found at i:33744906 original size:27 final size:27
Alignment explanation
Indices: 33744664--33744951 Score: 180
Period size: 27 Copynumber: 10.7 Consensus size: 27
33744654 TGTAGGGTAT
* * *
33744664 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACAGAAATACCCTTGATTTGCAA
** *
33744690 AATTACCA-AAATACCCTCAATTAGCAA
1 AATTA-CAGAAATACCCTTGATTTGCAA
* * * *
33744717 AATCACCA-AAATACCCCTGGTTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGCAA
* * *
33744744 AATTACCGAAATACCCATGATTTGTAA
1 AATTACAGAAATACCCTTGATTTGCAA
* * *
33744771 AATTACTA-AAATACCC-TCAATTCCTAA
1 AATTAC-AGAAATACCCTTGATTTGC-AA
* *
33744798 AATTACCA-AAATACCCCTAATTTAG-AA
1 AATTA-CAGAAATACCCTTGATTT-GCAA
* *
33744825 AATTATC-TAAATACCCTTGATTTGGAA
1 AATTA-CAGAAATACCCTTGATTTGCAA
* * *
33744852 AATTACAGAAATACCCCTAATTTACAA
1 AATTACAGAAATACCCTTGATTTGCAA
*
33744879 AATTACAGAAATATCCTTGACTTT-CAAA
1 AATTACAGAAATACCCTTGA-TTTGC-AA
* *
33744907 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACAGAAATACCCTTGATTTGCAA
* *
33744934 AATTACCGAAAAACCCTT
1 AATTACAGAAATACCCTT
33744952 AGTTTGTAGA
Statistics
Matches: 206, Mismatches: 42, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
26 12 0.06
27 166 0.81
28 28 0.14
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTGCAA
Found at i:33745266 original size:41 final size:41
Alignment explanation
Indices: 33745221--33745298 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
33745211 GAAGAAATTG
* *
33745221 AGGATCGCATGGTTGCTTGACGACTGTGGATCCACCGATTA
1 AGGATCGCATGGTTACTTGACGACCGTGGATCCACCGATTA
33745262 AGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
1 AGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
33745299 GTGGCTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (41 bp):
AGGATCGCATGGTTACTTGACGACCGTGGATCCACCGATTA
Found at i:33745732 original size:22 final size:24
Alignment explanation
Indices: 33745707--33745757 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
33745697 GTTGCTACAA
*
33745707 TGTTTACAT-A-TATGTGTTGTCC
1 TGTTTACATGACTATGTGCTGTCC
33745729 TGTTT--ATGACTATGTGCTGTCC
1 TGTTTACATGACTATGTGCTGTCC
33745751 TGTTTAC
1 TGTTTAC
33745758 GGCGTTGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 1 0.04
22 21 0.88
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.49
Consensus pattern (24 bp):
TGTTTACATGACTATGTGCTGTCC
Found at i:33748442 original size:27 final size:26
Alignment explanation
Indices: 33748411--33748487 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 26
33748401 AATCTCATAT
*
33748411 CTATAGGCTAGTATTACTGAATTGCCC
1 CTATAGG-TAGTATTACTGAAATGCCC
33748438 CTATAGGGTA-TAATTACTGAAATGCCC
1 CTATA-GGTAGT-ATTACTGAAATGCCC
* *
33748465 CTGTATGGTAGAATTACTGAAAT
1 CTATA-GGTAGTATTACTGAAAT
33748488 ATCCTTGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.93
28 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (26 bp):
CTATAGGTAGTATTACTGAAATGCCC
Found at i:33748521 original size:26 final size:27
Alignment explanation
Indices: 33748476--33748534 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
33748466 TGTATGGTAG
* *
33748476 AATTACTGAAATATCCTTGGTTTAGAA
1 AATTACTGAAATAGCCTTGGTTTACAA
33748503 AATTACTG-AATAGCCTTGGTTTACAA
1 AATTACTGAAATAGCCTTGGTTTACAA
33748529 AATTAC
1 AATTAC
33748535 CAAAATACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (27 bp):
AATTACTGAAATAGCCTTGGTTTACAA
Found at i:33748751 original size:28 final size:27
Alignment explanation
Indices: 33748690--33748760 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
33748680 TTGATTTGGT
* *
33748690 AAATTACAGAAATACCCCTGATTTACA
1 AAATTACAGAAATACCCCTAATTTAAA
*
33748717 AAATTACAGAAATACCCTTAACTTTAAA
1 AAATTACAGAAATACCCCTAA-TTTAAA
*
33748745 AAATTACAAAAATACC
1 AAATTACAGAAATACC
33748761 ATTGGTTTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 19 0.49
28 20 0.51
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (27 bp):
AAATTACAGAAATACCCCTAATTTAAA
Found at i:33748792 original size:27 final size:27
Alignment explanation
Indices: 33748476--33748791 Score: 174
Period size: 27 Copynumber: 11.7 Consensus size: 27
33748466 TGTATGGTAG
* * *
33748476 AATTACTGAAATATCCTTGGTTTAG-AA
1 AATTACCGAAATACCCTTGATTT-GCAA
* * * *
33748503 AATTACTG-AATAGCCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
33748529 AATTACCAAAATACACTTGATTAGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
33748556 AATTACCAAAATACCCCTAGTTTATG--A
1 AATTACCGAAATA-CCCTTGATT-TGCAA
** * * **
33748583 AATTATTGAAATATCCTTAATTTGTGA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
33748610 AATTATCGAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGCAA
** *
33748637 AATTACTAAAATA-CCTCTGATTTGGAA
1 AATTACCGAAATACCCT-TGATTTGCAA
* * * **
33748664 ATTTAGCAAAATACCCTTGATTTGGTA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
33748691 AATTACAGAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * **
33748718 AATTACAGAAATACCCTTAACTTTAAAA
1 AATTACCGAAATACCCTTGA-TTTGCAA
** * * *
33748746 AATTACAAAAATACCATTGGTTTGCGA
1 AATTACCGAAATACCCTTGATTTGCAA
33748773 AATTACCGAAATACCCTTG
1 AATTACCGAAATACCCTTG
33748792 GCTTGTAGAT
Statistics
Matches: 225, Mismatches: 55, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.01
26 29 0.13
27 162 0.72
28 31 0.14
29 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGCAA
Found at i:33749119 original size:41 final size:41
Alignment explanation
Indices: 33749062--33749178 Score: 171
Period size: 41 Copynumber: 2.9 Consensus size: 41
33749052 AGAAATTGAG
**
33749062 GATCGAATGGTTGCTTGACGACCGTGGATCCAGTGATTAAA
1 GATCGAATGGTTGCTTGACGACCGTGGATCCACCGATTAAA
* * *
33749103 GATCGCATGGTTGCTTGACGACTGTGGATCCACCGATTAAG
1 GATCGAATGGTTGCTTGACGACCGTGGATCCACCGATTAAA
* *
33749144 GATCGTAGGGTTGCTTGACGACCGTGGATCCACCG
1 GATCGAATGGTTGCTTGACGACCGTGGATCCACCG
33749179 TGTCTTTGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (41 bp):
GATCGAATGGTTGCTTGACGACCGTGGATCCACCGATTAAA
Found at i:33749371 original size:22 final size:22
Alignment explanation
Indices: 33749319--33749383 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
33749309 GCCAACTATT
* *
33749319 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
33749341 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
33749363 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
33749384 ATGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:33757057 original size:43 final size:43
Alignment explanation
Indices: 33756982--33757065 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
33756972 TGTGATTCCA
* * * * *
33756982 ATATGTGTTTACGAGTAAGACCCCGTCTGGGACAG-TGGCATCG
1 ATATGTGCTTACAAGTAAGACCACATCCGGGAC-GTTGGCATCG
33757025 ATATGTGCTTACAAGTAAGACCACATCCGGGACGTTGGCAT
1 ATATGTGCTTACAAGTAAGACCACATCCGGGACGTTGGCAT
33757066 TGTACGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (43 bp):
ATATGTGCTTACAAGTAAGACCACATCCGGGACGTTGGCATCG
Found at i:33758442 original size:25 final size:24
Alignment explanation
Indices: 33758397--33758444 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
33758387 TGGTGCAATG
33758397 TATTAAATATTAATATGTGATTACT
1 TATTAAATATTAATA-GTGATTACT
33758422 TATTAAATTATATAATA-TGATTA
1 TATTAAA-TAT-TAATAGTGATTA
33758445 AATGGTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.62
26 3 0.14
27 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (24 bp):
TATTAAATATTAATAGTGATTACT
Found at i:33765704 original size:40 final size:40
Alignment explanation
Indices: 33765420--33765679 Score: 425
Period size: 40 Copynumber: 6.5 Consensus size: 40
33765410 TGGATGATAA
*
33765420 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTAGTT
* *
33765461 CCAGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
33765501 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
33765541 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
33765581 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
33765621 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
*
33765661 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33765680 TATTCGAGCG
Statistics
Matches: 208, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 180 0.87
41 23 0.11
42 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:33765704 original size:120 final size:119
Alignment explanation
Indices: 33765420--33765718 Score: 406
Period size: 120 Copynumber: 2.5 Consensus size: 119
33765410 TGGATGATAA
* * * *
33765420 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCAGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCA-TTCGAGCGAGTTACTAGTTCC-GGCTAAGTCCCGAAGGCATTT
* * *
33765485 TTGCGAGTTACTAGTTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
64 GTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTAGTT
* *
33765541 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTAGTTCC-GGCTAAGTCCCGAAGGCATTTG
33765606 TGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTA-TAT
65 TGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTAGT-T
* * * *
33765661 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTA-TATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTAGT-TCCGGCTAAGTCCCGAAGG
33765719 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
119 18 0.11
120 123 0.76
121 21 0.13
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTAGTTCCGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTAGTTCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTAGTT
Found at i:33773849 original size:40 final size:38
Alignment explanation
Indices: 33773794--33773920 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 38
33773784 TGGATGATAA
*
33773794 CCGGGCTAAGTCCGAAGGCATTTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCGAAGGCATTTTGCG--AGTTACTAGTT
33773834 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA--T
1 CCGGGCTAAGTCCGAAGGCATTT-TGCGAGTTACTAGTT
*
33773871 CCGGGCTAAGTCCCGAA-GCATTGTGCGAGTTACTAGTT
1 CCGGGCTAAGT-CCGAAGGCATTTTGCGAGTTACTAGTT
33773909 CCGGGCTAAGTC
1 CCGGGCTAAGTC
33773921 ACATTTTTTA
Statistics
Matches: 81, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
36 12 0.15
37 18 0.22
38 17 0.21
39 7 0.09
40 23 0.28
41 4 0.05
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (38 bp):
CCGGGCTAAGTCCGAAGGCATTTTGCGAGTTACTAGTT
Found at i:33785448 original size:33 final size:35
Alignment explanation
Indices: 33785398--33785468 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 35
33785388 ATTCTGTAGT
*
33785398 TAGGGTAATACTGAAACTGTA-AA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
33785431 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
33785466 TAG
1 TAG
33785469 CTAGGATACG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.19
33 12 0.38
34 2 0.06
35 12 0.38
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:33802509 original size:29 final size:28
Alignment explanation
Indices: 33802458--33802513 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
33802448 CCGAGCCTAG
*
33802458 GGGCAAAAGTGTAATTATGCAAAAGTTTA
1 GGGCAAAAGTGTAATTAT-CCAAAGTTTA
*
33802487 GGGCAAAAGTGTAATTTTCCAAAGTTT
1 GGGCAAAAGTGTAATTATCCAAAGTTT
33802514 GTATTAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (28 bp):
GGGCAAAAGTGTAATTATCCAAAGTTTA
Found at i:33802988 original size:46 final size:46
Alignment explanation
Indices: 33802938--33803110 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
33802928 TGGTTGAGCA
*
33802938 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33802984 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
33803029 CATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
33803077 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTA
33803111 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 55 0.52
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33803094 original size:93 final size:93
Alignment explanation
Indices: 33802935--33803105 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
33802925 GGATGGTTGA
* * * *
33802935 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
33803000 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
33803028 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
33803092 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
33803106 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33809571 original size:27 final size:27
Alignment explanation
Indices: 33809527--33809620 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 27
33809517 TACTGAAATG
** *
33809527 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
33809554 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
33809581 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
33809608 CCCTCGATTTACA
1 CCCTCGATTTACA
33809621 TAATGGACCT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:33811614 original size:27 final size:27
Alignment explanation
Indices: 33811584--33811675 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
33811574 TACTGAAATG
* *
33811584 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
33811611 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
33811638 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
33811665 CCCTCGATTTA
1 CCCTCGATTTA
33811676 CATAATGGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:33813685 original size:27 final size:27
Alignment explanation
Indices: 33813667--33813721 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
33813657 CTCAATTTGT
33813667 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
33813694 AGAATTTCCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
33813721 A
1 A
33813722 TAATGGACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:33817604 original size:19 final size:20
Alignment explanation
Indices: 33817580--33817617 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33817570 GGTACCACCA
33817580 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
33817599 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
33817618 ACCACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:33817913 original size:46 final size:45
Alignment explanation
Indices: 33817846--33818011 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
33817836 CGCCCCTAAG
*
33817846 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
33817892 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * * *
33817939 CGAACTCGGACTCAACTCAACGATTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
33817985 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
33818012 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 53 0.53
47 28 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:33817957 original size:93 final size:93
Alignment explanation
Indices: 33817847--33818017 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
33817837 GCCCCTAAGT
* *
33817847 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
33817912 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
** * *
33817940 GAACTCGGACTCAACTCAACGATTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
33818005 CGAGTTCAGATGC
66 CGAGTTCAGATGC
33818018 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:33822025 original size:19 final size:20
Alignment explanation
Indices: 33822001--33822038 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33821991 GGTACCACCA
33822001 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
33822020 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
33822039 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:33822383 original size:93 final size:93
Alignment explanation
Indices: 33822268--33822438 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
33822258 GCCCCTAAGT
*
33822268 GAACTCGGACTCAACTCAACGAGCTT-GGGC-TTTCGCATCCATAAATGAACTAGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTT-GCATCCATAAATGAACTAGGACTCAACTC
*
33822331 AATGAGTTCGGATGCCTAGTTACATCTCAC
64 AACGAGTTCGGATGCCTAGTTACATCTCAC
* *
33822361 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAATGAACTAGGACTCAACTCAA
33822426 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33822439 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 2 0.03
93 67 0.93
94 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAATGAACTAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33822426 original size:46 final size:46
Alignment explanation
Indices: 33822263--33822435 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
33822253 AACCCGCCCC
*
33822263 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGC-TTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTT-GCATCCA
* * * * *
33822309 TAAATGAACTAGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
33822357 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
33822402 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33822436 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.54
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:33826283 original size:48 final size:48
Alignment explanation
Indices: 33826193--33826285 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
33826183 GCACGAGATA
* ** * *
33826193 TATTGATTTGGCTTTGGACCATGATATTAGTACTTCGAGTGCGAGCTT
1 TATTGAGTTGGCTTCAGACCATGATATTAGCACTTCAAGTGCGAGCTT
*
33826241 TATTGAGTTGGCTTCAGACCATGATATTGGCACTT-AATGTGCGAG
1 TATTGAGTTGGCTTCAGACCATGATATTAGCACTTCAA-GTGCGAG
33826286 ACTCCTGAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.03
48 37 0.97
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37
Consensus pattern (48 bp):
TATTGAGTTGGCTTCAGACCATGATATTAGCACTTCAAGTGCGAGCTT
Found at i:33827851 original size:21 final size:21
Alignment explanation
Indices: 33827827--33827886 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
33827817 TCTCTAGTCA
*
33827827 TAAATCATAAACTATAAACCT
1 TAAATCCTAAACTATAAACCT
*
33827848 TAAACCCTAAA-TATTAAACCT
1 TAAATCCTAAACTA-TAAACCT
* *
33827869 TGAATCCTAAACCATAAA
1 TAAATCCTAAACTATAAA
33827887 ACCCTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAATCCTAAACTATAAACCT
Found at i:33828019 original size:21 final size:21
Alignment explanation
Indices: 33827981--33828041 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
33827971 CCTTAAATTA
* *
33827981 TAAAACTTAAAACTATAAACCC
1 TAAATCTT-AAACCATAAACCC
33828003 TAAATCTTAAACCATAAACCC
1 TAAATCTTAAACCATAAACCC
**
33828024 TAAATCCAAAACCATAAA
1 TAAATCTTAAACCATAAA
33828042 ACCTTAGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
21 28 0.80
22 7 0.20
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAATCTTAAACCATAAACCC
Found at i:33832469 original size:15 final size:13
Alignment explanation
Indices: 33832447--33832541 Score: 63
Period size: 14 Copynumber: 7.2 Consensus size: 13
33832437 TCAATCTTAT
33832447 TTTAATTAATATAA
1 TTTAATTAAT-TAA
* *
33832461 TTTGGATTAATTTA
1 TTT-AATTAATTAA
33832475 TTTAATT-ATT-A
1 TTTAATTAATTAA
33832486 TTTAATTAATATAA
1 TTTAATTAAT-TAA
* *
33832500 TTTGGATTAATTTA
1 TTT-AATTAATTAA
*
33832514 TTTAAAT-ATT-A
1 TTTAATTAATTAA
*
33832525 TTAAATTAATATAA
1 TTTAATTAAT-TAA
33832539 TTT
1 TTT
33832542 TTATAAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
11 14 0.22
12 10 0.16
13 7 0.11
14 20 0.32
15 12 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:33832472 original size:19 final size:18
Alignment explanation
Indices: 33832448--33832541 Score: 73
Period size: 19 Copynumber: 4.9 Consensus size: 18
33832438 CAATCTTATT
33832448 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTT-GA
* * *
33832467 TTAATTTATTTAATTATTA
1 TTAATTAATATAATT-TGA
33832486 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTT-GA
* *
33832506 TTAATTTATTTAAATATT-A
1 TTAATTAATAT-AAT-TTGA
33832525 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
33832542 TTATAAATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
18 2 0.03
19 30 0.51
20 25 0.42
21 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TTAATTAATATAATTTGA
Found at i:33832491 original size:39 final size:39
Alignment explanation
Indices: 33832447--33832561 Score: 176
Period size: 39 Copynumber: 2.9 Consensus size: 39
33832437 TCAATCTTAT
33832447 TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
*
33832486 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
* ** *
33832525 TTAAATTAATATAATTTTTATAAATATTATTTAATTA
1 TTTAATTAATATAATTTGGATTAAT-TTATTTAATTA
33832562 AAATAATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 59 0.86
40 10 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
Found at i:33832492 original size:20 final size:19
Alignment explanation
Indices: 33832466--33832561 Score: 77
Period size: 20 Copynumber: 4.9 Consensus size: 19
33832456 TATAATTTGG
33832466 ATTAATTTATTTAATTATT
1 ATTAATTTATTTAATTATT
* * *
33832485 ATTTAATTAATATAATT-TGG
1 A-TTAATTTATTTAATTAT-T
*
33832505 ATTAATTTATTTAAATATT
1 ATTAATTTATTTAATTATT
* * *
33832524 ATTAAATTAATATAATTTTT
1 ATT-AATTTATTTAATTATT
*
33832544 ATAAATATTATTTAATTA
1 ATTAAT-TTATTTAATTA
33832562 AAATAATTTT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
19 20 0.35
20 37 0.65
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTAATTTATTTAATTATT
Found at i:33832549 original size:29 final size:28
Alignment explanation
Indices: 33832507--33832573 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
33832497 TAATTTGGAT
*
33832507 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTT-TTTAAATATTATTAAATTAAAA
*
33832536 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTT-TAAATATTATTAAATTAAAA
33832565 TAATTTTTT
1 TAATTTTTT
33832574 TCCATGTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TAATTTTTTAAATATTATTAAATTAAAA
Found at i:33832563 original size:15 final size:15
Alignment explanation
Indices: 33832509--33832563 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
33832499 ATTTGGATTA
*
33832509 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
33832524 ATTAAATTAATATAATT
1 ATTTAATTAA-AT-ATT
33832541 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
33832553 ATTTAATTAAA
1 ATTTAATTAAA
33832564 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.16
14 4 0.12
15 13 0.41
16 4 0.12
17 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:33832859 original size:9 final size:9
Alignment explanation
Indices: 33832842--33833134 Score: 329
Period size: 9 Copynumber: 33.7 Consensus size: 9
33832832 TATATACTTG
33832842 AACTTACAT
1 AACTTACAT
*
33832851 AACTCACAT
1 AACTTACAT
33832860 AACTTACAT
1 AACTTACAT
*
33832869 AACTTATAT
1 AACTTACAT
33832878 AACTTACAT
1 AACTTACAT
33832887 AACTTACAT
1 AACTTACAT
*
33832896 AACTCACAT
1 AACTTACAT
33832905 AACTTACAT
1 AACTTACAT
*
33832914 AACTCACAT
1 AACTTACAT
33832923 AACTTACAT
1 AACTTACAT
*
33832932 AACTTATAT
1 AACTTACAT
33832941 AACTTACAT
1 AACTTACAT
33832950 AACTTACAT
1 AACTTACAT
*
33832959 AACTCACAT
1 AACTTACAT
33832968 AAC-T---T
1 AACTTACAT
33832973 -ACTTACAT
1 AACTTACAT
*
33832981 AACTCACAT
1 AACTTACAT
*
33832990 AACTCACAT
1 AACTTACAT
*
33832999 AACTCACAT
1 AACTTACAT
33833008 AACTTACAT
1 AACTTACAT
33833017 AACTT--AT
1 AACTTACAT
*
33833024 -ATTTACAT
1 AACTTACAT
33833032 AACTTACAT
1 AACTTACAT
*
33833041 AACTCACAT
1 AACTTACAT
* *
33833050 AACTCATAT
1 AACTTACAT
*
33833059 AACTTACAG
1 AACTTACAT
33833068 AACTTACAT
1 AACTTACAT
*
33833077 AATTTACAT
1 AACTTACAT
33833086 AACTTACAT
1 AACTTACAT
33833095 AA--TACAT
1 AACTTACAT
* *
33833102 AA-ATATAT
1 AACTTACAT
* *
33833110 ATCATATCAT
1 AACTTA-CAT
33833120 AACTTACAT
1 AACTTACAT
33833129 AACTTA
1 AACTTA
33833135 ATTAGAGTTA
Statistics
Matches: 244, Mismatches: 29, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 3 0.01
7 9 0.04
8 8 0.03
9 214 0.88
10 6 0.02
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:33832979 original size:22 final size:22
Alignment explanation
Indices: 33832951--33833014 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
33832941 AACTTACATA
33832951 ACTTACATAACTCACATAACTT
1 ACTTACATAACTCACATAACTT
33832973 ACTTACATAACTCACATAAC-T
1 ACTTACATAACTCACATAACTT
33832994 -C--ACATAACTCACATAACTT
1 ACTTACATAACTCACATAACTT
33833013 AC
1 AC
33833015 ATAACTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 16 0.40
19 1 0.03
20 2 0.05
21 1 0.03
22 20 0.50
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (22 bp):
ACTTACATAACTCACATAACTT
Found at i:33838676 original size:21 final size:21
Alignment explanation
Indices: 33838625--33838683 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
33838615 TTAGAGTTGA
**
33838625 GGCAGCAAAGAGGGAGGCAGG
1 GGCAGCAGCGAGGGAGGCAGG
*
33838646 GGCAGCAGCGAGGGAGGCAGT
1 GGCAGCAGCGAGGGAGGCAGG
*
33838667 GGCAGTAGCGAGGGAGG
1 GGCAGCAGCGAGGGAGG
33838684 TAGAGCAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.54, T:0.03
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGG
Found at i:33839073 original size:43 final size:42
Alignment explanation
Indices: 33839026--33839163 Score: 177
Period size: 43 Copynumber: 3.2 Consensus size: 42
33839016 AAAAAAGCGT
* * *
33839026 CGCTAAAAGTCATGGCTTTTAGCGGTGCTTTCCCAACAAACGC
1 CGCTAAAAGCCATGACTTTTAGCGGCGCTTTCCC-ACAAACGC
* * * *
33839069 CGCTAAAAGCCATGACTTTTAACGGCGCTTCCCCTACGAACAC
1 CGCTAAAAGCCATGACTTTTAGCGGCGCTTTCCC-ACAAACGC
*
33839112 CGCTAAAAGCCATGACTTTTAGCGGCACTTTTCCCACAAACGC
1 CGCTAAAAGCCATGACTTTTAGCGGCGC-TTTCCCACAAACGC
33839155 CGCTAAAAG
1 CGCTAAAAG
33839164 TCTTGATCTT
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 76 0.94
44 5 0.06
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (42 bp):
CGCTAAAAGCCATGACTTTTAGCGGCGCTTTCCCACAAACGC
Found at i:33843525 original size:46 final size:46
Alignment explanation
Indices: 33843428--33843598 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
33843418 GGTTATTGTG
* * *
33843428 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGATGAA
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATG-A
* *
33843476 AGCTAGTGTAAGA-CATGTTTGGGACATGTATCGGCCTCGAGATGTA
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATG-A
* *
33843522 AGCTAGTGTAAGA-CATG-CTAGGACATGCATCAG-CTACGAGATG-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
33843565 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATC
33843599 AGCATCCTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 12 0.11
44 6 0.06
45 27 0.25
46 37 0.34
47 14 0.13
48 13 0.12
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:33856138 original size:39 final size:40
Alignment explanation
Indices: 33856043--33856265 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
33856033 TTGAATGATG
*
33856043 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
33856081 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
33856122 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33856161 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
33856200 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
33856239 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33856266 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33856229 original size:79 final size:81
Alignment explanation
Indices: 33856043--33856265 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
33856033 TTGAATGATG
* * *
33856043 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
33856105 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
33856122 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
33856183 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
33856200 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
33856264 TG
66 TG
33856266 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:33856287 original size:79 final size:79
Alignment explanation
Indices: 33856043--33856298 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
33856033 TTGAATGATG
* * * *
33856043 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
33856104 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
33856122 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
33856186 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
33856200 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
33856263 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
33856280 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33856299 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:33864067 original size:39 final size:41
Alignment explanation
Indices: 33863972--33864155 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
33863962 TTGAATGATG
*
33863972 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
33864011 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
33864051 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
33864090 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
33864130 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33864156 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:33864107 original size:79 final size:81
Alignment explanation
Indices: 33863972--33864155 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
33863962 TTGAATGATG
33863972 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
33864035 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
33864050 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
33864111 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
33864130 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33864156 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:33864177 original size:79 final size:79
Alignment explanation
Indices: 33864024--33864188 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
33864014 GGACTAAGAT
* ** *
33864024 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
33864089 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
33864103 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
33864165 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
33864182 CCGAAGG
1 CCGAAGG
33864189 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:33866669 original size:49 final size:49
Alignment explanation
Indices: 33866597--33866784 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
33866587 TGAGGTCAAG
*
33866597 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
33866646 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAATTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG-G-TCGCA
* * *
33866697 TGTGAAGTACTAAGTGCAGGCTACTACGTGTACCATATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
33866746 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
33866785 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:33866769 original size:100 final size:100
Alignment explanation
Indices: 33866596--33866779 Score: 314
Period size: 100 Copynumber: 1.8 Consensus size: 100
33866586 GTGAGGTCAA
* *
33866596 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGAAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
33866661 GCAGGCTACTATGCGTACCTGAAAATTGTGATCAC
66 GCAAGCTACTATGCGTACCTGAAAATTGTGATCAC
* *
33866696 GTGTGAAGTACTAAGTGCAGGCTACTACGTGTACCATATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGAAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
33866761 GCAAGCTACTATGTGTACC
66 GCAAGCTACTATGCGTACC
33866780 AGATAGCTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTGAAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAAGCTACTATGCGTACCTGAAAATTGTGATCAC
Found at i:33869751 original size:39 final size:40
Alignment explanation
Indices: 33869693--33869791 Score: 182
Period size: 39 Copynumber: 2.5 Consensus size: 40
33869683 CTATCTCGGT
33869693 ATCGCACACTTAGTGCCTCAGATAGCCAAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAGATAGCCAAAGCTATTTTGA
33869733 ATC-CACACTTAGTGCCTCAGATAGCCAAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAGATAGCCAAAGCTATTTTGA
*
33869772 ATCGCACAGTTAGTGCCTCA
1 ATCGCACACTTAGTGCCTCA
33869792 TAGCATTGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 39 0.68
40 18 0.32
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAGATAGCCAAAGCTATTTTGA
Found at i:33872721 original size:24 final size:25
Alignment explanation
Indices: 33872687--33872735 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
33872677 TAAAAGCTTT
*
33872687 TTGTGAACTTCCTAAT-TATGGCTC
1 TTGTGAACTTCCTAATATATAGCTC
*
33872711 TTGTGAGCTTCCTAATATATAGCTC
1 TTGTGAACTTCCTAATATATAGCTC
33872736 GGATAAGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (25 bp):
TTGTGAACTTCCTAATATATAGCTC
Found at i:33878105 original size:27 final size:27
Alignment explanation
Indices: 33878075--33878251 Score: 178
Period size: 27 Copynumber: 6.5 Consensus size: 27
33878065 TATTGAGCCT
* *
33878075 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
* *
33878102 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
*
33878129 GCACACTTAGTGCTACATAGTCAGACTC
1 GCACACTTAGTGCTACATAATCA-ACTC
** ** *
33878157 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAATCAACTC
* **
33878184 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAATCAACTC
* *
33878211 GCACACTTAGTGCAACATAGTCGAA-TC
1 GCACACTTAGTGCTACATAATC-AACTC
33878238 GCACACTTAGTGCT
1 GCACACTTAGTGCT
33878252 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:33878213 original size:82 final size:81
Alignment explanation
Indices: 33878095--33878250 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
33878085 TGCTATATAA
* * *
33878095 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
33878160 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33878177 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
33878241 CACTTAGTGC
65 CACTTAGTGC
33878251 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33892937 original size:29 final size:28
Alignment explanation
Indices: 33892901--33892978 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
33892891 TCATGAGATT
33892901 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
33892931 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
33892958 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
33892979 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:33893200 original size:174 final size:174
Alignment explanation
Indices: 33892932--33893258 Score: 573
Period size: 174 Copynumber: 1.9 Consensus size: 174
33892922 AATTGTACAG
* *
33892932 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATTT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* * *
33892997 GTGCGAACCCAATATATATTTTTTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAAT
33893062 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGC
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGC
* * *
33893106 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGTGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
*
33893171 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAAT
33893236 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
33893259 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 144 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGC
Found at i:33900014 original size:40 final size:40
Alignment explanation
Indices: 33899970--33900060 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
33899960 CTCGTTGCAT
* * *
33899970 TTAGTGTGCGGTTCGACATAGCTTTGGCTATATATGGCAC
1 TTAGTGTGCGATTCGACATAGCTTCGGCTATATACGGCAC
* * *
33900010 TTAGTGTGCGATTTGAGATAGCTTCGGCTATGTACGGCAC
1 TTAGTGTGCGATTCGACATAGCTTCGGCTATATACGGCAC
33900050 TTAGTGTGCGA
1 TTAGTGTGCGA
33900061 GATATCAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (40 bp):
TTAGTGTGCGATTCGACATAGCTTCGGCTATATACGGCAC
Found at i:33900155 original size:28 final size:29
Alignment explanation
Indices: 33900045--33900158 Score: 164
Period size: 28 Copynumber: 4.1 Consensus size: 29
33900035 GGCTATGTAC
* *
33900045 GGCACTTAGTGTGC-GAGATATCAAGTGT
1 GGCACTTAGTGTGCTGAGATATCGAGTAT
* *
33900073 GGAACTTAGTGTGCT-AGATATCGAGTGT
1 GGCACTTAGTGTGCTGAGATATCGAGTAT
33900101 GGCACTTAGTGT-CTGAGATATCGAGTAT
1 GGCACTTAGTGTGCTGAGATATCGAGTAT
33900129 GGCACTTAGTGT-CTGAGATATCGAGTAT
1 GGCACTTAGTGTGCTGAGATATCGAGTAT
33900157 GG
1 GG
33900159 TGAAAGGTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
27 2 0.03
28 78 0.98
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.31
Consensus pattern (29 bp):
GGCACTTAGTGTGCTGAGATATCGAGTAT
Found at i:33902276 original size:28 final size:28
Alignment explanation
Indices: 33902210--33902337 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
33902200 CATGAGATTG
* * **
33902210 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
33902239 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33902267 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
33902296 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33902324 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
33902338 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33902299 original size:57 final size:57
Alignment explanation
Indices: 33902210--33902337 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
33902200 CATGAGATTG
*
33902210 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
33902267 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
33902324 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
33902338 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:33914780 original size:85 final size:85
Alignment explanation
Indices: 33914682--33914890 Score: 257
Period size: 85 Copynumber: 2.5 Consensus size: 85
33914672 GTTTGTGAAA
* *
33914682 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC-AAGCGCCGCTATAGAAGAT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-ACCTAAGCGCCGCTAAAGAACAT
* *
33914744 TA-CTTTTAGCGGCGTTT-TCTTCC
63 GATC-TTTAGCAGCGTTTAT-TTCC
* * *
33914767 TAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGTGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTACCTAAGCGCCGCTAAAGAACATGAT
33914832 CTTTAGCAGCGTTTATTTCC
66 CTTTAGCAGCGTTTATTTCC
* *
33914852 TTACCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
33914891 TTTCTGTAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
84 3 0.03
85 103 0.94
86 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTACCTAAGCGCCGCTAAAGAACATGAT
CTTTAGCAGCGTTTATTTCC
Found at i:33914795 original size:43 final size:42
Alignment explanation
Indices: 33914682--33914891 Score: 257
Period size: 42 Copynumber: 5.0 Consensus size: 42
33914672 GTTTGTGAAA
*
33914682 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* * *
33914725 -AAGCGCCGCTATAGAAGATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
*
33914767 TAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
33914809 TAAGTGCCGCTAAAGAACATGATCTTTAGCAGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* *
33914852 TTACCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
33914892 TTCTGTAAGC
Statistics
Matches: 148, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 76 0.51
43 70 0.47
44 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:33917852 original size:27 final size:27
Alignment explanation
Indices: 33917822--33917999 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
33917812 ATATCGAGTC
* * * *
33917822 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
33917849 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33917876 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33917904 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33917931 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33917958 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33917985 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33918000 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33917961 original size:82 final size:81
Alignment explanation
Indices: 33917843--33917998 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
33917833 TGCTATATAA
*
33917843 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33917908 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33917925 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33917989 CACTTAGTGC
65 CACTTAGTGC
33917999 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33925895 original size:27 final size:27
Alignment explanation
Indices: 33925865--33926042 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33925855 ATATCGAGTC
* * * *
33925865 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
33925892 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33925919 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
33925947 CGCACACTTCGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33925974 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33926001 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33926028 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33926043 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33926006 original size:82 final size:81
Alignment explanation
Indices: 33925886--33926041 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33925876 TGCTATATAA
*
33925886 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
*
33925951 CACTTCGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33925968 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33926032 CACTTAGTGC
65 CACTTAGTGC
33926042 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33929905 original size:20 final size:20
Alignment explanation
Indices: 33929868--33929905 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33929858 TGGTGGGGAG
*
33929868 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
33929888 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
33929906 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:33931853 original size:46 final size:46
Alignment explanation
Indices: 33931801--33932026 Score: 330
Period size: 46 Copynumber: 4.9 Consensus size: 46
33931791 AGTGTGCTCT
*
33931801 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33931847 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCA-GGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33931892 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
33931938 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
33931984 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGC
33932027 GTCATGTCAA
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 45 0.27
46 121 0.73
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:33931958 original size:91 final size:92
Alignment explanation
Indices: 33931801--33932026 Score: 330
Period size: 91 Copynumber: 2.5 Consensus size: 92
33931791 AGTGTGCTCT
* ***
33931801 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
33931866 ACCATGGTTGAAAGATACCA-GGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
33931892 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
33931957 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
33931984 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGC
33932027 GTCATGTCAA
Statistics
Matches: 122, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
91 81 0.66
92 41 0.34
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:33937279 original size:46 final size:46
Alignment explanation
Indices: 33937054--33937285 Score: 295
Period size: 46 Copynumber: 5.0 Consensus size: 46
33937044 GTGTGCTCTC
* ** * *
33937054 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
33937100 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
33937146 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATCGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
33937192 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
33937238 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
33937284 TG
1 TG
33937286 TCAAAGATAA
Statistics
Matches: 168, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:33946008 original size:29 final size:29
Alignment explanation
Indices: 33945948--33946036 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 29
33945938 ACATACCTGC
*
33945948 ATATGGCCCACTAGGCCC-AATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
33945976 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
* *
33946005 ATATGGCCCATCAGGCCCAATTCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
33946034 ATA
1 ATA
33946037 GTCATGCTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:33947054 original size:60 final size:60
Alignment explanation
Indices: 33946934--33947070 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
33946924 CAGTGTTAAC
* *
33946934 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* * *
33946995 TGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCTTATTACA-AGTC-GAGATATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCC-CATTACAGA-TCAGAG-TATAT
*
33947055 TGGGTCTTA-CCCATAT
1 TGGGCCTTAGCCCATAT
33947071 TAACATAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 4 0.06
60 49 0.74
61 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (60 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:33951651 original size:60 final size:59
Alignment explanation
Indices: 33951531--33951667 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
33951521 CAGTGTTAAC
* *
33951531 TGGGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAG-ATCAGAGTATAT
* * * *
33951592 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCTTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCC-CATTACAGA-TCAGAG-TATAT
* *
33951652 TGGGTCTTGCCCATAT
1 TGGGCCTAGCCCATAT
33951668 TAACATAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 50 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:33952331 original size:8 final size:8
Alignment explanation
Indices: 33952318--33952347 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
33952308 ACAAATGCTA
33952318 GCTTTTCG
1 GCTTTTCG
33952326 GCTTTTCG
1 GCTTTTCG
*
33952334 ACTTTTCG
1 GCTTTTCG
33952342 GCTTTT
1 GCTTTT
33952348 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.20, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:33953075 original size:28 final size:28
Alignment explanation
Indices: 33953024--33953077 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
33953014 AAGAGATGAG
*
33953024 AGAAGGAAAGAAAAGAATAGAAAATAGA
1 AGAAGGAAAGAAAAGAATACAAAATAGA
*
33953052 AGAAGGAAA-AAAATGAATCCAAAATA
1 AGAAGGAAAGAAAA-GAATACAAAATA
33953078 TACGACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.04, G:0.20, T:0.09
Consensus pattern (28 bp):
AGAAGGAAAGAAAAGAATACAAAATAGA
Found at i:33953973 original size:15 final size:15
Alignment explanation
Indices: 33953936--33953964 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33953926 TTTCCCTATC
33953936 TAATAATAATAATTA
1 TAATAATAATAATTA
33953951 TAATAATAATAATT
1 TAATAATAATAATT
33953965 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:33957550 original size:40 final size:40
Alignment explanation
Indices: 33957499--33957662 Score: 229
Period size: 40 Copynumber: 4.1 Consensus size: 40
33957489 AGTACAAATA
*
33957499 TGTGTGATTCGACATAGCTTCAGCTATATATGGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
* * * *
33957539 TGTGCGATTCGATATAGTTTCGGCTATAAATGGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
* *
33957579 TGTGCAATTCGACATAGCTTTAGCTATATATGGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
* * * *
33957619 TGTGCGATTTGAGATAGCTTCAGCTATGTATAGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
33957659 TGTG
1 TGTG
33957663 TGAGATATCA
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (40 bp):
TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
Found at i:33967791 original size:47 final size:47
Alignment explanation
Indices: 33967739--33967832 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
33967729 TTTTTTTCTG
*
33967739 GTTTTTTCACTCCATGATATTTACAACTGCTATGGGAAAAAAAACTA
1 GTTTTTTCACTCCATGATATTTACAACTACTATGGGAAAAAAAACTA
*
33967786 GTTTTTTCACTCCATGATATTTACACCTACTATGGGAAAAAAAACTA
1 GTTTTTTCACTCCATGATATTTACAACTACTATGGGAAAAAAAACTA
33967833 AGCACAACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (47 bp):
GTTTTTTCACTCCATGATATTTACAACTACTATGGGAAAAAAAACTA
Found at i:33969288 original size:16 final size:17
Alignment explanation
Indices: 33969232--33969288 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
33969222 AGGGAAATAT
33969232 TAAAATAATAAAAATT-A
1 TAAAATAAT-AAAATTAA
33969249 TAAAA-AATAAAATTAAGA
1 TAAAATAATAAAATT-A-A
*
33969267 TGAAATAAT-AAATTAA
1 TAAAATAATAAAATTAA
33969283 TAAAAT
1 TAAAAT
33969289 TAGCACACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 6 0.18
16 9 0.26
17 6 0.18
18 10 0.29
19 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
TAAAATAATAAAATTAA
Found at i:33970340 original size:31 final size:31
Alignment explanation
Indices: 33970302--33970380 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
33970292 TTTAACAGCT
33970302 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
33970333 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
33970364 ACTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
33970381 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:33970629 original size:24 final size:24
Alignment explanation
Indices: 33970589--33970670 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
33970579 CTGGAGGCCT
* *
33970589 AGCCTCTTTTAAT-AACTGGGGAAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
33970613 AGCCCTTTTGATAAACTGAGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* * *
33970637 AGCCCTTTTCGGTAAACTAGGGCAG
1 AGCCCTTTT-GATAAACTGGGGCAA
33970662 AGCCCTTTT
1 AGCCCTTTT
33970671 TAGCACTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 7 0.14
24 22 0.45
25 20 0.41
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:33971705 original size:27 final size:27
Alignment explanation
Indices: 33971577--33971805 Score: 153
Period size: 27 Copynumber: 8.4 Consensus size: 27
33971567 TACAAGGGTG
* *
33971577 TTTTGGTAAATCTACAAACCA-AGGGTA
1 TTTTGGTAATTTTACAAACCAGA-GGTA
* ** *
33971604 TTTTAGTAATTTTGTAAACCAAAGGTA
1 TTTTGGTAATTTTACAAACCAGAGGTA
* * *
33971631 TTTCT-ATAATTTTTAGAAAGTCA-AGGGTA
1 TTT-TGGTAA-TTTTACAAA-CCAGA-GGTA
** *
33971660 TTTCT-GTAATTTTGTAAATCAGAGGTA
1 TTT-TGGTAATTTTACAAACCAGAGGTA
**
33971687 TTTTGGTAATTTTACAAA-TTGAGGGTA
1 TTTTGGTAATTTTACAAACCAGA-GGTA
* * * *
33971714 TATCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACCAGAGGTA
* * *
33971741 TTTCGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAGAGGTA
* *
33971768 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAGAGGTA
33971795 TTTTGGTAATT
1 TTTTGGTAATT
33971806 CGATCATACA
Statistics
Matches: 166, Mismatches: 27, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
26 3 0.02
27 130 0.78
28 19 0.11
29 14 0.08
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAGAGGTA
Found at i:33971741 original size:54 final size:54
Alignment explanation
Indices: 33971683--33971838 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
33971673 GTAAATCAGA
* *
33971683 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATATCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATATCGGTAATTTCACAAACCAGG
* * * * *
33971737 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATATCGGTAATTTCACAAACCAGG
** * * *
33971791 GGTATTTTGGTAATTCGATCATAC-AGGGGTATTTCAGTAATTTCACAA
1 GGTATTTTGGTAATTTTA-CAAACTAGGGGTATATCGGTAATTTCACAA
33971839 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 80 0.93
55 6 0.07
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATATCGGTAATTTCACAAACCAGG
Found at i:33971822 original size:81 final size:81
Alignment explanation
Indices: 33971655--33971838 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
33971645 AGAAAGTCAA
* ** *
33971655 GGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGG
1 GGGTATTTCAGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATAGAGGGTATATCGG
33971720 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * * * *
33971736 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGAGGTATTTTGGTAATTTTACAAA-TAGAGGGTATATC
*
33971799 GGTAA-TTCGATCATA-CAG
64 GGTAATTTC-A-CAAACCAG
*
33971817 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
33971839 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
80 4 0.05
81 78 0.90
82 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATAGAGGGTATATCGG
TAATTTCACAAACCAG
Found at i:33971845 original size:27 final size:27
Alignment explanation
Indices: 33971683--33971845 Score: 143
Period size: 27 Copynumber: 6.0 Consensus size: 27
33971673 GTAAATCAGA
* * *
33971683 GGTATTTTGGTAATTTTACAAATTGA-G
1 GGTATTTCGGTAATTTCACAAA-CGAGG
* * *
33971710 GGTATATCGGTAATTTCACAAACCAGT
1 GGTATTTCGGTAATTTCACAAACGAGG
* *
33971737 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAAACGAGG
* * *
33971764 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAAACGAGG
* *
33971791 GGTATTTTGGTAA-TTCGATCATAC-AGG
1 GGTATTTCGGTAATTTC-A-CAAACGAGG
* *
33971818 GGTATTTCAGTAATTTCACAATCGAGG
1 GGTATTTCGGTAATTTCACAAACGAGG
33971845 G
1 G
33971846 TAAAATAGTA
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.05
27 101 0.89
28 7 0.06
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTTCACAAACGAGG
Found at i:33971871 original size:27 final size:27
Alignment explanation
Indices: 33971841--33972001 Score: 196
Period size: 27 Copynumber: 6.0 Consensus size: 27
33971831 TTTCACAATC
* * * *
33971841 GAGGGTAAAATAGTAATTTTTTAAACT
1 GAGGGTAAAACAGTAATTCTATAAATT
**
33971868 GAGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
33971895 GAGGGTAAAACGGTAATTTTATAAATT
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
33971922 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
33971949 GAGGGTAAAACAATAATTCTGTAAATT
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
33971976 AAGGGTAAAACAGTAATTTTATAAAT
1 GAGGGTAAAACAGTAATTCTATAAAT
33972002 CGATGGTACT
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.32
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTATAAATT
Found at i:33971911 original size:54 final size:54
Alignment explanation
Indices: 33971837--33972009 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
33971827 GTAATTTCAC
* * * *
33971837 AATCGAGGGTAAAATAGTAATTTTTTAAACTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATA
* *
33971891 AATTGAGGGTAAAACGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATA
* * * * * *
33971945 AATCGAGGGTAAAACAATAATTCTGTAAATTAAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATA
*
33971999 AATCGATGGTA
1 AATCGAGGGTA
33972010 CTTTGGTAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATA
Done.