Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 12 of 310
Found at i:3064955 original size:56 final size:56
Alignment explanation
Indices: 3064844--3064964 Score: 156
Period size: 56 Copynumber: 2.1 Consensus size: 56
3064834 TTTTTAGATC
*
3064844 ATTTTCATTTTCATTTTGGAAAAACCATATTCATTTCCAAATGATTTCATTTTTCT
1 ATTTTCATTTTCATTTTGGAAAAACCATATTCATTTCCAAATGATTTCATATTTCT
* * *
3064900 ATTTTTATTTTCATTTTGGAGAAACCATAATT-ATTTCTAAATGATTTC-TCATTTCT
1 ATTTTCATTTTCATTTTGGAAAAACCAT-ATTCATTTCCAAATGATTTCAT-ATTTCT
3064956 CCATTTTCA
1 --ATTTTCA
3064965 CCATTTCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.02
56 46 0.82
57 3 0.05
58 6 0.11
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (56 bp):
ATTTTCATTTTCATTTTGGAAAAACCATATTCATTTCCAAATGATTTCATATTTCT
Found at i:3070219 original size:15 final size:15
Alignment explanation
Indices: 3070196--3070243 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
3070186 TATCAAATTT
3070196 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
3070211 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
3070226 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
3070240 ATAT
1 ATAT
3070244 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:3070759 original size:23 final size:23
Alignment explanation
Indices: 3070731--3070788 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
3070721 TAATATTCCG
3070731 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
3070754 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
*
3070777 AGTGTGTTTGGG
1 GGTGTGTTTGGG
3070789 AGGAATCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.09, C:0.03, G:0.41, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:3070914 original size:18 final size:19
Alignment explanation
Indices: 3070893--3070933 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3070883 AATGAAATGA
3070893 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
3070911 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
3070930 GAAA
1 GAAA
3070934 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:3079865 original size:24 final size:22
Alignment explanation
Indices: 3079838--3079891 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
3079828 GTAAGAAGCA
3079838 ATATTATGTTT-AAGAATAAAATAT
1 ATATTAT-TTTAAAG-ATAAAAT-T
3079862 ATATGT-TTTTAAAGATAAAATT
1 ATAT-TATTTTAAAGATAAAATT
3079884 ATATTATT
1 ATATTATT
3079892 ATATTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
21 1 0.04
22 7 0.26
23 10 0.37
24 8 0.30
25 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
ATATTATTTTAAAGATAAAATT
Found at i:3079937 original size:58 final size:55
Alignment explanation
Indices: 3079867--3080006 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 55
3079857 AATATATATG
* * *
3079867 TTTTTAAAGATAAAATTATATTATTATATTTGAAAATTAAATTGATTGATCGGTC
1 TTTTTAAAGATAAAATTATATTATCATATTTGAAAAGTAAATTGATCGATCGGTC
* * *
3079922 AATTTTTAAAAGATAAAATGATATTATCATATTTGTAAAGTAAATTGATCGGTCGGTC
1 --TTTTT-AAAGATAAAATTATATTATCATATTTGAAAAGTAAATTGATCGATCGGTC
* *
3079980 -TTTTAAAGATAAAACTATGTTATCATA
1 TTTTTAAAGATAAAATTATATTATCATA
3080007 AATGAATGGG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
54 20 0.27
55 4 0.05
57 5 0.07
58 44 0.60
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (55 bp):
TTTTTAAAGATAAAATTATATTATCATATTTGAAAAGTAAATTGATCGATCGGTC
Found at i:3083228 original size:18 final size:18
Alignment explanation
Indices: 3083205--3083256 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
3083195 ATCACACAGT
3083205 TACGAACTCATCCAAATC
1 TACGAACTCATCCAAATC
3083223 TACGAACTCATCCAAATC
1 TACGAACTCATCCAAATC
**
3083241 TGTGAACTCATCCAAA
1 TACGAACTCATCCAAA
3083257 GTTGTGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (18 bp):
TACGAACTCATCCAAATC
Found at i:3083296 original size:17 final size:17
Alignment explanation
Indices: 3083253--3083297 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3083243 TGAACTCATC
* *
3083253 CAAAGTTGTGAGCTTAG
1 CAAAGTTGCGAGCTTAA
*
3083270 CAAAGATGCGAGCTTAA
1 CAAAGTTGCGAGCTTAA
*
3083287 CCAAGTTGCGA
1 CAAAGTTGCGA
3083298 TTGATGTGCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (17 bp):
CAAAGTTGCGAGCTTAA
Found at i:3087898 original size:17 final size:18
Alignment explanation
Indices: 3087876--3087909 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3087866 CCTTATTAAT
3087876 TTTTTTAA-TATTTTTTA
1 TTTTTTAATTATTTTTTA
3087893 TTTTTTAATTATTTTTT
1 TTTTTTAATTATTTTTT
3087910 GACGTGACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTAATTATTTTTTA
Found at i:3091499 original size:20 final size:21
Alignment explanation
Indices: 3091461--3091500 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3091451 AGCATTTTTC
**
3091461 TATTTTTAAATATTTATTTAA
1 TATTTTTAAATATAAATTTAA
3091482 TATTTTT-AATATAAATTTA
1 TATTTTTAAATATAAATTTA
3091501 TAGGACTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTTAAATATAAATTTAA
Found at i:3093660 original size:7 final size:7
Alignment explanation
Indices: 3093646--3093684 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
3093636 AAGTGAATGT
3093646 TAATTGG
1 TAATTGG
*
3093653 TGATTGG
1 TAATTGG
*
3093660 TGATTGG
1 TAATTGG
3093667 TAATTGG
1 TAATTGG
3093674 TAATTGG
1 TAATTGG
3093681 TAAT
1 TAAT
3093685 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (7 bp):
TAATTGG
Found at i:3093940 original size:42 final size:42
Alignment explanation
Indices: 3093892--3094069 Score: 137
Period size: 42 Copynumber: 4.3 Consensus size: 42
3093882 TTAGCTCTCA
* * * *
3093892 CGAGCTTCTGTTTAACTCATATGAGTTTCGGTTTAGGTCTTT
1 CGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAGCTCTTT
* * * *
3093934 CGAGCTTCTCTTCAACTCTTATGAGCTTCTATTCAGCT-TTT
1 CGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAGCTCTTT
* * * * * * * *
3093975 ATGAGCTTTTGTTTAACTCATTTGTGTTTTTGTTCAACTCTTA
1 -CGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAGCTCTTT
* * * *
3094018 CGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAG--CTTT
1 CGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAGCTCTTT
*
3094058 CGAGCTTATGTT
1 CGAGCTTCTGTT
3094070 AACGATGTAC
Statistics
Matches: 102, Mismatches: 32, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
40 14 0.14
41 3 0.03
42 83 0.81
43 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (42 bp):
CGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAGCTCTTT
Found at i:3093959 original size:21 final size:21
Alignment explanation
Indices: 3093893--3094050 Score: 104
Period size: 21 Copynumber: 7.5 Consensus size: 21
3093883 TAGCTCTCAC
* *
3093893 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTCAACTCTTAT
* * * **
3093914 GAGTTTCGGTTTAGGTCTT-T
1 GAGCTTCTGTTCAACTCTTAT
*
3093934 CGAGCTTCTCTTCAACTCTTAT
1 -GAGCTTCTGTTCAACTCTTAT
* * *
3093956 GAGCTTCTATTCAGCTTTTAT
1 GAGCTTCTGTTCAACTCTTAT
* *
3093977 GAGCTTTTGTTTAACTCATT-T
1 GAGCTTCTGTTCAACTC-TTAT
* * * *
3093998 GTGTTTTTGTTCAACTCTTAC
1 GAGCTTCTGTTCAACTCTTAT
*
3094019 GAGCTTCTGTTCAACCCTTAT
1 GAGCTTCTGTTCAACTCTTAT
* *
3094040 GGGTTTCTGTT
1 GAGCTTCTGTT
3094051 TAGCTTTCGA
Statistics
Matches: 103, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.03
21 97 0.94
22 3 0.03
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCTTAT
Found at i:3103819 original size:18 final size:19
Alignment explanation
Indices: 3103782--3103820 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3103772 ATTACAAAAT
*
3103782 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
3103801 AATTCCAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
3103819 AA
1 AA
3103821 ATATCCTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:3103821 original size:19 final size:19
Alignment explanation
Indices: 3103799--3103836 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3103789 AATAATTTTT
3103799 AAAAT-TCCAAATATTTATA
1 AAAATATCCAAAT-TTTATA
*
3103818 AAAATATCCTAATTTTATA
1 AAAATATCCAAATTTTATA
3103837 TTTCTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATATCCAAATTTTATA
Found at i:3104210 original size:24 final size:25
Alignment explanation
Indices: 3104183--3104231 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
3104173 GATGATAAAA
3104183 TAAAA-TTCGTCAATTCAA-TTAACT
1 TAAAATTTCGTC-ATTCAATTTAACT
*
3104207 TAAAATTTCTTCATTCAATTTAACT
1 TAAAATTTCGTCATTCAATTTAACT
3104232 CGATTTGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAAATTTCGTCATTCAATTTAACT
Found at i:3105131 original size:5 final size:5
Alignment explanation
Indices: 3105118--3105151 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
3105108 ACAATCATTT
* *
3105118 CTTTA CTTTC CTTTC CTTTT CTTTC CTTTC CTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
3105152 AGTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (5 bp):
CTTTC
Found at i:3105141 original size:15 final size:15
Alignment explanation
Indices: 3105118--3105152 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3105108 ACAATCATTT
3105118 CTTTACTTTCCTTTC
1 CTTTACTTTCCTTTC
*
3105133 CTTTTCTTTCCTTTC
1 CTTTACTTTCCTTTC
3105148 CTTTA
1 CTTTA
3105153 GTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
CTTTACTTTCCTTTC
Found at i:3113593 original size:16 final size:16
Alignment explanation
Indices: 3113572--3113604 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3113562 CCTTATCAAT
*
3113572 TTTCTCTCTTGGTGGC
1 TTTCTCTCTTGATGGC
3113588 TTTCTCTCTTGATGGC
1 TTTCTCTCTTGATGGC
3113604 T
1 T
3113605 ATGGAAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.24, G:0.21, T:0.52
Consensus pattern (16 bp):
TTTCTCTCTTGATGGC
Found at i:3114119 original size:30 final size:30
Alignment explanation
Indices: 3114052--3114119 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
3114042 CACCCTTAAA
* * *
3114052 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
3114082 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
3114111 AGTATTTAC
1 A-TATTTAC
3114120 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:3118643 original size:22 final size:22
Alignment explanation
Indices: 3118615--3118665 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
3118605 TATTTCTGTT
3118615 TCGAGACCTAAGAGTAATTGTC
1 TCGAGACCTAAGAGTAATTGTC
3118637 TCGAGACCTAAGAGTAATTGTC
1 TCGAGACCTAAGAGTAATTGTC
3118659 TCGAGAC
1 TCGAGAC
3118666 TAACTAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (22 bp):
TCGAGACCTAAGAGTAATTGTC
Found at i:3127390 original size:18 final size:18
Alignment explanation
Indices: 3127346--3127393 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
3127336 AACAAACCAT
*
3127346 TAACTTATT-TTTGGAAAA
1 TAAC-TATTATTTGAAAAA
*
3127364 TAATATATTATTTGAAAAA
1 TAA-CTATTATTTGAAAAA
3127383 TAACTATTATT
1 TAACTATTATT
3127394 GTAATGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (18 bp):
TAACTATTATTTGAAAAA
Found at i:3127393 original size:21 final size:19
Alignment explanation
Indices: 3127350--3127393 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3127340 AACCATTAAC
*
3127350 TTATTTTTGGAAAATAATA
1 TTATTTTTGAAAAATAATA
3127369 -TATTATTTGAAAAATAACTA
1 TTATT-TTTGAAAAATAA-TA
3127389 TTATT
1 TTATT
3127394 GTAATGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 2 0.10
21 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TTATTTTTGAAAAATAATA
Found at i:3128748 original size:44 final size:43
Alignment explanation
Indices: 3128635--3128749 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
3128625 CGCCATATGT
3128635 AACGCCGCTAATGACCAGGACTTTTAGCGGCACTTTTTTAAAA
1 AACGCCGCTAATGACCAGGACTTTTAGCGGCACTTTTTTAAAA
* *
3128678 AACGCCGCGAATGACCAGGACTTTTAGCGGCGCTTTTTTTAAAA
1 AACGCCGCTAATGACCAGGACTTTTAGCGGCAC-TTTTTTAAAA
* *
3128722 AACGCCGCTAAAGA-CAGGGACCTTTAGC
1 AACGCCGCTAATGACCA-GGACTTTTAGC
3128750 TAGCGGCGCT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 33 0.51
44 32 0.49
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAATGACCAGGACTTTTAGCGGCACTTTTTTAAAA
Found at i:3135828 original size:9 final size:8
Alignment explanation
Indices: 3135814--3135866 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 8
3135804 NNTGTAAGTT
3135814 GTTATGTA
1 GTTATGTA
3135822 CGTTATGTGA
1 -GTTATGT-A
3135832 GTTATGTAA
1 GTTATGT-A
*
3135841 ATTATGTAA
1 GTTATGT-A
3135850 GTTATGTGA
1 GTTATGT-A
3135859 GTTATGTA
1 GTTATGTA
3135867 AGTAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
8 1 0.03
9 37 0.95
10 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (8 bp):
GTTATGTA
Found at i:3135837 original size:18 final size:17
Alignment explanation
Indices: 3135814--3135869 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
3135804 NNTGTAAGTT
*
3135814 GTTATGTACGTTATGTGA
1 GTTATGTA-GTTATGTAA
*
3135832 GTTATGTAAATTATGTAA
1 GTTATGT-AGTTATGTAA
3135850 GTTATGTGAGTTATGTAA
1 GTTATGT-AGTTATGTAA
3135868 GT
1 GT
3135870 AATTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 32 0.97
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.45
Consensus pattern (17 bp):
GTTATGTAGTTATGTAA
Found at i:3135847 original size:27 final size:27
Alignment explanation
Indices: 3135815--3135867 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
3135805 NTGTAAGTTG
*
3135815 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
3135842 TTATGTAAGTTATGTGAGTTATGTAA
1 TTATGTAAGTTATGTGAGTTATGTAA
3135868 GTAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:3136293 original size:241 final size:241
Alignment explanation
Indices: 3135870--3136545 Score: 1352
Period size: 241 Copynumber: 2.8 Consensus size: 241
3135860 TTATGTAAGT
3135870 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
3135935 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
3136000 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
3136065 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
3136111 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
3136176 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
3136241 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
3136306 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
3136352 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
3136417 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
3136482 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
3136546 ATTAATTCAT
Statistics
Matches: 435, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 435 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:3136673 original size:23 final size:23
Alignment explanation
Indices: 3136647--3136696 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
3136637 GTTCAAGTTT
3136647 ATTTAAAGGGCTACAATTCATAC
1 ATTTAAAGGGCTACAATTCATAC
*
3136670 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTACAATTCATAC
3136693 ATTT
1 ATTT
3136697 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTACAATTCATAC
Found at i:3138626 original size:650 final size:650
Alignment explanation
Indices: 3137385--3138686 Score: 2586
Period size: 650 Copynumber: 2.0 Consensus size: 650
3137375 AAACCATACT
3137385 TACTATTACTTCATACCAAATCATATATCTAAGTAAAATGATTTTTTTCAAAATCATCATGATGA
1 TACTATTACTTCATACCAAATCATATATCTAAGTAAAATGATTTTTTTCAAAATCATCATGATGA
3137450 AACTATTATTTATGCGAATTTTGAACTAAAACGTACCTTAATAATTTCAACAAGCTGGTCTACTC
66 AACTATTATTTATGCGAATTTTGAACTAAAACGTACCTTAATAATTTCAACAAGCTGGTCTACTC
3137515 CACTCTCACCAGGAAACAGAGGCTGGAGTCAGAAAAATAGTATTTGTTAAGTAATTGAAAGTGAA
131 CACTCTCACCAGGAAACAGAGGCTGGAGTCAGAAAAATAGTATTTGTTAAGTAATTGAAAGTGAA
3137580 AATGCATATAAATAAGCAAAAAAAAGTATGCAATGAAACACGTGCTCGATAGTACCTAGAACTGA
196 AATGCATATAAATAAGCAAAAAAAAGTATGCAATGAAACACGTGCTCGATAGTACCTAGAACTGA
3137645 TGTAAGATATGTTTGGTTCCCCTTTCACCTGACAAAGTAGTTTTTCAACAACCTGGTCTACTCCA
261 TGTAAGATATGTTTGGTTCCCCTTTCACCTGACAAAGTAGTTTTTCAACAACCTGGTCTACTCCA
3137710 CTCTCACCAGCAAACAGAGGCTGGAGTAAAAAAAGTTGTATTTTTTAAGTAAGTTAAAGCAAAAA
326 CTCTCACCAGCAAACAGAGGCTGGAGTAAAAAAAGTTGTATTTTTTAAGTAAGTTAAAGCAAAAA
3137775 TACATAGAAATAAGTTAAGTAATTTAGCAACAAAACATGTACCTAAAACAGATGTTAATGGCTGT
391 TACATAGAAATAAGTTAAGTAATTTAGCAACAAAACATGTACCTAAAACAGATGTTAATGGCTGT
3137840 GGTGTATTTAGTTGCACCAAATATTAATTTAGGTGCTCGATAGTACCTACAAAAGATGTAAGATA
456 GGTGTATTTAGTTGCACCAAATATTAATTTAGGTGCTCGATAGTACCTACAAAAGATGTAAGATA
3137905 ATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAATGAATAGGAAACATAGGGAGATT
521 ATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAATGAATAGGAAACATAGGGAGATT
**
3137970 AAGAGGTCGGTTGGCCTATATTTCTCATGTACTACAATTAACTACATCACTAGCCATAGTGGGAA
586 AAGAGGTCGGCCGGCCTATATTTCTCATGTACTACAATTAACTACATCACTAGCCATAGTGGGAA
3138035 TACTATTACTTCATACCAAATCATATATCTAAGTAAAATGATTTTTTTCAAAATCATCATGATGA
1 TACTATTACTTCATACCAAATCATATATCTAAGTAAAATGATTTTTTTCAAAATCATCATGATGA
3138100 AACTATTATTTATGCGAATTTTGAACTAAAACGTACCTTAATAATTTCAACAAGCTGGTCTACTC
66 AACTATTATTTATGCGAATTTTGAACTAAAACGTACCTTAATAATTTCAACAAGCTGGTCTACTC
3138165 CACTCTCACCAGGAAACAGAGGCTGGAGTCAGAAAAATAGTATTTGTTAAGTAATTGAAAGTGAA
131 CACTCTCACCAGGAAACAGAGGCTGGAGTCAGAAAAATAGTATTTGTTAAGTAATTGAAAGTGAA
3138230 AATGCATATAAATAAGCAAAAAAAAGTATGCAATGAAACACGTGCTCGATAGTACCTAGAACTGA
196 AATGCATATAAATAAGCAAAAAAAAGTATGCAATGAAACACGTGCTCGATAGTACCTAGAACTGA
3138295 TGTAAGATATGTTTGGTTCCCCTTTCACCTGACAAAGTAGTTTTTCAACAACCTGGTCTACTCCA
261 TGTAAGATATGTTTGGTTCCCCTTTCACCTGACAAAGTAGTTTTTCAACAACCTGGTCTACTCCA
3138360 CTCTCACCAGCAAACAGAGGCTGGAGTAAAAAAAGTTGTATTTTTTAAGTAAGTTAAAGCAAAAA
326 CTCTCACCAGCAAACAGAGGCTGGAGTAAAAAAAGTTGTATTTTTTAAGTAAGTTAAAGCAAAAA
3138425 TACATAGAAATAAGTTAAGTAATTTAGCAACAAAACATGTACCTAAAACAGATGTTAATGGCTGT
391 TACATAGAAATAAGTTAAGTAATTTAGCAACAAAACATGTACCTAAAACAGATGTTAATGGCTGT
3138490 GGTGTATTTAGTTGCACCAAATATTAATTTAGGTGCTCGATAGTACCTACAAAAGATGTAAGATA
456 GGTGTATTTAGTTGCACCAAATATTAATTTAGGTGCTCGATAGTACCTACAAAAGATGTAAGATA
3138555 ATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAATGAATAGGAAACATAGGGAGATT
521 ATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAATGAATAGGAAACATAGGGAGATT
3138620 AAGAGGTCGGCCGGCCTATATTTCTCATGTACTACAATTAACTACATCACTAGCCATAGTGGGAA
586 AAGAGGTCGGCCGGCCTATATTTCTCATGTACTACAATTAACTACATCACTAGCCATAGTGGGAA
3138685 TA
1 TA
3138687 ACTAGTGATT
Statistics
Matches: 650, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
650 650 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (650 bp):
TACTATTACTTCATACCAAATCATATATCTAAGTAAAATGATTTTTTTCAAAATCATCATGATGA
AACTATTATTTATGCGAATTTTGAACTAAAACGTACCTTAATAATTTCAACAAGCTGGTCTACTC
CACTCTCACCAGGAAACAGAGGCTGGAGTCAGAAAAATAGTATTTGTTAAGTAATTGAAAGTGAA
AATGCATATAAATAAGCAAAAAAAAGTATGCAATGAAACACGTGCTCGATAGTACCTAGAACTGA
TGTAAGATATGTTTGGTTCCCCTTTCACCTGACAAAGTAGTTTTTCAACAACCTGGTCTACTCCA
CTCTCACCAGCAAACAGAGGCTGGAGTAAAAAAAGTTGTATTTTTTAAGTAAGTTAAAGCAAAAA
TACATAGAAATAAGTTAAGTAATTTAGCAACAAAACATGTACCTAAAACAGATGTTAATGGCTGT
GGTGTATTTAGTTGCACCAAATATTAATTTAGGTGCTCGATAGTACCTACAAAAGATGTAAGATA
ATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAATGAATAGGAAACATAGGGAGATT
AAGAGGTCGGCCGGCCTATATTTCTCATGTACTACAATTAACTACATCACTAGCCATAGTGGGAA
Found at i:3141219 original size:20 final size:22
Alignment explanation
Indices: 3141177--3141242 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 22
3141167 GTTTTTAATT
* *
3141177 CCAAAAT-T-AAACCCTAAAAC
1 CCAAAATCTCAAACTCTAAACC
3141197 CCAAAATC-CAAACTCT-AACC
1 CCAAAATCTCAAACTCTAAACC
*
3141217 CC-AAATCTCAAATTCTAAACC
1 CCAAAATCTCAAACTCTAAACC
3141238 CCAAA
1 CCAAA
3141243 CCTTAAGCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.13
20 19 0.50
21 12 0.32
22 2 0.05
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (22 bp):
CCAAAATCTCAAACTCTAAACC
Found at i:3141365 original size:7 final size:7
Alignment explanation
Indices: 3141353--3141426 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
3141343 TGTATACTCT
3141353 TAAACCC
1 TAAACCC
3141360 TAAACCC
1 TAAACCC
*
3141367 ATAAACAC
1 -TAAACCC
**
3141375 TAAA-AA
1 TAAACCC
*
3141381 T-AACCA
1 TAAACCC
*
3141387 TAAACTC
1 TAAACCC
3141394 TAAACCC
1 TAAACCC
*
3141401 TAAAGCC
1 TAAACCC
*
3141408 TAAAGCC
1 TAAACCC
3141415 TAACACCC
1 TAA-ACCC
3141423 TAAA
1 TAAA
3141427 ATGCTAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
5 2 0.04
6 4 0.07
7 37 0.67
8 12 0.22
ACGTcount: A:0.50, C:0.31, G:0.03, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:3141476 original size:13 final size:13
Alignment explanation
Indices: 3141458--3141482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3141448 TACTTACCAG
3141458 CTTAAACCCTAAC
1 CTTAAACCCTAAC
3141471 CTTAAACCCTAA
1 CTTAAACCCTAA
3141483 TAGCATAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (13 bp):
CTTAAACCCTAAC
Found at i:3141782 original size:14 final size:14
Alignment explanation
Indices: 3141763--3141810 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3141753 AAGATCTTAG
3141763 ACCCTAAACACTAA
1 ACCCTAAACACTAA
*
3141777 ACCCTAAACAATAA
1 ACCCTAAACACTAA
**
3141791 ACTTTAAAACACTAA
1 ACCCT-AAACACTAA
3141806 ACCCT
1 ACCCT
3141811 TATCCTCTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
ACCCTAAACACTAA
Found at i:3141993 original size:14 final size:14
Alignment explanation
Indices: 3141947--3142013 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
3141937 TATAAACATC
3141947 AAACCCTAAATCAT
1 AAACCCTAAATCAT
* *
3141961 AAAACATAAATCAT
1 AAACCCTAAATCAT
*
3141975 CAACCCTAAATCAT
1 AAACCCTAAATCAT
* *
3141989 AAACCTTAAACCCAT
1 AAACCCTAAA-TCAT
*
3142004 AACCCCTAAA
1 AAACCCTAAA
3142014 CCTATAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:3141998 original size:28 final size:28
Alignment explanation
Indices: 3141938--3141991 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
3141928 CTTCTAAATT
3141938 ATAAACATCAAACCCTAAATCATAAAAC
1 ATAAACATCAAACCCTAAATCATAAAAC
3141966 ATAAATCATC-AACCCTAAATCATAAA
1 ATAAA-CATCAAACCCTAAATCATAAA
3141992 CCTTAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (28 bp):
ATAAACATCAAACCCTAAATCATAAAAC
Found at i:3142007 original size:28 final size:28
Alignment explanation
Indices: 3141938--3142022 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
3141928 CTTCTAAATT
3141938 ATAAA-CATCAAACCCTAAATCATAAAAC
1 ATAAACCATC-AACCCTAAATCATAAAAC
* *
3141966 ATAAATCATCAACCCTAAATCATAAACC
1 ATAAACCATCAACCCTAAATCATAAAAC
* *
3141994 TTAAACCCAT-AACCCCTAAACCTATAAAA
1 ATAAA-CCATCAA-CCCTAAATC-ATAAAA
3142023 ATATTAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 28 0.58
29 15 0.31
30 5 0.10
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (28 bp):
ATAAACCATCAACCCTAAATCATAAAAC
Found at i:3143035 original size:113 final size:113
Alignment explanation
Indices: 3142797--3143077 Score: 291
Period size: 114 Copynumber: 2.5 Consensus size: 113
3142787 GGGAGACCTA
* * * * * * *
3142797 TAGCAGCGTTTTTTACAAAAATGCCGCTAAAGTGCAAGCTATTGCGGCGTTTTTAGGGCAGCCCG
1 TAGCGGCGTTTTTT-CAAAAACGCCGCTAAAGTTCGACCTATTGCGGCGTTTTTAGGGAACCCCG
* *
3142862 CTAATGTCATTGAAGCTCATAAAAAACGACGTCGTTTTGCTTAACATTT
65 CTAATGCCAATGAAGCTCATAAAAAACGACGTCGTTTTGCTTAACATTT
* * * *
3142911 TAGTGGTGTTTTTTCAAAAACGCCGCTAAAGTTTGATCTATTGCGGCGTTTTT-GGGAAAACCCC
1 TAGCGGCGTTTTTTCAAAAACGCCGCTAAAGTTCGACCTATTGCGGCGTTTTTAGGG--AACCCC
* * ** * *
3142975 GTTACTGCCAATGAAGCTCATGTAAAACGGCGTCGTTTTGCTTAACCTTT
64 GCTAATGCCAATGAAGCTCATAAAAAACGACGTCGTTTTGCTTAACATTT
* * *
3143025 T-GCGGCGTTTTGGT--AAAACGCCGCTAAAGGTCGACCTATAGCGGCGCTTTTTA
1 TAGCGGCGTTTT-TTCAAAAACGCCGCTAAAGTTCGACCTATTGCGGCG-TTTTTA
3143078 AAAAACGCCG
Statistics
Matches: 137, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
112 31 0.23
113 47 0.34
114 59 0.43
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (113 bp):
TAGCGGCGTTTTTTCAAAAACGCCGCTAAAGTTCGACCTATTGCGGCGTTTTTAGGGAACCCCGC
TAATGCCAATGAAGCTCATAAAAAACGACGTCGTTTTGCTTAACATTT
Found at i:3143142 original size:40 final size:40
Alignment explanation
Indices: 3143039--3143144 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
3143029 GCGTTTTGGT
* * *
3143039 AAAACGCCGCTAAAGGTCGACCTATAGCGGCGCTTTTTAA
1 AAAACGCCGCTAAAGCTCGATCTATTGCGGCGCTTTTTAA
*
3143079 AAAACGCCGCTAAAGCTCGATCTATTGCGTCG-TTTTTAAA
1 AAAACGCCGCTAAAGCTCGATCTATTGCGGCGCTTTTT-AA
* *
3143119 AAAACGCCGCTAAAACTCCATCTATT
1 AAAACGCCGCTAAAGCTCGATCTATT
3143145 CGATTTTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 5 0.08
40 54 0.92
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
AAAACGCCGCTAAAGCTCGATCTATTGCGGCGCTTTTTAA
Found at i:3143187 original size:12 final size:12
Alignment explanation
Indices: 3143170--3143195 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3143160 TTTTCGTTTC
3143170 AAACGCCGCTAA
1 AAACGCCGCTAA
3143182 AAACGCCGCTAA
1 AAACGCCGCTAA
3143194 AA
1 AA
3143196 GTCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:3146265 original size:139 final size:139
Alignment explanation
Indices: 3146069--3146343 Score: 383
Period size: 139 Copynumber: 2.0 Consensus size: 139
3146059 GTGACCTCGA
* *
3146069 GTTGCTTGTTCTCAAACGAGCAAATTATCACAGTAATTTATTGACAATGATCATATTAATAATTA
1 GTTGCTTGTTCTCAAACGAGCAAATTATCACAGTAATTTATTGACAATAAGCATATTAATAATTA
* *
3146134 AGAAGACACAATGGTGACAATGA-AGTAAAATAGGATTGTATTAAGCGAACAAATTTAACTCAAA
66 AGAAGACACAATGGTGACAATGAGA-TAAAATAGGACTATATTAAGCGAACAAATTTAACTCAAA
3146198 TGTATCACGG
130 TGTATCACGG
* * * * * *
3146208 GTTGCTTGTTCTCGAACGAG-AAATTTATCATAGTTATTTGTTGACAGTAAGCATATTAATCATT
1 GTTGCTTGTTCTCAAACGAGCAAA-TTATCACAGTAATTTATTGACAATAAGCATATTAATAATT
* * * * *
3146272 AAGAAGACATAATGGTGACGATGAGATAAAATAGGACTATATTGAGTGAACGAATTTAACTCAAA
65 AAGAAGACACAATGGTGACAATGAGATAAAATAGGACTATATTAAGCGAACAAATTTAACTCAAA
3146337 TGTATCA
130 TGTATCA
3146344 AGGATATCAT
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 3 0.03
139 115 0.97
140 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (139 bp):
GTTGCTTGTTCTCAAACGAGCAAATTATCACAGTAATTTATTGACAATAAGCATATTAATAATTA
AGAAGACACAATGGTGACAATGAGATAAAATAGGACTATATTAAGCGAACAAATTTAACTCAAAT
GTATCACGG
Found at i:3147235 original size:25 final size:25
Alignment explanation
Indices: 3147205--3147274 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
3147195 AAAAGTTTTA
3147205 ATATTAAATTTAATTTAATAGT-ATT
1 ATATTAAATTTAATTTAAT-GTGATT
*
3147230 TTATT-AATTTAATATTAATGTGATT
1 ATATTAAATTTAAT-TTAATGTGATT
*
3147255 ATATTAATTTTAAATTTAAT
1 ATATTAAATTT-AATTTAAT
3147275 TTAATATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.26
25 16 0.42
26 9 0.24
27 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATATTAAATTTAATTTAATGTGATT
Found at i:3147323 original size:61 final size:58
Alignment explanation
Indices: 3147201--3147373 Score: 165
Period size: 61 Copynumber: 3.0 Consensus size: 58
3147191 TTTTAAAAGT
* * * * * * *
3147201 TTTAATATTAAATTTAATTTAATA-GTATTTTATTAA-T-TTAATATTAATGTGATTATA
1 TTTAATATTAAAATTAATCTAATATTTATCTTAATAAGTATT-ATATTAAT-TGAATAGA
* * * *
3147258 -TTAATTTTAAATTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTGAATAGA
1 TTTAATATTAAAATTAATCTAATATTTATC-T-TA-ATAAGTATTATATTAATTGAATAGA
*
3147318 TTTAATATTAAAATTAATCTAATATTTATCTTAATAAGTATTATATTAATTTAATA
1 TTTAATATTAAAATTAATCTAATATTTATCTTAATAAGTATTATATTAATTGAATA
3147374 TTAAGTGATT
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
56 22 0.23
57 3 0.03
58 22 0.23
59 4 0.04
60 10 0.10
61 34 0.35
62 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (58 bp):
TTTAATATTAAAATTAATCTAATATTTATCTTAATAAGTATTATATTAATTGAATAGA
Found at i:3150728 original size:26 final size:26
Alignment explanation
Indices: 3150697--3150778 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
3150687 TGAAATGCCC
3150697 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
3150723 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
3150749 ATCATGGAACATTTAACTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
3150775 ATCA
1 ATCA
3150779 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:3154361 original size:20 final size:20
Alignment explanation
Indices: 3154336--3154378 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
3154326 TCCATAAGGT
3154336 AAATGTTGTTTTCTCCATCA
1 AAATGTTGTTTTCTCCATCA
3154356 AAATGTTGTTTTCTCCATCA
1 AAATGTTGTTTTCTCCATCA
3154376 AAA
1 AAA
3154379 CCTCACGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (20 bp):
AAATGTTGTTTTCTCCATCA
Found at i:3157676 original size:22 final size:22
Alignment explanation
Indices: 3157635--3157678 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3157625 TAATGAATTT
*
3157635 AATTATTATTGGATAAATATAA
1 AATTATTATTGAATAAATATAA
* *
3157657 AATTATTATTTAATATATATAA
1 AATTATTATTGAATAAATATAA
3157679 TTAATATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (22 bp):
AATTATTATTGAATAAATATAA
Found at i:3166654 original size:19 final size:20
Alignment explanation
Indices: 3166613--3166661 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3166603 TAGGTTTGAA
*
3166613 GTACTGATACTTTCCTTTAG
1 GTACCGATACTTTCCTTTAG
*
3166633 GTACCGATACTTT-CTTTTG
1 GTACCGATACTTTCCTTTAG
*
3166652 GTATCGATAC
1 GTACCGATAC
3166662 CATTTTAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (20 bp):
GTACCGATACTTTCCTTTAG
Found at i:3167148 original size:17 final size:17
Alignment explanation
Indices: 3167126--3167163 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3167116 CAACCAAACT
3167126 AAGATTAAGCATTAATC
1 AAGATTAAGCATTAATC
3167143 AAGATTAAGCATTAATC
1 AAGATTAAGCATTAATC
3167160 AAGA
1 AAGA
3167164 CTCAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (17 bp):
AAGATTAAGCATTAATC
Found at i:3168227 original size:41 final size:41
Alignment explanation
Indices: 3168110--3168241 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 41
3168100 GTTTGCAATA
* * *
3168110 AAACGCTGCAAAAAACTGAGCAAGAGCGGCGTTTTTGATCC
1 AAACGCTGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* *
3168151 AAACGC--CTTAAAAACTGAGTAATAGCAGCGTTTTTGGTCC
1 AAACGCTGC-TAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * **
3168191 AAACACTGCTAAAAACTGAACAATAGCGGTGCTTTTGG-AA
1 AAACGCTGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
3168231 AAACGCTGCTA
1 AAACGCTGCTA
3168242 TAGGTCGAGG
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 42 0.57
41 30 0.41
42 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (41 bp):
AAACGCTGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:3168326 original size:43 final size:41
Alignment explanation
Indices: 3168214--3168363 Score: 212
Period size: 40 Copynumber: 3.6 Consensus size: 41
3168204 AACTGAACAA
* *
3168214 TAGCGGTGCTTTTGGAAAAACGCTGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
* *
3168255 TAGCGGCG-ATTTGGAAAAACGCCGCTATAGGTTGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
* * *
3168295 TAGCGGCGCTTTTGGAAAAAAACGCCGCTATAGATCGTGATTT
1 TAGCGGCGCTTTTGG--AAAAACGCCGCTATAGGTCGAGGTTT
3168338 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
3168364 AAAAAAATAA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
40 37 0.38
41 23 0.24
43 37 0.38
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
Found at i:3169072 original size:14 final size:14
Alignment explanation
Indices: 3169062--3169100 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
3169052 AATGTTTATT
3169062 GTTTTTGGTTTAGA
1 GTTTTTGGTTTAGA
*
3169076 GTTTATGGTTTAGA
1 GTTTTTGGTTTAGA
*
3169090 GTTTGTGGTTT
1 GTTTTTGGTTT
3169101 TTTGTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (14 bp):
GTTTTTGGTTTAGA
Found at i:3169286 original size:20 final size:20
Alignment explanation
Indices: 3169261--3169318 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
3169251 CCCTTGTAAT
*
3169261 ATATATATTTAGGGTTTAGG
1 ATATATGTTTAGGGTTTAGG
**
3169281 ATATATGTTTATAGTTTAGG
1 ATATATGTTTAGGGTTTAGG
* *
3169301 ATTTAGGTTTAGGGTTTA
1 ATATATGTTTAGGGTTTA
3169319 ATGTTGGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (20 bp):
ATATATGTTTAGGGTTTAGG
Found at i:3169546 original size:17 final size:18
Alignment explanation
Indices: 3169524--3169557 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3169514 TATTTGTTTT
3169524 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
3169541 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
3169558 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:3174711 original size:22 final size:23
Alignment explanation
Indices: 3174669--3174711 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3174659 TTTTAAAAAT
*
3174669 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
3174692 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
3174712 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:3176041 original size:19 final size:19
Alignment explanation
Indices: 3176001--3176041 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3175991 AATTAACTTA
*
3176001 TAATTAATCATAATTAGTT
1 TAATTAATCATAATTAGAT
3176020 TAATTAATCAATAATTA-AT
1 TAATTAATC-ATAATTAGAT
3176039 TAA
1 TAA
3176042 CATTAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTAATCATAATTAGAT
Found at i:3176952 original size:30 final size:29
Alignment explanation
Indices: 3176916--3176975 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
3176906 TAGGTTTCAG
*
3176916 GAGCCACATGGGCTGGACACACGACTATGT
1 GAGCCACATGGGCTGG-CACACGACCATGT
*
3176946 GAGCCACATGGGCTGGCATACGACCATGT
1 GAGCCACATGGGCTGGCACACGACCATGT
3176975 G
1 G
3176976 TCAGACCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.25, C:0.27, G:0.32, T:0.17
Consensus pattern (29 bp):
GAGCCACATGGGCTGGCACACGACCATGT
Found at i:3184563 original size:14 final size:14
Alignment explanation
Indices: 3184538--3184580 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
3184528 TAAAAAATGT
3184538 TAAAAAATATAAAAA
1 TAAAAAA-ATAAAAA
*
3184553 TGAAAAAATAAAAA
1 TAAAAAAATAAAAA
*
3184567 TAAAAAAACAAAAA
1 TAAAAAAATAAAAA
3184581 AAACTATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:3184580 original size:22 final size:22
Alignment explanation
Indices: 3184540--3184582 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3184530 AAAAATGTTA
* **
3184540 AAAAATATAAAAATGAAAAAAT
1 AAAAATAAAAAAACAAAAAAAT
3184562 AAAAATAAAAAAACAAAAAAA
1 AAAAATAAAAAAACAAAAAAA
3184583 ACTATAACGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAAAACAAAAAAAT
Found at i:3185079 original size:6 final size:6
Alignment explanation
Indices: 3185068--3185096 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3185058 TTCATGTCAT
3185068 TTTTTG TTTTTG TTTTT- TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
3185097 GATTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:3185095 original size:11 final size:12
Alignment explanation
Indices: 3185068--3185096 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
3185058 TTCATGTCAT
3185068 TTTTTGTTTTTG
1 TTTTTGTTTTTG
3185080 TTTTT-TTTTTG
1 TTTTTGTTTTTG
3185091 TTTTTG
1 TTTTTG
3185097 GATTATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTGTTTTTG
Found at i:3192958 original size:15 final size:15
Alignment explanation
Indices: 3192938--3192968 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3192928 TATGTTGTGT
3192938 TTGGTTTGGTTTTGG
1 TTGGTTTGGTTTTGG
*
3192953 TTGGTTTGTTTTTGG
1 TTGGTTTGGTTTTGG
3192968 T
1 T
3192969 CCTTTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (15 bp):
TTGGTTTGGTTTTGG
Found at i:3193489 original size:30 final size:29
Alignment explanation
Indices: 3193431--3193489 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
3193421 TAAAAATTCA
* *
3193431 AAAAAAGTTAAAAATCATTAAAATTATTT
1 AAAAAAGTTAAAAATCATAAAAAATATTT
* *
3193460 AAAAAAGTATAATAATTATAAAAAATATTT
1 AAAAAAGT-TAAAAATCATAAAAAATATTT
3193490 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAAAGTTAAAAATCATAAAAAATATTT
Found at i:3194769 original size:12 final size:12
Alignment explanation
Indices: 3194747--3194782 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3194737 AACAAAAAAT
3194747 TGAAGTAAATAAG
1 TGAA-TAAATAAG
3194760 TGAATAAATAAG
1 TGAATAAATAAG
*
3194772 TGAGTAAATAA
1 TGAATAAATAA
3194783 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:3195173 original size:18 final size:18
Alignment explanation
Indices: 3195150--3195184 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3195140 AATCGAGCTG
*
3195150 ATTCGATTAACTTGATTA
1 ATTCGATTAACTCGATTA
3195168 ATTCGATTAACTCGATT
1 ATTCGATTAACTCGATT
3195185 CGAATAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTCGATTAACTCGATTA
Found at i:3200023 original size:101 final size:102
Alignment explanation
Indices: 3199911--3200111 Score: 343
Period size: 101 Copynumber: 2.0 Consensus size: 102
3199901 ATTAAAATTA
3199911 TTAAAACAAATTAAAAGGTATAATGAAAATTT-TAAAAACTTGAAGGGTCTAACTAAATTTTTTA
1 TTAAAACAAATTAAAAGGTATAATGAAAATTTAT-AAAACTTGAAGGGTCTAACTAAATTTTTTA
*
3199975 AAAAACTTTAAG-GAGAAGTGAAACTTTTTCAAAAAAT
65 AAAAACTTTAAGAGAGAAATGAAACTTTTTCAAAAAAT
* * *
3200012 TTAAAACAAATTAAAAGGTATAATGAAAATTTATAAAACTTGATGGGTGTAATTAAATTTTTTAA
1 TTAAAACAAATTAAAAGGTATAATGAAAATTTATAAAACTTGAAGGGTCTAACTAAATTTTTTAA
3200077 AAAACTTTAAGAGAGAAATGAAACTTTTTCAAAAA
66 AAAACTTTAAGAGAGAAATGAAACTTTTTCAAAAA
3200112 TTTTGGGAGC
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
101 71 0.76
102 23 0.24
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (102 bp):
TTAAAACAAATTAAAAGGTATAATGAAAATTTATAAAACTTGAAGGGTCTAACTAAATTTTTTAA
AAAACTTTAAGAGAGAAATGAAACTTTTTCAAAAAAT
Found at i:3201250 original size:5 final size:5
Alignment explanation
Indices: 3201208--3201249 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
3201198 TTCTTTAGTT
*
3201208 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TTTAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
3201250 TAAACTCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TATAA
Found at i:3202276 original size:17 final size:17
Alignment explanation
Indices: 3202254--3202290 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3202244 TATATCCCAC
3202254 TTCCATTCTGATATCCT
1 TTCCATTCTGATATCCT
3202271 TTCCATTCTGATATCCT
1 TTCCATTCTGATATCCT
3202288 TTC
1 TTC
3202291 TAGCTGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.05, T:0.49
Consensus pattern (17 bp):
TTCCATTCTGATATCCT
Found at i:3205198 original size:8 final size:8
Alignment explanation
Indices: 3205185--3205213 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3205175 TATCTTTATT
3205185 ATATAATA
1 ATATAATA
3205193 ATATAATA
1 ATATAATA
3205201 ATATAATA
1 ATATAATA
3205209 ATATA
1 ATATA
3205214 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:3207251 original size:24 final size:25
Alignment explanation
Indices: 3207182--3207261 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
3207172 AAGCTCTTTC
* *
3207182 GAGCCATATAATGGGAAGCTCATGTA
1 GAGCCATATAATAGGAAGCTCAT-AA
* * *
3207208 -AGCCATGTAACAGGAAGCTCCTAA
1 GAGCCATATAATAGGAAGCTCATAA
*
3207232 GAGCCAT-TAATAGGAAGCTCATAT
1 GAGCCATATAATAGGAAGCTCATAA
3207256 GAGCCA
1 GAGCCA
3207262 ATATCGAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGCCATATAATAGGAAGCTCATAA
Found at i:3207261 original size:49 final size:49
Alignment explanation
Indices: 3207144--3207261 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
3207134 TTCATATTTG
* ** *
3207144 GGAATGCTCATATGAGCACATAAACAAGAAGCTCTTTCGAGCCATATAATG
1 GGAA-GCTCATATGAGC-CATAAACAAGAAGCTCCTAAGAGCCATATAATA
* * * *
3207195 GGAAGCTCATGTAAGCCATGTAACAGGAAGCTCCTAAGAGCCAT-TAATA
1 GGAAGCTCATATGAGCCAT-AAACAAGAAGCTCCTAAGAGCCATATAATA
3207244 GGAAGCTCATATGAGCCA
1 GGAAGCTCATATGAGCCA
3207262 ATATCGAGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 23 0.41
50 29 0.52
51 4 0.07
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (49 bp):
GGAAGCTCATATGAGCCATAAACAAGAAGCTCCTAAGAGCCATATAATA
Found at i:3207297 original size:25 final size:24
Alignment explanation
Indices: 3207256--3207309 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
3207246 AAGCTCATAT
*
3207256 GAGCCAATATCGAGAAG-TTTCAGGA
1 GAGCCAATATAGAGAAGCTTT--GGA
3207281 GAGCCAATATTAG-GAAGCTTTGGA
1 GAGCCAATA-TAGAGAAGCTTTGGA
3207305 GAGCC
1 GAGCC
3207310 TGTAATACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 8 0.31
25 13 0.50
26 5 0.19
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (24 bp):
GAGCCAATATAGAGAAGCTTTGGA
Found at i:3214895 original size:23 final size:25
Alignment explanation
Indices: 3214850--3214896 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3214840 AATAAATATA
*
3214850 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
3214875 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
3214897 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:3215421 original size:24 final size:24
Alignment explanation
Indices: 3215394--3215464 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
3215384 GGATGCTCCG
*
3215394 AAGAGCTATTAACGGGAAGCTCGT
1 AAGAGCTATTAACGGGAAGCTCAT
* * *
3215418 AAGAACCATATAACGGGAAGCTTAT
1 AAGAGCTAT-TAACGGGAAGCTCAT
* * *
3215443 GAGAGCTAATAACGGGACGCTC
1 AAGAGCTATTAACGGGAAGCTC
3215465 TTTCAAGCTG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTCAT
Found at i:3216721 original size:6 final size:6
Alignment explanation
Indices: 3216705--3216738 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
3216695 TAGGTTTCCA
*
3216705 AAAATG GAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
3216739 CTTGCAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:3224599 original size:23 final size:25
Alignment explanation
Indices: 3224540--3224599 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
3224530 AACTTTTATC
*
3224540 AAATAC-AAATACTATATTAGACAAA
1 AAATACTAAATACTACATTA-ACAAA
3224565 AAATAACATAAATACTACATT-A-AAA
1 AAAT-AC-TAAATACTACATTAACAAA
3224590 AAATACTAAA
1 AAATACTAAA
3224600 CTCGAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
23 4 0.13
24 2 0.06
25 11 0.35
26 3 0.10
28 11 0.35
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.23
Consensus pattern (25 bp):
AAATACTAAATACTACATTAACAAA
Found at i:3226703 original size:32 final size:32
Alignment explanation
Indices: 3226663--3226728 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
3226653 TATCACATGC
3226663 ATATAGATATTGAAATCATGCATTTGGAAAAT
1 ATATAGATATTGAAATCATGCATTTGGAAAAT
3226695 ATATAGATATTGAAATCATGCATTTGGAAAAT
1 ATATAGATATTGAAATCATGCATTTGGAAAAT
3226727 AT
1 AT
3226729 GTTTGTTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (32 bp):
ATATAGATATTGAAATCATGCATTTGGAAAAT
Found at i:3233522 original size:16 final size:18
Alignment explanation
Indices: 3233496--3233529 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3233486 ATAGTTTAAT
3233496 TTTTAAAAATA-ATAAAA
1 TTTTAAAAATATATAAAA
3233513 TTTT-AAAATATATAAAA
1 TTTTAAAAATATATAAAA
3233530 ATATATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTTAAAAATATATAAAA
Found at i:3240453 original size:34 final size:38
Alignment explanation
Indices: 3240403--3240476 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
3240393 AATATCTTAC
*
3240403 ATATTTTATTTATTA-T-TA-ATTATTTTCAAAC-CAT
1 ATATTTTATTTATTATTGTATATTATTTTAAAACACAT
3240437 ATATTTTA-TTATTTATTGTATATTATTTTAAAACACAT
1 ATATTTTATTTA-TTATTGTATATTATTTTAAAACACAT
3240475 AT
1 AT
3240477 CTATATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 3 0.09
34 11 0.32
35 1 0.03
36 2 0.06
37 12 0.35
38 5 0.15
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (38 bp):
ATATTTTATTTATTATTGTATATTATTTTAAAACACAT
Found at i:3240707 original size:22 final size:22
Alignment explanation
Indices: 3240679--3240724 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3240669 CATAAAGTAG
3240679 TTAAACTTAAAACACTACGAAT
1 TTAAACTTAAAACACTACGAAT
3240701 TTAAACTTAAAACACTACGAAT
1 TTAAACTTAAAACACTACGAAT
3240723 TT
1 TT
3240725 CGATATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (22 bp):
TTAAACTTAAAACACTACGAAT
Found at i:3246399 original size:11 final size:11
Alignment explanation
Indices: 3246383--3246417 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
3246373 CTGAACCAGA
3246383 TTTTTAATAAT
1 TTTTTAATAAT
*
3246394 TTTTTAGTAAT
1 TTTTTAATAAT
3246405 TTTTTAATAAT
1 TTTTTAATAAT
3246416 TT
1 TT
3246418 ATTCAATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:3247153 original size:40 final size:40
Alignment explanation
Indices: 3247098--3247177 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
3247088 ACACACAACA
3247098 CAGAATAACAATGAAAGGATAAGAGCTCCTAATAAAAGAG
1 CAGAATAACAATGAAAGGATAAGAGCTCCTAATAAAAGAG
3247138 CAGAATAACAATGAAAGGATAAGAGCTCCTAATAAAAGAG
1 CAGAATAACAATGAAAGGATAAGAGCTCCTAATAAAAGAG
3247178 TAAACACAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.15
Consensus pattern (40 bp):
CAGAATAACAATGAAAGGATAAGAGCTCCTAATAAAAGAG
Found at i:3247213 original size:18 final size:18
Alignment explanation
Indices: 3247190--3247225 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3247180 AACACAATTG
3247190 TAAAGAAAGAACCATTTT
1 TAAAGAAAGAACCATTTT
3247208 TAAAGAAAGAACCATTTT
1 TAAAGAAAGAACCATTTT
3247226 ACCGCTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
TAAAGAAAGAACCATTTT
Found at i:3251777 original size:20 final size:21
Alignment explanation
Indices: 3251752--3251811 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
3251742 AGTTGTGAGT
3251752 TGAATTA-GATTTTAATTACG
1 TGAATTATGATTTTAATTACG
**
3251772 TGAATTTATTTTTTTAATTACG
1 TGAA-TTATGATTTTAATTACG
3251794 TGAATT-T-ATTTTTAATTA
1 TGAATTATGA-TTTTAATTA
3251812 GAAGTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.41
21 5 0.15
22 15 0.44
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
TGAATTATGATTTTAATTACG
Found at i:3251789 original size:22 final size:22
Alignment explanation
Indices: 3251761--3251806 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3251751 TTGAATTAGA
3251761 TTTTAATTACGTGAATTTATTT
1 TTTTAATTACGTGAATTTATTT
3251783 TTTTAATTACGTGAATTTATTT
1 TTTTAATTACGTGAATTTATTT
3251805 TT
1 TT
3251807 AATTAGAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTAATTACGTGAATTTATTT
Found at i:3252024 original size:3 final size:3
Alignment explanation
Indices: 3252016--3252047 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3252006 ATATTTACTC
3252016 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3252048 CAATTAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3252255 original size:22 final size:21
Alignment explanation
Indices: 3252213--3252277 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
3252203 TAAATAAAAG
*
3252213 AAAGAAAAACAAGAAAAAGAAAC
1 AAAGAAGAA-AAG-AAAAGAAAC
* * *
3252236 AGAGAAGAAACGAAATAGAAAG
1 AAAGAAGAAAAGAAA-AGAAAC
3252258 AAAGAAGAAAAGAAAAGAAA
1 AAAGAAGAAAAGAAAAGAAA
3252278 AAGGAGAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 8 0.23
22 20 0.57
23 7 0.20
ACGTcount: A:0.74, C:0.05, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAGAAAAGAAAAGAAAC
Found at i:3252285 original size:22 final size:21
Alignment explanation
Indices: 3252227--3252285 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
3252217 AAAAACAAGA
* *
3252227 AAAAGAAACAGAGAAGAAACG
1 AAAAGAAAAAGAGAAGAAAAG
3252248 AAATAGAAAGAA-AGAAGAAAAG
1 AAA-AGAAA-AAGAGAAGAAAAG
3252270 AAAAGAAAAAGGAGAA
1 AAAAGAAAAA-GAGAA
3252286 ATTAGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 8 0.25
22 21 0.66
23 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAGAGAAGAAAAG
Found at i:3265969 original size:6 final size:6
Alignment explanation
Indices: 3265958--3266012 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
3265948 TTAGGGTTTT
* *
3265958 TTAGGG TTAGGG TTAGGG -T-GGG TTAGGG -T-GGG TTAAGG TTAAGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG
3266002 TTAGGG TTAGG
1 TTAGGG TTAGG
3266013 TTTTTTTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 6 0.14
5 4 0.09
6 33 0.77
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (6 bp):
TTAGGG
Found at i:3265980 original size:10 final size:10
Alignment explanation
Indices: 3265967--3265992 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3265957 TTTAGGGTTA
3265967 GGGTTAGGGT
1 GGGTTAGGGT
3265977 GGGTTAGGGT
1 GGGTTAGGGT
3265987 GGGTTA
1 GGGTTA
3265993 AGGTTAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.58, T:0.31
Consensus pattern (10 bp):
GGGTTAGGGT
Found at i:3266358 original size:126 final size:123
Alignment explanation
Indices: 3266215--3266599 Score: 423
Period size: 125 Copynumber: 3.1 Consensus size: 123
3266205 TTTTGGTTTT
* * * * *
3266215 TTTTTCT-TCAGTAGTATCTGGAAAAAAAATTTTAAGAAGAAGTTTCTGAAGAAATAGTATCCAA
1 TTTTTCTAT-AGTGGTATCT-GAAAAAAAATTTTGAGAAGACGTTTCTGAA-AAATAGTGTCAAA
* *
3266279 AACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAATGCTCCCACGTGGACGTTT
63 AACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAA-GCTCCCACGTGGACGCTC
* *
3266341 TTTTTCTATAGTGGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAAAAAGTAGTGTAAAAAA
1 TTTTTCTATAGTGGTATCTGAAAAAAAATTTTGAGAAGACGTTTCTGAAAAA-TAGTGTCAAAAA
*** * * * * *
3266406 TATTTTAAGCAGGATACACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACGCTC
65 CGCTTCAAGCAGGATGCACTGTCAACAAAATTACTG-AAAAAGCTCCCACGTGGACGCTC
** * * * * *
3266466 TTTTGATACAGTGGTATCTGAAAAAATAATTGTGAGATGACTTTTCTGAACAAATAATGTCAAAA
1 TTTTTCTATAGTGGTATCTGAAAAAA-AATTTTGAGAAGACGTTTCTGAA-AAATAGTGTCAAAA
* * *
3266531 ACGCTTCATGCAGTATGCACTTTC-ACAAAAATTACTGAGAAAAGCTCCCACGTGGACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAAC-AAAATTACTGA-AAAAGCTCCCACGTGGACGCTC
3266592 TTTTTCTA
1 TTTTTCTA
3266600 CAGTAGTTCC
Statistics
Matches: 213, Mismatches: 39, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
124 3 0.01
125 104 0.49
126 102 0.48
127 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (123 bp):
TTTTTCTATAGTGGTATCTGAAAAAAAATTTTGAGAAGACGTTTCTGAAAAATAGTGTCAAAAAC
GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAGCTCCCACGTGGACGCTC
Found at i:3266602 original size:126 final size:124
Alignment explanation
Indices: 3266215--3266603 Score: 435
Period size: 126 Copynumber: 3.1 Consensus size: 124
3266205 TTTTGGTTTT
* * * * * *
3266215 TTTTTCTTCAGTAGTATCTGGAAAAAA-AATTTTAAGAAGAAGTTTCTGAAGAAATAGTATCCAA
1 TTTTTCTACAGTGGTATCT-GAAAAAATAATTTTGAGAAGACGTTTCTGAA-AAATAGTGTCAAA
* *
3266279 AACGCTTCAAGCAGGATGCACTGTCA-ACAAAATTACTGAAAAATGCTCCCACGTGGACGTTT
64 AACGCTTCAAGCAGGATGCACTGTCACA-AAAATTACTGAAAAA-GCTCCCACGTGGACGCTC
* *
3266341 TTTTTCTATAGTGGTATCTG-AAAAATAATTTTGAGAAGACGTTTCTGAAAAAGTAGTGTAAAAA
1 TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAA-TAGTGTCAAAA
*** * * * *
3266405 ATATTTTAAGCAGGATACACTGTCAGC-AAAAGTACTGAAAAAAGCTCCCACGTAGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCA-CAAAAATTACTG-AAAAAGCTCCCACGTGGACGCTC
** * * * *
3266466 TTTTGATACAGTGGTATCTGAAAAAATAATTGTGAGATGACTTTTCTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAA-AAATAGTGTCAAAA
* * *
3266531 ACGCTTCATGCAGTATGCACTTTCACAAAAATTACTGAGAAAAGCTCCCACGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCACAAAAATTACTGA-AAAAGCTCCCACGTGGACGCTC
3266592 TTTTTCTACAGT
1 TTTTTCTACAGT
3266604 AGTTCCTATT
Statistics
Matches: 217, Mismatches: 37, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
124 8 0.04
125 93 0.43
126 113 0.52
127 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (124 bp):
TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCACAAAAATTACTGAAAAAGCTCCCACGTGGACGCTC
Found at i:3269729 original size:29 final size:29
Alignment explanation
Indices: 3269697--3269785 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
3269687 AAAACAACTT
3269697 TTATTTTATTACAAATATAAAAGAGTAAA
1 TTATTTTATTACAAATATAAAAGAGTAAA
* * *
3269726 TTA--TAATTA-AAATACTAAAA-A-CAACTT
1 TTATTTTATTACAAATA-TAAAAGAGTAA--A
3269753 TTATTTTATTACAAATATAAAAGAGTAAA
1 TTATTTTATTACAAATATAAAAGAGTAAA
3269782 TTAT
1 TTAT
3269786 AATTAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 13 0.28
29 17 0.37
30 6 0.13
31 2 0.04
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (29 bp):
TTATTTTATTACAAATATAAAAGAGTAAA
Found at i:3269744 original size:27 final size:27
Alignment explanation
Indices: 3269704--3269801 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
3269694 CTTTTATTTT
3269704 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* * *
3269731 ATTA-AAATACTAAAA-A-CAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
3269760 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
3269787 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
3269802 ACAACTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 22 0.39
29 13 0.23
30 6 0.11
31 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:3269747 original size:56 final size:56
Alignment explanation
Indices: 3269687--3269819 Score: 257
Period size: 56 Copynumber: 2.4 Consensus size: 56
3269677 TTCCTTATTC
3269687 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
*
3269743 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
3269799 AAAACAACTTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
3269820 AATGAAATAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 76 1.00
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:3269812 original size:27 final size:26
Alignment explanation
Indices: 3269726--3269812 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
3269716 AAAGAGTAAA
3269726 TTATAATTAAAATACTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
* * *
3269753 TTATTTTATTACAAATATAAAAGAGTAA--A
1 TTA--TAATTA-AAATATAAAA-A-CAACTT
3269782 TTATAATTAAAATATTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
3269809 TTAT
1 TTAT
3269813 TTTATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 17 0.37
29 13 0.28
30 6 0.13
31 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (26 bp):
TTATAATTAAAATATAAAAACAACTT
Found at i:3270260 original size:18 final size:18
Alignment explanation
Indices: 3270239--3270273 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3270229 AAAAGGAAAC
3270239 ATATAAGGGTTAGGATAT
1 ATATAAGGGTTAGGATAT
3270257 ATATAAGGGTTAGGATA
1 ATATAAGGGTTAGGATA
3270274 CGCACCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (18 bp):
ATATAAGGGTTAGGATAT
Found at i:3270914 original size:7 final size:7
Alignment explanation
Indices: 3270891--3270950 Score: 84
Period size: 7 Copynumber: 8.6 Consensus size: 7
3270881 TTGTATAAAT
3270891 AATACTA
1 AATACTA
* *
3270898 GATGCTA
1 AATACTA
3270905 AATACTA
1 AATACTA
3270912 AATACTA
1 AATACTA
*
3270919 AATACCA
1 AATACTA
3270926 AATACTA
1 AATACTA
*
3270933 AATATTA
1 AATACTA
3270940 AATACTA
1 AATACTA
3270947 AATA
1 AATA
3270951 AGAAACGAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:3271934 original size:25 final size:25
Alignment explanation
Indices: 3271901--3271977 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
3271891 ATTAAAATTA
3271901 AAATTGTATAAATGAAAAAAATATT
1 AAATTGTATAAATGAAAAAAATATT
*
3271926 AAATTGTAT---TGAAAAATTAAT-TA
1 AAATTGTATAAATGAAAAA--AATATT
* *
3271949 AAATTGCATAAATTAAAAAAATATT
1 AAATTGTATAAATGAAAAAAATATT
3271974 AAAT
1 AAAT
3271978 ACTATTGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 7 0.17
23 9 0.21
24 6 0.14
25 14 0.33
26 6 0.14
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (25 bp):
AAATTGTATAAATGAAAAAAATATT
Found at i:3271960 original size:48 final size:48
Alignment explanation
Indices: 3271896--3271993 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
3271886 ATAAAATTAA
* **
3271896 AATTAAAATTGTATAAATGAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAATATTAAATACTATTGAAAAATT
* *
3271944 AATTAAAATTGCATAAATTAAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAATATTAAATACTATTGAAAAATT
3271992 AA
1 AA
3271994 AATTATCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (48 bp):
AATTAAAATTGCATAAATGAAAAAAATATTAAATACTATTGAAAAATT
Found at i:3272173 original size:22 final size:22
Alignment explanation
Indices: 3272148--3272196 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
3272138 AGATAGCTTT
3272148 GAGAAAATTT-GAGAGAATATGA
1 GAGAAAATTTGGA-AGAATATGA
** *
3272170 GAGAATTTTTGGAAGAATTTGA
1 GAGAAAATTTGGAAGAATATGA
3272192 GAGAA
1 GAGAA
3272197 TTTAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
GAGAAAATTTGGAAGAATATGA
Found at i:3272194 original size:32 final size:32
Alignment explanation
Indices: 3272145--3272209 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
3272135 TAAAGATAGC
*
3272145 TTTGAGAAAATTTGAGAGAATATGAGAGAATT
1 TTTGAGAAAATTTGAGAGAATATAAGAGAATT
*
3272177 TTTG-GAAGAATTTGAGAGAATTTAAGAGAATT
1 TTTGAGAA-AATTTGAGAGAATATAAGAGAATT
3272209 T
1 T
3272210 GGATAGGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.34
Consensus pattern (32 bp):
TTTGAGAAAATTTGAGAGAATATAAGAGAATT
Found at i:3277592 original size:5 final size:5
Alignment explanation
Indices: 3277582--3277652 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
3277572 AAAAAAATAT
* *
3277582 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TCATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA T-ATTA
3277628 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
3277653 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 32 0.58
6 10 0.18
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:3277634 original size:19 final size:19
Alignment explanation
Indices: 3277610--3277652 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3277600 ATTATGTTTT
3277610 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
3277629 TATATTATATTATATTATA
1 TATATTATATTATATTATA
3277648 TATAT
1 TATAT
3277653 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:3277684 original size:17 final size:17
Alignment explanation
Indices: 3277662--3277695 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3277652 TACATAAAAC
*
3277662 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
3277679 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
3277696 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:3277691 original size:9 final size:9
Alignment explanation
Indices: 3277662--3277695 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
3277652 TACATAAAAC
3277662 AAAAGAAAG
1 AAAAGAAAG
*
3277671 AATAGAAA-
1 AAAAGAAAG
3277679 AAAAGAAAG
1 AAAAGAAAG
3277688 AAAAGAAA
1 AAAAGAAA
3277696 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:3278324 original size:29 final size:30
Alignment explanation
Indices: 3278265--3278322 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
3278255 TCCGAGCCTT
*
3278265 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
*
3278295 GGGGCAAAATTGTAATTTAT-AAAAAGTT
1 GGGGCAAAAATGTAA-TTATGAAAAAGTT
3278323 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3278714 original size:46 final size:44
Alignment explanation
Indices: 3278662--3278747 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
3278652 AGAACAGAAA
*
3278662 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAAGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAAGAT
*
3278708 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
3278748 GGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAAGAT
Found at i:3278761 original size:44 final size:45
Alignment explanation
Indices: 3278664--3278788 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
3278654 AACAGAAATG
* * *
3278664 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAAGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
* *
3278710 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
3278754 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
3278789 CAGGGTATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:3282061 original size:16 final size:16
Alignment explanation
Indices: 3282028--3282061 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3282018 AAGTACTGTT
* *
3282028 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
3282044 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
3282060 AA
1 AA
3282062 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:3291086 original size:17 final size:17
Alignment explanation
Indices: 3291066--3291099 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3291056 AAATAGATTT
3291066 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
3291083 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
3291100 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:3302701 original size:13 final size:13
Alignment explanation
Indices: 3302685--3302709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3302675 ATTGAGATCT
3302685 CAAACAACAAAAC
1 CAAACAACAAAAC
3302698 CAAACAACAAAA
1 CAAACAACAAAA
3302710 ATTTTACTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAACAACAAAAC
Found at i:3302881 original size:26 final size:26
Alignment explanation
Indices: 3302852--3302901 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3302842 AATTCCCTAT
*
3302852 CAAACAATGGCTAAAATAGCAAGATA
1 CAAACAATGGATAAAATAGCAAGATA
3302878 CAAACAATGGATAAAATAGCAAGA
1 CAAACAATGGATAAAATAGCAAGA
3302902 AAAAATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (26 bp):
CAAACAATGGATAAAATAGCAAGATA
Found at i:3303636 original size:17 final size:19
Alignment explanation
Indices: 3303594--3303636 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
3303584 CAAATTGGTA
*
3303594 TGTGATTTTGTTTGATTTT
1 TGTGATTTTGTATGATTTT
3303613 TGATGATTTT-TATG-TTTT
1 TG-TGATTTTGTATGATTTT
3303631 TGTGAT
1 TGTGAT
3303637 CGTTGCCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 5 0.23
20 7 0.32
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.65
Consensus pattern (19 bp):
TGTGATTTTGTATGATTTT
Found at i:3304404 original size:43 final size:43
Alignment explanation
Indices: 3304354--3304462 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 43
3304344 ACATGTAGGA
*
3304354 CCATGTCTGGGACATTGGCATTG-TAT-TGTAATTATGTGTAAGG
1 CCATGTCTGGGACATTGGCATCGTTATATG--ATTATGTGTAAGG
* * * * *
3304397 CGATGTCTGGGGCGTTGACATCGTTATATGATTTTGTGTAAGG
1 CCATGTCTGGGACATTGGCATCGTTATATGATTATGTGTAAGG
* *
3304440 CCCTGTCTGGGACAGTGGCATCG
1 CCATGTCTGGGACATTGGCATCG
3304463 ATATGTGACG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
43 47 0.90
44 3 0.06
45 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (43 bp):
CCATGTCTGGGACATTGGCATCGTTATATGATTATGTGTAAGG
Found at i:3306933 original size:19 final size:19
Alignment explanation
Indices: 3306897--3306934 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3306887 TTTAAAAGAA
*
3306897 TTATAATTTTTAAGAATTT
1 TTATAATTTTTAACAATTT
*
3306916 TTATAATTTTTTACAATTT
1 TTATAATTTTTAACAATTT
3306935 CTAGAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATAATTTTTAACAATTT
Found at i:3308234 original size:265 final size:265
Alignment explanation
Indices: 3307761--3308290 Score: 1060
Period size: 265 Copynumber: 2.0 Consensus size: 265
3307751 CTTGCCGAAA
3307761 AAAAGAAAGAAAAAAAGACAAGTTAGGTATTCGACCATTGTTGATTGAAATTCAAGGTTAGTTTG
1 AAAAGAAAGAAAAAAAGACAAGTTAGGTATTCGACCATTGTTGATTGAAATTCAAGGTTAGTTTG
3307826 GTTTCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAATACTATCCGATCGATGCT
66 GTTTCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAATACTATCCGATCGATGCT
3307891 AGAATTTCTGATTTTGATGAATATTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGT
131 AGAATTTCTGATTTTGATGAATATTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGT
3307956 TTGATGATGAATATGGGAAGATATGTTTTGGATTAATATGTTTTGTATTGGAATTTTTGATGAAT
196 TTGATGATGAATATGGGAAGATATGTTTTGGATTAATATGTTTTGTATTGGAATTTTTGATGAAT
3308021 TTGAG
261 TTGAG
3308026 AAAAGAAAGAAAAAAAGACAAGTTAGGTATTCGACCATTGTTGATTGAAATTCAAGGTTAGTTTG
1 AAAAGAAAGAAAAAAAGACAAGTTAGGTATTCGACCATTGTTGATTGAAATTCAAGGTTAGTTTG
3308091 GTTTCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAATACTATCCGATCGATGCT
66 GTTTCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAATACTATCCGATCGATGCT
3308156 AGAATTTCTGATTTTGATGAATATTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGT
131 AGAATTTCTGATTTTGATGAATATTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGT
3308221 TTGATGATGAATATGGGAAGATATGTTTTGGATTAATATGTTTTGTATTGGAATTTTTGATGAAT
196 TTGATGATGAATATGGGAAGATATGTTTTGGATTAATATGTTTTGTATTGGAATTTTTGATGAAT
3308286 TTGAG
261 TTGAG
3308291 TAATTAGGGT
Statistics
Matches: 265, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 265 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (265 bp):
AAAAGAAAGAAAAAAAGACAAGTTAGGTATTCGACCATTGTTGATTGAAATTCAAGGTTAGTTTG
GTTTCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAATACTATCCGATCGATGCT
AGAATTTCTGATTTTGATGAATATTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGT
TTGATGATGAATATGGGAAGATATGTTTTGGATTAATATGTTTTGTATTGGAATTTTTGATGAAT
TTGAG
Found at i:3310578 original size:4 final size:4
Alignment explanation
Indices: 3310569--3310606 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
3310559 GTGGTATTTT
3310569 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
3310607 TATATAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:3311206 original size:17 final size:14
Alignment explanation
Indices: 3311165--3311196 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3311155 TCATATTATT
*
3311165 TTATTATTTATTTA
1 TTATTATATATTTA
3311179 TTATTATATATTTA
1 TTATTATATATTTA
3311193 TTAT
1 TTAT
3311197 GTAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATATATTTA
Found at i:3311443 original size:21 final size:21
Alignment explanation
Indices: 3311394--3311444 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3311384 TATTATCCCC
** *
3311394 CATATTTAATGTTATTGTCAA
1 CATATTTTTTGTTATTATCAA
*
3311415 CATATTTTTTGTTATTATCAT
1 CATATTTTTTGTTATTATCAA
*
3311436 CATGTTTTT
1 CATATTTTT
3311445 AATATTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (21 bp):
CATATTTTTTGTTATTATCAA
Found at i:3311542 original size:16 final size:13
Alignment explanation
Indices: 3311508--3311559 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
3311498 ATTACTGTTG
3311508 TTTTATTAATTAT
1 TTTTATTAATTAT
*
3311521 TTTTATTAATTAC
1 TTTTATTAATTAT
*
3311534 TATTATT-ATTATT
1 TTTTATTAATTA-T
*
3311547 TTTTATTATTTAT
1 TTTTATTAATTAT
3311560 ATATGGTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 4 0.12
13 25 0.78
14 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTAATTAT
Done.