Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 17 of 373
Found at i:4947609 original size:39 final size:41
Alignment explanation
Indices: 4947538--4947623 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 41
4947528 AAGCCCTTTT
*
4947538 AAAATTTAAAAATTATTTAAAATCATAAAAAAA-TTTATTTAA
1 AAAATTTAAAAATTATATAAAAT-ATAAAAAAATTTTA-TTAA
* *
4947580 AAAATTTATAAATT-TATAAAAT-TATAAAAATTTTATTAA
1 AAAATTTAAAAATTATATAAAATATAAAAAAATTTTATTAA
4947619 AAAAT
1 AAAAT
4947624 AACAATACCG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
39 16 0.40
40 4 0.10
41 7 0.17
42 13 0.32
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (41 bp):
AAAATTTAAAAATTATATAAAATATAAAAAAATTTTATTAA
Found at i:4947749 original size:11 final size:10
Alignment explanation
Indices: 4947728--4947785 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 10
4947718 AAAATTTAAA
4947728 TTTTTATAAT
1 TTTTTATAAT
4947738 TTTTTATGAAT
1 TTTTTAT-AAT
*
4947749 TTTGTTAATATT
1 TTT-TT-ATAAT
4947761 TTGTTTATAAT
1 TT-TTTATAAT
*
4947772 TTTTAATAACT
1 TTTTTATAA-T
4947783 TTT
1 TTT
4947786 AAAATTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 13 0.32
11 16 0.40
12 8 0.20
13 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:4949620 original size:11 final size:11
Alignment explanation
Indices: 4949590--4949628 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4949580 AAGACATATA
4949590 AATAAAATACAT
1 AATAAAATA-AT
4949602 AA-ATAAATAAT
1 AATA-AAATAAT
4949613 AATAAAATAAT
1 AATAAAATAAT
4949624 AATAA
1 AATAA
4949629 TAACAATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:4949624 original size:14 final size:14
Alignment explanation
Indices: 4949589--4949631 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4949579 CAAGACATAT
4949589 AAATAA-AATACAT-
1 AAATAATAATA-ATA
4949602 AAATAAATAATAATA
1 AAAT-AATAATAATA
4949617 AAATAATAATAATA
1 AAATAATAATAATA
4949631 A
1 A
4949632 CAATGAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.15
14 15 0.56
15 8 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:4952971 original size:19 final size:22
Alignment explanation
Indices: 4952932--4952971 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
4952922 AGAAACCCAA
4952932 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
4952954 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
4952972 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:4953070 original size:27 final size:28
Alignment explanation
Indices: 4953033--4953172 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
4953023 AGCATGGCTG
* *
4953033 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4953059 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
4953087 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4953114 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
4953141 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4953168 CCAGA
1 CCAGA
4953173 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:4954806 original size:26 final size:26
Alignment explanation
Indices: 4954770--4954853 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
4954760 CATGAAATTC
4954770 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
4954796 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
4954822 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
4954848 TTATCA
1 TTATCA
4954854 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:4955916 original size:22 final size:22
Alignment explanation
Indices: 4955870--4955911 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
4955860 CTAAAGTATA
*
4955870 AAATTATATAAGAGAAATCAAT
1 AAATTATATAAGACAAATCAAT
4955892 AAATTATAT-A-ACAAATCAAT
1 AAATTATATAAGACAAATCAAT
4955912 GTAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (22 bp):
AAATTATATAAGACAAATCAAT
Found at i:4957842 original size:20 final size:21
Alignment explanation
Indices: 4957817--4957861 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
4957807 CTATTTATTG
4957817 TTCTTTCTT-TTATTTC-TTTA
1 TTCTTT-TTATTATTTCTTTTA
4957837 TTCTTTTTATTATTTCTTTTA
1 TTCTTTTTATTATTTCTTTTA
4957858 TTCT
1 TTCT
4957862 ACTTTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 13 0.57
21 8 0.35
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCTTTTTATTATTTCTTTTA
Found at i:4957871 original size:21 final size:19
Alignment explanation
Indices: 4957822--4957871 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
4957812 TATTGTTCTT
4957822 TCTTT-TATTTCTTTATTC
1 TCTTTATATTTCTTTATTC
*
4957840 TTTTTATTATTTCTTTTATTC
1 TCTTTA-TATTTC-TTTATTC
4957861 TACTTTATATT
1 T-CTTTATATT
4957872 ATTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
20 6 0.23
21 12 0.46
22 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTTATATTTCTTTATTC
Found at i:4957879 original size:29 final size:29
Alignment explanation
Indices: 4957811--4957876 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
4957801 ACTTCTCTAT
* * *
4957811 TTATTGTTCTTTCTTTTATTTCTTTATTC
1 TTATTATTATTTCTTTTATTTCTTTATTA
*
4957840 TTTTTATTATTTCTTTTATTCTACTTTA-TA
1 TTATTATTATTTCTTTTATT-T-CTTTATTA
4957870 TTATTAT
1 TTATTAT
4957877 ATTATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 17 0.57
30 8 0.27
31 5 0.17
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.71
Consensus pattern (29 bp):
TTATTATTATTTCTTTTATTTCTTTATTA
Found at i:4957883 original size:13 final size:13
Alignment explanation
Indices: 4957865--4957902 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4957855 TTATTCTACT
4957865 TTATATTATTATA
1 TTATATTATTATA
*
4957878 TTATATTTTTA-A
1 TTATATTATTATA
4957890 TTATAATTATTAT
1 TTAT-ATTATTAT
4957903 TTCTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:4958852 original size:14 final size:14
Alignment explanation
Indices: 4958829--4958863 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4958819 ATTGTTGGCT
4958829 TTGGGCTAGTGTAA
1 TTGGGCTAGTGTAA
* *
4958843 TTGGGTTAGTGTAG
1 TTGGGCTAGTGTAA
4958857 TTGGGCT
1 TTGGGCT
4958864 GAGGATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.40, T:0.40
Consensus pattern (14 bp):
TTGGGCTAGTGTAA
Found at i:4958932 original size:14 final size:14
Alignment explanation
Indices: 4958913--4958947 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
4958903 ATTGTTGGCT
4958913 TTGGGTTAGTGTAA
1 TTGGGTTAGTGTAA
4958927 TTGGGTTAGTGTAA
1 TTGGGTTAGTGTAA
4958941 TTGGGTT
1 TTGGGTT
4958948 GAGGATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
TTGGGTTAGTGTAA
Found at i:4958960 original size:84 final size:84
Alignment explanation
Indices: 4958819--4958982 Score: 301
Period size: 84 Copynumber: 2.0 Consensus size: 84
4958809 ATTTTGGGCC
*
4958819 ATTGTTGGCTTTGGGCTAGTGTAATTGGGTTAGTGTAGTTGGGCTGAGGATTTTTGTAAGGGACT
1 ATTGTTGGCTTTGGGCTAGTGTAATTGGGTTAGTGTAATTGGGCTGAGGATTTTTGTAAGGGACT
4958884 TAAACTATTATTATTTGGT
66 TAAACTATTATTATTTGGT
* *
4958903 ATTGTTGGCTTTGGGTTAGTGTAATTGGGTTAGTGTAATTGGGTTGAGGATTTTTGTAAGGGACT
1 ATTGTTGGCTTTGGGCTAGTGTAATTGGGTTAGTGTAATTGGGCTGAGGATTTTTGTAAGGGACT
4958968 TAAACTATTATTATT
66 TAAACTATTATTATT
4958983 ATTTGGTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.44
Consensus pattern (84 bp):
ATTGTTGGCTTTGGGCTAGTGTAATTGGGTTAGTGTAATTGGGCTGAGGATTTTTGTAAGGGACT
TAAACTATTATTATTTGGT
Found at i:4959963 original size:11 final size:11
Alignment explanation
Indices: 4959911--4959973 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
4959901 TTTAAAATTT
4959911 AAAAATTATTTAA
1 AAAAATTA-TT-A
* *
4959924 AAAAATCATAA
1 AAAAATTATTA
4959935 ACAAAATTTATT-
1 A-AAAA-TTATTA
4959947 -AAAATTATTA
1 AAAAATTATTA
4959957 AAAAATTATTA
1 AAAAATTATTA
4959968 AAAAAT
1 AAAAAT
4959974 AATAATGCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 5 0.12
10 4 0.10
11 18 0.43
12 5 0.12
13 10 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:4961113 original size:27 final size:26
Alignment explanation
Indices: 4961075--4961187 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
4961065 CAGCATGGCT
* *
4961075 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
4961101 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
4961129 ACCAGAACAGAAATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
4961156 ACCAGATCAGATAATCGTGGCATAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
4961183 ACCAG
1 ACCAG
4961188 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 8 0.10
27 52 0.68
28 17 0.22
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:4961134 original size:54 final size:54
Alignment explanation
Indices: 4961075--4961187 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
4961065 CAGCATGGCT
* *
4961075 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* *
4961129 ACCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
4961183 ACCAG
1 ACCAG
4961188 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (54 bp):
ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:4962843 original size:26 final size:26
Alignment explanation
Indices: 4962807--4962916 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
4962797 CATGAAATTC
*
4962807 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
4962833 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
4962859 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4962885 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4962911 TTATCA
1 TTATCA
4962917 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4964004 original size:19 final size:19
Alignment explanation
Indices: 4963980--4964070 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
4963970 AATCATATCT
*
4963980 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
4963999 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
4964017 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
* *
4964034 TCTAAGATTACATATCACA
1 TCTAAGATTGCATATCATA
4964053 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
4964071 TGAATATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4964038 original size:35 final size:37
Alignment explanation
Indices: 4963980--4964070 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 37
4963970 AATCATATCT
* *
4963980 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTACATATCACA
4964017 TCTAAGATTG-TATCATATCTAAGATTACATATCACA
1 TCTAAGATTGATATCATATCTAAGATTACATATCACA
4964053 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
4964071 TGAATATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
35 18 0.37
36 15 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTACATATCACA
Found at i:4964908 original size:207 final size:207
Alignment explanation
Indices: 4964451--4965244 Score: 1365
Period size: 207 Copynumber: 3.8 Consensus size: 207
4964441 AAATCTGCTT
* * *
4964451 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
4964516 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * *
4964581 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCCGTCGAATAT
4964645 GGAGACGCCAAA
196 GGAGACGCCAAA
** *
4964657 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
4964722 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
4964787 GGATCTTGCTTCAGTATAAACATCTGAAGGCCATATCTGCTATGTGTCTGCCCTCCGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCCGTCGAATAT
*
4964852 GGAGACGTCAAA
196 GGAGACGCCAAA
4964864 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
4964929 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
4964994 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCCGTCGAATAT
4965059 GGAGACGCCAAA
196 GGAGACGCCAAA
** *
4965071 CTTTGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
4965136 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
4965201 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
4965245 CTTTAACCTG
Statistics
Matches: 555, Mismatches: 32, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
206 126 0.23
207 429 0.77
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:4965425 original size:43 final size:43
Alignment explanation
Indices: 4965296--4965525 Score: 163
Period size: 43 Copynumber: 5.4 Consensus size: 43
4965286 TTCGATCTGC
* *
4965296 TCCACTACTGCTTAAGGAGATAAGATCCGCAATTTTGACCTGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGT
* * * * * *
4965339 TACTCTACTGCTTAGGG-GATAAG-GCGAGTC-ATCGTTGATCTGT
1 TCCACTACTGCTTAGGGAGATAAGATC-TG-CAAT-TTTGACCTGT
*
4965382 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTGA-CCTGT
* * * * * * * *
4965425 TACC-CTACTACTTAGGGGGTTAAG-GC-G-AGTCTTCGATCTGC
1 T-CCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTTGACCTGT
* *
4965466 TCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGT
4965509 TACC-CTACTGCTTAGGG
1 T-CCACTACTGCTTAGGG
4965526 GATTAAGGCG
Statistics
Matches: 140, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
40 4 0.03
41 25 0.18
42 13 0.09
43 83 0.59
44 14 0.10
45 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGT
Found at i:4965494 original size:84 final size:83
Alignment explanation
Indices: 4965246--4965535 Score: 420
Period size: 84 Copynumber: 3.4 Consensus size: 83
4965236 TCTGCTATGC
4965246 TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTTA
* *
4965310 AGGAGATAAGATCCGCAAT
65 GGGAGATAAGATCTGCAAT
* * * * *
4965329 TTTGACCTGTTACTCTACTGCTTAGGGGATAAGGCGAGTCATCGTTGATCTGTTCCACTACTGCT
1 TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCT
*
4965394 TAGGGAGATAAGATCTGTAAT
63 TAGGGAGATAAGATCTGCAAT
* *
4965415 TTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTA-GGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
4965480 GGGAGATAAGATCTGCAAA
65 GGGAGATAAGATCTGCAAT
4965499 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGG-TTAAGGCG
4965536 CTGAATTTTG
Statistics
Matches: 182, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 39 0.21
84 69 0.38
86 58 0.32
87 15 0.08
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (83 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTGCAAT
Found at i:4966495 original size:7 final size:7
Alignment explanation
Indices: 4966483--4966565 Score: 82
Period size: 7 Copynumber: 11.4 Consensus size: 7
4966473 GGCCTCTTCA
4966483 TTTTTCT
1 TTTTTCT
4966490 TTTTTCTT
1 TTTTTC-T
4966498 ATTTTTCT
1 -TTTTTCT
4966506 TTTTTCTT
1 TTTTTC-T
4966514 TTTTTCT
1 TTTTTCT
4966521 TTTTTCT
1 TTTTTCT
4966528 TTTTT-T
1 TTTTTCT
4966534 TCTCTTT-T
1 T-T-TTTCT
4966542 TCTTTTCT
1 T-TTTTCT
*
4966550 TTTTCCT
1 TTTTTCT
4966557 TTTTT-T
1 TTTTTCT
4966563 TTT
1 TTT
4966566 GAAATGGAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
6 6 0.09
7 38 0.56
8 18 0.26
9 6 0.09
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:4966516 original size:24 final size:24
Alignment explanation
Indices: 4966487--4966547 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 24
4966477 TCTTCATTTT
4966487 TCTTTTTTCTTATTTTTCTTTTTTC
1 TCTTTTTTCTT-TTTTTCTTTTTTC
*
4966512 T-TTTTTTC-TTTTTTCTTTTTTT
1 TCTTTTTTCTTTTTTTCTTTTTTC
4966534 TCTCTTTTTCTTTT
1 TCT-TTTTTCTTTT
4966548 CTTTTTCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 13 0.41
23 2 0.06
24 13 0.41
25 4 0.12
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (24 bp):
TCTTTTTTCTTTTTTTCTTTTTTC
Found at i:4966521 original size:31 final size:32
Alignment explanation
Indices: 4966483--4966547 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
4966473 GGCCTCTTCA
4966483 TTTTTCTTTTTTCTTATTTTTCT-TTTTTCTT
1 TTTTTCTTTTTTCTTATTTTTCTCTTTTTCTT
*
4966514 TTTTTCTTTTTTCTTTTTTTTCTCTTTTTCTT
1 TTTTTCTTTTTTCTTATTTTTCTCTTTTTCTT
4966546 TT
1 TT
4966548 CTTTTTCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (32 bp):
TTTTTCTTTTTTCTTATTTTTCTCTTTTTCTT
Found at i:4966562 original size:31 final size:28
Alignment explanation
Indices: 4966483--4966565 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 28
4966473 GGCCTCTTCA
4966483 TTTTTCTTTTTTCTTATTTTTCTTTTTTCTT
1 TTTTTC-TTTTTCTT-TTTTT-TTTTTTCTT
*
4966514 TTTTTCTTTTTTCTTTTTTTTCTCTTT-TT
1 TTTTTC-TTTTTCTTTTTTTT-TTTTTCTT
* *
4966543 CTTTTCTTTTTCCTTTTTTTTTT
1 TTTTTCTTTTTCTTTTTTTTTTT
4966566 GAAATGGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.04
28 13 0.28
29 8 0.17
30 9 0.19
31 15 0.32
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (28 bp):
TTTTTCTTTTTCTTTTTTTTTTTTTCTT
Found at i:4966563 original size:16 final size:16
Alignment explanation
Indices: 4966483--4966565 Score: 107
Period size: 16 Copynumber: 5.1 Consensus size: 16
4966473 GGCCTCTTCA
*
4966483 TTTTTCTTTTTTCTTA
1 TTTTTCTTTTTTCTTT
4966499 TTTTTCTTTTTTC-TT
1 TTTTTCTTTTTTCTTT
4966514 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
4966530 TTTTTCTCTTTTTCTTTT
1 TTTTTCT-TTTTTC-TTT
4966548 CTTTTTCCTTTTTT-TTT
1 -TTTTT-CTTTTTTCTTT
4966565 T
1 T
4966566 GAAATGGAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
15 14 0.23
16 23 0.38
17 9 0.15
18 3 0.05
19 10 0.16
20 2 0.03
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:4977287 original size:44 final size:42
Alignment explanation
Indices: 4977221--4977306 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 42
4977211 CCATTAAGAA
* *
4977221 AAACTTCAGAAACAAGAGAGCTTTAAAGCAACCAGACTAAGTTT
1 AAACTTCAGAAACAAGAAAGCTTT-AAGAAACCAGA-TAAGTTT
* *
4977265 AAACTTGAGAAGA-AAGAAAGCTTTAAGAAATCAGATAAGTTT
1 AAACTTCAGAA-ACAAGAAAGCTTTAAGAAACCAGATAAGTTT
4977307 CTAGTGCTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 7 0.19
43 9 0.24
44 20 0.54
45 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (42 bp):
AAACTTCAGAAACAAGAAAGCTTTAAGAAACCAGATAAGTTT
Found at i:4978988 original size:44 final size:43
Alignment explanation
Indices: 4978921--4979089 Score: 142
Period size: 44 Copynumber: 3.8 Consensus size: 43
4978911 TATGGCGGAT
* *
4978921 CTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
1 CTTATC-TCCTGAAGTTGCAGTGGAGCAGACTGAAGCCACCAGC
* *** * *
4978965 CTTATCTCCTCGAAGTTGTAGTGGAGCAGACTGAATATAGCGAATC
1 CTTATCTCCT-GAAGTTGCAGTGGAGCAGACTGAAGCCA-C-CAGC
* * * * *
4979011 C-CATTTCCATAAAGTTGCAGTGGAGAAGATTGAAGCCACCAGC
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGCCACCAGC
**
4979054 CTTATCTCCTTGAAGTTGCAGTAAAGCAGACTGAAG
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAG
4979090 ATAGCGAATC
Statistics
Matches: 93, Mismatches: 27, Indels: 10
0.72 0.21 0.08
Matches are distributed among these distances:
43 6 0.06
44 56 0.60
45 27 0.29
46 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
CTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGCCACCAGC
Found at i:4979084 original size:89 final size:90
Alignment explanation
Indices: 4978929--4979259 Score: 309
Period size: 89 Copynumber: 3.6 Consensus size: 90
4978919 ATCTTATCTT
* **
4978929 TCTG-AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTCGAAGTTGTAGTGGAGCA
1 TCTGAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTCGAAGTTGCAGTAAAGCA
*
4978993 GACTGAATATAGCGAATCCCATTTC
66 GACTGAAGATAGCGAATCCCATTTC
* *
4979018 -CAT-AAAGTTGCAGTGGAGAAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGTAAAGC
1 TC-TGAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTCGAAGTTGCAGTAAAGC
*
4979081 AGACTGAAGATAGCGAATCTCATTTC
65 AGACTGAAGATAGCGAATCCCATTTC
* * * * *
4979107 TCTGAAA-TTGCAGTGGAGCAGATTAAAACTACAAGTTGCGAGTCTTATCTCCCTC-AAGTTGCC
1 TCTGAAAGTTGCAGTGGAGCAGATTGAAGC--C-A----CCAGCCTTATCT-CCTCGAAGTTGCA
* ** *
4979170 GTAGGAGCAGACTGAAGATAGC-AGATCTTATATC
58 GTA-AAGCAGACTGAAGATAGCGA-ATCCCATTTC
* * * * *
4979204 CCTG-AAGTTGCATTGGAGCAGATCGAAGCCACAATCCTTATCTCC-CTGAAGTTGCA
1 TCTGAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTC-GAAGTTGCA
4979260 ATGGAGCAAG
Statistics
Matches: 199, Mismatches: 26, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
88 2 0.01
89 101 0.51
90 20 0.10
91 1 0.01
92 1 0.01
94 1 0.01
95 1 0.01
96 23 0.12
97 49 0.25
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (90 bp):
TCTGAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTCGAAGTTGCAGTAAAGCA
GACTGAAGATAGCGAATCCCATTTC
Found at i:4979127 original size:45 final size:45
Alignment explanation
Indices: 4978984--4979128 Score: 116
Period size: 45 Copynumber: 3.2 Consensus size: 45
4978974 TCGAAGTTGT
* *
4978984 AGTGGAGCAGACTGAATATAGCGAATCCCATTTCCAT-AAAGTTGC
1 AGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCATGAAA-TTGC
* * ** * ** * * * *
4979029 AGTGGAGAAGATTGAAGCCA-CCAGCCTTATCTCCTTGAAGTTGC
1 AGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCATGAAATTGC
**
4979073 AGTAAAGCAGACTGAAGATAGCGAATCTCATTTCTC-TGAAATTGC
1 AGTGGAGCAGACTGAAGATAGCGAATCTCATTTC-CATGAAATTGC
4979118 AGTGGAGCAGA
1 AGTGGAGCAGA
4979129 TTAAAACTAC
Statistics
Matches: 70, Mismatches: 27, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
44 27 0.39
45 42 0.60
46 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (45 bp):
AGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCATGAAATTGC
Found at i:4979252 original size:44 final size:44
Alignment explanation
Indices: 4979150--4979445 Score: 156
Period size: 44 Copynumber: 6.6 Consensus size: 44
4979140 AGTTGCGAGT
* * **
4979150 CTTATCTCCCTCAAGTTGCCGTAGGAGCAGA-CTGAAGATAGCAGAT-
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGATC-GAAGCCA-CA-ATC
* *
4979196 CTTATATCCCTGAAGTTGCATTGGAGCAGATCGAAGCCACAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATC
* ** ** *
4979240 CTTATCTCCCTGAAGTTGCAATGGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AGAT-CGAAGCCACAATC
* * ** *** *
4979286 CTTATCTCCCTGAAGCTGCAGTGGAGCAGGTTAAAATTACCAATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAATC
* * * * *
4979331 CTTATATCCTTGAAGTTACAGTGGAGTAGATCGAAGCTACAAGT-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAA-TC
* * * *
4979375 CTCT-TCTCCCTGAAATTACATTGTAGCAGATCGAAG-CACCAATTC
1 CT-TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAA-TC
*
4979420 C-TATAC-CCCTGAAGATGCAGTAGGAG
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAG
4979446 GGAATGAGGC
Statistics
Matches: 193, Mismatches: 45, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
43 4 0.02
44 78 0.40
45 59 0.31
46 52 0.27
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATC
Found at i:4979345 original size:45 final size:46
Alignment explanation
Indices: 4979196--4979356 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 46
4979186 GATAGCAGAT
* * ** **
4979196 CTTATATCCCTGAAGTTGCATTGGAGC-AGAT-CGAAGCCACAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAAATACACAATC
* *
4979240 CTTATCTCCCTGAAGTTGCAATGGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAAATACACAATC
* * * * *
4979286 CTTATCTCCCTGAAGCTGCAGTGGAGCAGGTTAAAATTAC-CAATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAAATACACAATC
* * *
4979331 CTTATATCCTTGAAGTTACAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
4979357 TAGATCGAAG
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 25 0.26
45 29 0.30
46 43 0.44
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAAATACACAATC
Found at i:4980841 original size:23 final size:24
Alignment explanation
Indices: 4980786--4980842 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
4980776 TTCAACCCTT
* *
4980786 TTTATGTTTAAAATTTATTTATTTA
1 TTTATCTTT-AAATTTATATATTTA
*
4980811 TCT-TCTTTAAATTTATATA-TTA
1 TTTATCTTTAAATTTATATATTTA
4980833 TTTATCTTTA
1 TTTATCTTTA
4980843 CTATTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 5 0.19
23 16 0.59
24 4 0.15
25 2 0.07
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATCTTTAAATTTATATATTTA
Found at i:4980850 original size:3 final size:3
Alignment explanation
Indices: 4980844--4980877 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
4980834 TTATCTTTAC
4980844 TAT TAT TAT TAT TAT TAT TA- TAT CTAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T
4980878 TATTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4984273 original size:22 final size:22
Alignment explanation
Indices: 4984245--4984289 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4984235 GTTATGAGAG
4984245 TAAATGTCACTTTTAGGTGGGT
1 TAAATGTCACTTTTAGGTGGGT
4984267 TAAATGTCACTTTTAGGTGGGT
1 TAAATGTCACTTTTAGGTGGGT
4984289 T
1 T
4984290 CGACTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (22 bp):
TAAATGTCACTTTTAGGTGGGT
Found at i:4985771 original size:24 final size:25
Alignment explanation
Indices: 4985744--4985793 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
4985734 TTTGAAATTT
4985744 AAAAATTATTTAAAAAA-TCATAAA
1 AAAAATTATTTAAAAAAGTCATAAA
* *
4985768 AAAATTTATTTAAAAAAGTTATAAA
1 AAAAATTATTTAAAAAAGTCATAAA
4985793 A
1 A
4985794 TTATGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAAATTATTTAAAAAAGTCATAAA
Found at i:4993890 original size:21 final size:22
Alignment explanation
Indices: 4993856--4993896 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
4993846 TGAAAAGTCA
4993856 AAAATTTGTCTAACTTTTTCCT
1 AAAATTTGTCTAACTTTTTCCT
4993878 AAAATTT-TCTAACTTTTTC
1 AAAATTTGTCTAACTTTTTC
4993897 TAACTGACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.51
Consensus pattern (22 bp):
AAAATTTGTCTAACTTTTTCCT
Found at i:5012890 original size:27 final size:27
Alignment explanation
Indices: 5012850--5012986 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
5012840 AGGAAGCGTC
*
5012850 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
5012877 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
5012903 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
5012931 TTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
5012958 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
5012985 CT
1 CT
5012987 AGTGACTTCG
Statistics
Matches: 96, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:5012929 original size:54 final size:54
Alignment explanation
Indices: 5012847--5012986 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
5012837 TGGAGGAAGC
5012847 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
5012901 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
5012955 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCT
5012987 AGTGACTTCG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:5013002 original size:81 final size:80
Alignment explanation
Indices: 5012851--5013008 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
5012841 GGAAGCGTCC
* *
5012851 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATG
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGACTATG
5012916 CCACAATTATCTGATT
66 CCACAA-TATCTGATT
* * *
5012932 TGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTAGTGACT-
1 TGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTAGTGACTA
*
5012994 TCGTCACAATATCTG
64 T-GCCACAATATCTG
5013009 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 51 0.75
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGACTATG
CCACAATATCTGATT
Found at i:5014581 original size:19 final size:19
Alignment explanation
Indices: 5014559--5014602 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
5014549 TTATTCATAA
5014559 TATTATATTT-TATTATTGT
1 TATTATATTTGTATT-TTGT
* *
5014578 TATTATGTTTGTATTTTTT
1 TATTATATTTGTATTTTGT
5014597 TATTAT
1 TATTAT
5014603 TTATTAGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
TATTATATTTGTATTTTGT
Found at i:5014847 original size:11 final size:11
Alignment explanation
Indices: 5014822--5014904 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
5014812 TAGATGTATA
5014822 TATATATTATG
1 TATATATTATG
5014833 --TATATTATG
1 TATATATTATG
5014842 TATATATT-T-
1 TATATATTATG
5014851 TAATATATTATG
1 T-ATATATTATG
* *
5014863 TGTATATTTTG
1 TATATATTATG
* *
5014874 TTTTGTATTTCATG
1 -TATATA-TT-ATG
*
5014888 TACATATTATG
1 TATATATTATG
5014899 TATATA
1 TATATA
5014905 CATTTAATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
9 10 0.18
10 8 0.15
11 23 0.42
12 7 0.13
13 5 0.09
14 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (11 bp):
TATATATTATG
Found at i:5014961 original size:3 final size:3
Alignment explanation
Indices: 5014953--5015009 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
5014943 TAAGTAATGT
* * *
5014953 TTA TTA TTA TTA TTA TCA TTA TCT- TTGCA TTT TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TT--A TTA TTA TTA TTA TTA TTA
5015000 TTA TTA TTA T
1 TTA TTA TTA T
5015010 ACCTTTCATT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 1 0.02
3 40 0.91
4 1 0.02
5 2 0.05
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5015037 original size:41 final size:38
Alignment explanation
Indices: 5014953--5015050 Score: 105
Period size: 38 Copynumber: 2.6 Consensus size: 38
5014943 TAAGTAATGT
* *
5014953 TTATTATTATTATTATCATTATCTTTGCATTTTTACTA
1 TTATTATTATTATTATTATTACCTTTGCATTTTTACTA
5014991 TTATTATTATTATTATTA-TACCTTT-CATTGTTATCACTA
1 TTATTATTATTATTATTATTACCTTTGCATT-TT-T-ACTA
*
5015030 TT-GTATTATTACTT-TTATTAC
1 TTATTATTATTA-TTATTATTAC
5015051 TATAACATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
36 4 0.08
37 8 0.15
38 29 0.56
39 11 0.21
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.59
Consensus pattern (38 bp):
TTATTATTATTATTATTATTACCTTTGCATTTTTACTA
Found at i:5017550 original size:28 final size:28
Alignment explanation
Indices: 5017510--5017565 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
5017500 TCCACAAACA
5017510 AGACTTAAATTAGATTCTAACTTTTCTC
1 AGACTTAAATTAGATTCTAACTTTTCTC
*
5017538 AGACTTAAATTAGATTTTAACTTTTCTC
1 AGACTTAAATTAGATTCTAACTTTTCTC
5017566 TCTCTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (28 bp):
AGACTTAAATTAGATTCTAACTTTTCTC
Found at i:5019698 original size:16 final size:17
Alignment explanation
Indices: 5019668--5019700 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5019658 AATAGAAAAA
*
5019668 AAGATAAAAATACAAAG
1 AAGAGAAAAATACAAAG
5019685 AAGAGAAAAA-ACAAAG
1 AAGAGAAAAATACAAAG
5019701 TTCAAAGCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
AAGAGAAAAATACAAAG
Found at i:5020432 original size:13 final size:13
Alignment explanation
Indices: 5020414--5020452 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5020404 TATTTGTTTC
5020414 TTTATATTTTTAT
1 TTTATATTTTTAT
* *
5020427 TTTATATTTTAAA
1 TTTATATTTTTAT
*
5020440 TTTATATTATTAT
1 TTTATATTTTTAT
5020453 GTATTCTGCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATTTTTAT
Found at i:5020492 original size:3 final size:3
Alignment explanation
Indices: 5020484--5020530 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
5020474 TCATTATTGC
* *
5020484 TAT TAT TAT TAT TAT TATT TAC TAT TAT TATT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT
5020531 CATTTCTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5020511 original size:13 final size:13
Alignment explanation
Indices: 5020484--5020528 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
5020474 TCATTATTGC
5020484 TATTA-TTATTAT
1 TATTATTTATTAT
*
5020496 TATTATTTACTAT
1 TATTATTTATTAT
5020509 TATTATTTATTAT
1 TATTATTTATTAT
*
5020522 CATTATT
1 TATTATT
5020529 ATCATTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 5 0.17
13 24 0.83
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:5020526 original size:16 final size:16
Alignment explanation
Indices: 5020484--5020530 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
5020474 TCATTATTGC
*
5020484 TATTATTATTATTA-T
1 TATTATCATTATTATT
5020499 TATT-TACTATTATTATT
1 TATTAT-C-ATTATTATT
5020516 TATTATCATTATTAT
1 TATTATCATTATTAT
5020531 CATTTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 15 0.56
17 6 0.22
18 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATCATTATTATT
Found at i:5020775 original size:3 final size:3
Alignment explanation
Indices: 5020760--5020819 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
5020750 CACTTGACTG
* * * *
5020760 TTA TTA CTA TTA TTA TTA TTA TT- TT- TTA TTG TTA TTA TTA TCA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5020806 TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TT
5020820 TGTTGATGGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5022729 original size:26 final size:26
Alignment explanation
Indices: 5022700--5022807 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
5022690 TGATACAAAT
5022700 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5022726 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5022752 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
5022778 TGGTAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
5022804 TGAT
1 TGAT
5022808 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5028642 original size:3 final size:3
Alignment explanation
Indices: 5028636--5028675 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5028626 TTTTTCTTTT
5028636 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5028676 AGAGGCTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5029299 original size:3 final size:3
Alignment explanation
Indices: 5029291--5029616 Score: 297
Period size: 3 Copynumber: 108.7 Consensus size: 3
5029281 ATTAATTAAA
* *
5029291 ATT ATT ATT ATT -TCT ACT ATT ATTT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * *
5029337 ACT ATT ATT ATT ATT ATT -TT ACT ATT ATT ATTT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* * * * *
5029382 AAT ATT ACT ACT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
5029429 ACT ATT ATT ATT ATT TTT ACT ATT ACT ATT ATT TTCT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* * *
5029475 ATT ATT ATT ACT ATC ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
5029523 -TT ACT ATT ATT ATT -TCGT ATC ATT ATT GTT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
5029568 ATT -TT -TT ACT ATT ATTT ATT ATT ATT GTT GTT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5029612 ATT AT
1 ATT AT
5029617 CTTTTTAATT
Statistics
Matches: 261, Mismatches: 49, Indels: 26
0.78 0.15 0.08
Matches are distributed among these distances:
2 12 0.05
3 236 0.90
4 12 0.05
5 1 0.00
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:5029722 original size:18 final size:18
Alignment explanation
Indices: 5029684--5029722 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5029674 TATTTGCTTA
* *
5029684 TTTATTTATTCTTTTAGT
1 TTTATTTATTATTTTACT
*
5029702 TTTATTTATTATTTTTCT
1 TTTATTTATTATTTTACT
5029720 TTT
1 TTT
5029723 TACTAGCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTATTTATTATTTTACT
Found at i:5031901 original size:15 final size:15
Alignment explanation
Indices: 5031875--5031919 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
5031865 TATGCATTCA
5031875 TGCATCTACATTACAT
1 TGCAT-TACATTACAT
5031891 TGCATTACATTACAT
1 TGCATTACATTACAT
*
5031906 TGCATCACA-TACAT
1 TGCATTACATTACAT
5031920 CACATTAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (15 bp):
TGCATTACATTACAT
Found at i:5034421 original size:46 final size:46
Alignment explanation
Indices: 5034354--5034523 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
5034344 TGTAACCCGC
* *
5034354 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
5034400 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * * *
5034450 -C-TCA-CGAACTTGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
5034493 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
5034524 ATCAGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:5034469 original size:93 final size:93
Alignment explanation
Indices: 5034361--5034533 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
5034351 CGCCCATAAG
* * *
5034361 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTAAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
* *
5034426 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGATCAGATGCCTAGTTACATCTCA
* *
5034454 CGAACTTGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
5034519 ACGAGATCAGATGCC
66 ACGAGATCAGATGCC
5034534 AAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGATCAGATGCCTAGTTACATCTCA
Found at i:5048505 original size:19 final size:20
Alignment explanation
Indices: 5048481--5048518 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
5048471 GTTCACTTTA
5048481 TTTTCTTTGTTT-TTCTCTT
1 TTTTCTTTGTTTCTTCTCTT
5048500 TTTTCTTTGTTTCTTCTCT
1 TTTTCTTTGTTTCTTCTCT
5048519 CGATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTCTTTGTTTCTTCTCTT
Found at i:5053454 original size:144 final size:143
Alignment explanation
Indices: 5053261--5053728 Score: 713
Period size: 143 Copynumber: 3.3 Consensus size: 143
5053251 TATAGCAAAC
* *
5053261 CTTATCTTCCTGAAGTTGCAACGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGACGTTGTA
1 CTTATCTCCCTGAAGTTGCAAAGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGACGTTGTA
* *
5053326 GTGGAACGGATTGAATATACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACGGATTGAAGATACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
5053391 TGAAGCCACCAAT
131 TGAAGCCACCAAT
* *
5053404 CTTATCTCCCTGAAGTTGCAATAGGAGCAGACTGAAGA-AATTGAATCTTATTTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAA-AGGAGCAGACTGAAGACAA-CGAATCTTATTTCCCTGACGTTG
* * ** * * * * *
5053468 CAATGGAATAGATTAAAGCTACAAATTATGGCGAATCTTATCTTTCTGAGGTTGTAGTGGAGCAG
64 TAGTGGAACGGATTGAAGATACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAG
*
5053533 ATTGAAGCCACCAGT
129 ATTGAAGCCACCAAT
* * *
5053548 GTTATCTCCCTAAAGTTGCAACGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGACGTTGTA
1 CTTATCTCCCTGAAGTTGCAAAGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGACGTTGTA
*
5053613 GTGGAACGAATTGAAGATACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACGGATTGAAGATACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
5053678 TGAAGCCACCAAT
131 TGAAGCCACCAAT
*
5053691 CTTATCTCCTTGAAGTTGCAATAGGAGCAGACTGAAGA
1 CTTATCTCCCTGAAGTTGCAA-AGGAGCAGACTGAAGA
5053729 TAGCGGACCC
Statistics
Matches: 285, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
143 145 0.51
144 140 0.49
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAAAGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGACGTTGTA
GTGGAACGGATTGAAGATACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAAT
Found at i:5053460 original size:46 final size:44
Alignment explanation
Indices: 5053357--5053474 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 44
5053347 AATTATGGCA
* * **
5053357 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCCACC
1 AATCTTAT-TTCCCTGAAGTTGCAATGGAGCAGACTGAAGAAACC
* **
5053401 AATCTTATCTCCCTGAAGTTGCAATAGGAGCAGACTGAAGAAATTG
1 AATCTTATTTCCCTGAAGTTGCAAT-GGAGCAGACTGAAGAAA-CC
5053447 AATCTTATTTCCCTGAAGTTGCAATGGA
1 AATCTTATTTCCCTGAAGTTGCAATGGA
5053475 ATAGATTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
43 1 0.02
44 21 0.33
45 17 0.27
46 24 0.38
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGCAATGGAGCAGACTGAAGAAACC
Found at i:5055196 original size:3 final size:3
Alignment explanation
Indices: 5055190--5055226 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5055180 TTATTTATTG
5055190 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
5055227 TATTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:5055231 original size:3 final size:3
Alignment explanation
Indices: 5055225--5055394 Score: 173
Period size: 3 Copynumber: 56.7 Consensus size: 3
5055215 CATCATCATC
* * **
5055225 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT ACT ATT ACC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
5055273 ATT ATT ATT ACT ATT ACT ATT ATT TTCT ATT ATT ATA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * *
5055319 AGT ATC ATT ATT ATT ATT ACT ATT ATT ATT -TT -TT ACT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * *
5055363 ATT ATT ATT GTT GTT ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
5055395 CTTTTTAATT
Statistics
Matches: 136, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
2 4 0.03
3 127 0.93
4 5 0.04
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:5055414 original size:65 final size:65
Alignment explanation
Indices: 5055230--5055394 Score: 170
Period size: 65 Copynumber: 2.5 Consensus size: 65
5055220 TCATCATTAT
* * ** * *
5055230 TATTATTATTATTATTATTATTATTTTTATTACTATTACCATTATTATTATTACTATTACTATTA
1 TATTATTATAATTATTATTAGTATCATTATTATTATTA--A-TATTATTATT--TTTTACTATTA
5055295 TTTTC
61 TTTTC
*
5055300 TATTATTATAATTATTATTAGTATCATTATTATTATTACTATTATTATTTTTTACTATTATTTAT
1 TATTATTATAATTATTATTAGTATCATTATTATTATTAATATTATTATTTTTTACTATTATTT-T
5055365 -
65 C
* ** *
5055365 TATTATTGTTGTTATTATTATTATCATTAT
1 TATTATTATAATTATTATTAGTATCATTAT
5055395 CTTTTTAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
65 39 0.47
66 1 0.01
67 10 0.12
70 33 0.40
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (65 bp):
TATTATTATAATTATTATTAGTATCATTATTATTATTAATATTATTATTTTTTACTATTATTTTC
Found at i:5059737 original size:28 final size:31
Alignment explanation
Indices: 5059695--5059757 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 31
5059685 ATTATATTTG
5059695 TAAAATTTTATAAATA-AT-TT-TAATAAAA
1 TAAAATTTTATAAATATATATTATAATAAAA
*
5059723 TAAAATTTT-TAAAATATATATTATAATTAAA
1 TAAAATTTTAT-AAATATATATTATAATAAAA
5059754 TAAA
1 TAAA
5059758 TTTATTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.03
28 14 0.47
29 2 0.07
30 2 0.07
31 11 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAAATTTTATAAATATATATTATAATAAAA
Found at i:5062087 original size:144 final size:147
Alignment explanation
Indices: 5061812--5062108 Score: 447
Period size: 144 Copynumber: 2.0 Consensus size: 147
5061802 TCATATAAGT
* *
5061812 AAAGAGATCTATTCATTGATAAGAAAAACAAAAAACATGAGTAGTGATTGGATTGATGATAAAAT
1 AAAGAGATCTATTCATTGATAAG-AAAACAAAAAACATGAGTAGTAATTGGATTGATAATAAAAT
* * * * * *
5061877 AAAACCTTGGATCACGAATAGTGATTCGATTAATGATAAAGAAATAAATTTTTTTATTCTGTTTT
65 AAAACCTTGGATCACGAACAGTGATTCGATTAATGATAAAGAAATAAAATTCTTGATTCAGATTT
5061942 CCACCTTAACAA-AAAAA
130 CCACCTTAACAATAAAAA
*
5061959 AAAGAGATCTATTCATTGATAAG-AAA-AAAAAACGTGAGTAGTAATTGGATTGATAATAAAATA
1 AAAGAGATCTATTCATTGATAAGAAAACAAAAAACATGAGTAGTAATTGGATTGATAATAAAATA
* *
5062022 AAATCTTGGATCATGAACAGTGATTCGATTAATGATAAAGAAATAAAATTCTTGATTCAGATTTC
66 AAACCTTGGATCACGAACAGTGATTCGATTAATGATAAAGAAATAAAATTCTTGATTCAGATTTC
* *
5062087 CACTTTAACAATAGAAA
131 CACCTTAACAATAAAAA
5062104 AAAGA
1 AAAGA
5062109 ATTGATCAAA
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
144 101 0.74
145 12 0.09
147 23 0.17
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (147 bp):
AAAGAGATCTATTCATTGATAAGAAAACAAAAAACATGAGTAGTAATTGGATTGATAATAAAATA
AAACCTTGGATCACGAACAGTGATTCGATTAATGATAAAGAAATAAAATTCTTGATTCAGATTTC
CACCTTAACAATAAAAA
Found at i:5065797 original size:18 final size:18
Alignment explanation
Indices: 5065739--5065803 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 18
5065729 AAATATAAAT
5065739 TATTCTATTTATATTT-TA
1 TATT-TATTTATATTTATA
* **
5065757 T-TTTATATATATAAATAA
1 TATTTATTTATATTTAT-A
5065775 TTATTTATTTATATTTATA
1 -TATTTATTTATATTTATA
5065794 TATTTTATTT
1 TA-TTTATTT
5065804 GCTAACGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
16 8 0.22
17 3 0.08
18 4 0.11
19 9 0.25
20 12 0.33
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTATTTATATTTATA
Found at i:5070572 original size:34 final size:34
Alignment explanation
Indices: 5070529--5070601 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
5070519 GATGAGCGTA
5070529 TGGGACCTCTTACACACACTGACGTGTGGCCGTG
1 TGGGACCTCTTACACACACTGACGTGTGGCCGTG
5070563 TGGGACCTCTTACACACACTGACGTGTGGCCGTG
1 TGGGACCTCTTACACACACTGACGTGTGGCCGTG
5070597 TGGGA
1 TGGGA
5070602 TTCTGGGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (34 bp):
TGGGACCTCTTACACACACTGACGTGTGGCCGTG
Found at i:5074681 original size:7 final size:7
Alignment explanation
Indices: 5074666--5074738 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
5074656 TTTTTAACCT
*
5074666 TATTTTA
1 TATTATA
5074673 TATTATA
1 TATTATA
5074680 TATTATAA
1 TATTAT-A
* *
5074688 AATTATTT
1 TATTA-TA
5074696 TATTATA
1 TATTATA
5074703 TATTATTTCA
1 TATTA--T-A
5074713 TATTAT-
1 TATTATA
*
5074719 TATTATT
1 TATTATA
5074726 TATTATA
1 TATTATA
5074733 TATTAT
1 TATTAT
5074739 TTTCACAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
6 6 0.11
7 30 0.56
8 10 0.19
9 2 0.04
10 6 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTATA
Found at i:5074715 original size:10 final size:10
Alignment explanation
Indices: 5074665--5074739 Score: 59
Period size: 10 Copynumber: 7.5 Consensus size: 10
5074655 ATTTTTAACC
*
5074665 TTATTTTATA
1 TTATTATATA
5074675 TTATATATTATA
1 TTAT-TA-TATA
**
5074687 AAATTAT-T-
1 TTATTATATA
5074695 TTATTATATA
1 TTATTATATA
5074705 TTATT-TCATA
1 TTATTAT-ATA
5074715 TTATTAT-TA
1 TTATTATATA
5074724 TTTATTATATA
1 -TTATTATATA
5074735 TTATT
1 TTATT
5074740 TTCACAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 5 0.10
9 5 0.10
10 30 0.58
11 6 0.12
12 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATTATATA
Found at i:5074751 original size:30 final size:31
Alignment explanation
Indices: 5074689--5074753 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 31
5074679 ATATTATAAA
* *
5074689 ATTATTTTATTATATATTATTTCATATTATT
1 ATTATTTTATTATATATTATTTCACATAATT
5074720 ATTA-TTTATTATATATTATTTTCACA-AATT
1 ATTATTTTATTATATATTA-TTTCACATAATT
5074750 ATTA
1 ATTA
5074754 ATATTTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTATTTTATTATATATTATTTCACATAATT
Found at i:5078782 original size:75 final size:75
Alignment explanation
Indices: 5078683--5078829 Score: 267
Period size: 75 Copynumber: 2.0 Consensus size: 75
5078673 ATAATTAGAA
*
5078683 TGTCGTAACCATTTTTTAAAAAAAAAACGGGAATCGACTTGGATTTTGAAAATAAAAGAACGGGA
1 TGTCGTAACCATTTTTTAAAAAAAAAAAGGGAATCGACTTGGATTTTGAAAATAAAAGAACGGGA
5078748 GTCGCCATGC
66 GTCGCCATGC
**
5078758 TGTCGTAACCATTTTTTTGAAAAAAAAAGGGAATCGACTTGGATTTTGAAAATAAAAGAACGGGA
1 TGTCGTAACCATTTTTTAAAAAAAAAAAGGGAATCGACTTGGATTTTGAAAATAAAAGAACGGGA
5078823 GTCGCCA
66 GTCGCCA
5078830 CCGATCCTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (75 bp):
TGTCGTAACCATTTTTTAAAAAAAAAAAGGGAATCGACTTGGATTTTGAAAATAAAAGAACGGGA
GTCGCCATGC
Found at i:5079851 original size:13 final size:13
Alignment explanation
Indices: 5079833--5079859 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5079823 AATAGAAGTA
5079833 ATAAGAAATATAT
1 ATAAGAAATATAT
5079846 ATAAGAAATATAT
1 ATAAGAAATATAT
5079859 A
1 A
5079860 CATACATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
ATAAGAAATATAT
Found at i:5080424 original size:3 final size:3
Alignment explanation
Indices: 5080418--5080486 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
5080408 GTGTAGTAAA
* *
5080418 AAT AAT AAT AAT -AT ATT AAT GAAT -AT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* *
5080462 AAC AGTT AAT -AT AAT AAT AAAT AAT
1 AAT A-AT AAT AAT AAT AAT -AAT AAT
5080487 GCTACAAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
2 6 0.11
3 40 0.75
4 7 0.13
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:5081465 original size:31 final size:31
Alignment explanation
Indices: 5081427--5081498 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
5081417 AGGAAAAATG
5081427 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
1 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
* *
5081458 GGTGGTGGAGTAGAGGCCACTTGCAGGCGTC
1 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
5081489 GGTGGTGGAG
1 GGTGGTGGAG
5081499 GGGTGGGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.17, C:0.18, G:0.47, T:0.18
Consensus pattern (31 bp):
GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
Found at i:5081948 original size:43 final size:43
Alignment explanation
Indices: 5081899--5082768 Score: 302
Period size: 44 Copynumber: 19.9 Consensus size: 43
5081889 TTTCAGCCTA
* * * *
5081899 TTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGTTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGATCTG
* * ** * *
5081942 TTACCCTACTGCTTA-GGGGTTTAGCTCAT-TATCTTCGATTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTTGATCTG
* * *
5081984 TTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTT-ATCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGAT-CTG
* * * * *
5082027 TTACCCTACTGCTTAGGGGTTTAAG-GCTCATCACTTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-GTAAATTT-GATCTG
* * *
5082071 TTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTT-AGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGA-TCTG
*
5082114 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA-TTT-GATCTG
* * ** ** ** ** *
5082159 CTT-CACTGCAACTTCAGGAAGACAAGAT-TCGCTGGATTCGATCTG
1 -TTACCCTACTGCTT-AGGGGGTTAAGATCT-G-TAAATTTGATCTG
* ** * * ** * * * * * *
5082204 TT-CCACTGCAACTTCAAGGAGACAAAATTTGTAATTTTCAGCCTA
1 TTACC-CTACTGCTT-AGGGGGTTAAGATCTGTAAATTTGA-TCTG
* * *
5082249 TTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTG-GCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGATC-TG
* ** *
5082292 TTACCCTACTGCTTAGGGGGTTAAAGCTCAT-TATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAATTTGATCTG
* * * * *
5082336 TTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTT-AGCCTA
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGA-TCTG
* * * ** *
5082379 TTACCCTACTGCTTAGGGGTTTAAGGCTCAT-CACCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAA-GATC-TGTAAATTTGATCTG
* * *
5082423 TTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTTTCAGTCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA-TTTGA-TCTG
* * ** ** ** * * *
5082468 CTT-CACTGCAACTTCAGGAAGACAAGAT-TCGCTAGATTCGATTTG
1 -TTACCCTACTGCTT-AGGGGGTTAAGATCT-G-TAAATTTGATCTG
* ** * *** * * * *
5082513 TT-CCACTGCAACTTCAGGGAGACCAGATCTGTAATTTTCAGCCTA
1 TTACC-CTACTGCTT-AGGGGGTTAAGATCTGTAAATTTGA-TCTG
* * * *
5082558 CTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTG-GCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGATC-TG
* ** *
5082601 TTACCCTACTGCTTAGGGGGTTAAAGCTCAT-TATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAATTTGATCTG
* * * * *
5082645 TTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTT-AGCCTA
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGA-TCTG
* * * * ** *
5082688 TTATCCTACTGCTTAGGGGTTTAAGGCTCAT-CACCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAA-GATC-TGTAAATTTGATCTG
*
5082732 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
5082769 TCAGTCTGCT
Statistics
Matches: 601, Mismatches: 176, Indels: 100
0.69 0.20 0.11
Matches are distributed among these distances:
42 47 0.08
43 203 0.34
44 204 0.34
45 106 0.18
46 36 0.06
47 5 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (43 bp):
TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTGATCTG
Found at i:5082096 original size:87 final size:85
Alignment explanation
Indices: 5081902--5082459 Score: 424
Period size: 87 Copynumber: 6.4 Consensus size: 85
5081892 CAGCCTATTA
* * **
5081902 CCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGTTTGTTACCCTACTGCTTAGGGGTTT-AG
1 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* *
5081966 CTCATTATCTTCGATTTGTTT
66 CTCATAAT-TTCGATCTGTTT
* * * *
5081987 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTATCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAA-
*
5082052 GCTCATCACTTTCGATCTGTTT
65 GCTCAT-AATTTCGATCTGTTT
*
5082074 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* * * *
5082139 ATCTGTAAATTTTCAATCTGCTT
66 CTC-AT-AA-TTTCGATCTGTTT
* * * ** ** ** * * * ** *
5082162 CACTGCAACTTCAGGAAGACAAGAT-TCGCTGGA-TTCGATCTGTT-CCACTGCAACTTCAAGGA
1 CCCTACTACTT-AGGGGGTTAAGATCT-G-TAAATTTAG-CCTGTTACC-CTACTGCTT--AGGG
*** ** ** * * *
5082224 GACAAAATTTGTAATTTTC-AGCCTATTA
59 GTTTAAGCTCATAA-TTTCGA-TCTGTTT
* * * *
5082252 CCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAA
1 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA-GGGGTTTAA
*
5082317 GCTCATTATCTTCGATCTGTTT
65 GCTCATAAT-TTCGATCTGTTT
* * * *
5082339 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAA-
**
5082404 GCTCATCACCTTCGATCTGTTT
65 GCTCAT-AATTTCGATCTGTTT
* *
5082426 CCCTACTGCTTAGGGGGTTAAGATTTGTAAATTT
1 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTT
5082460 TCAGTCTGCT
Statistics
Matches: 364, Mismatches: 88, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
85 54 0.15
86 14 0.04
87 191 0.52
88 34 0.09
89 30 0.08
90 32 0.09
91 2 0.01
92 7 0.02
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (85 bp):
CCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
CTCATAATTTCGATCTGTTT
Found at i:5082440 original size:309 final size:309
Alignment explanation
Indices: 5082111--5082903 Score: 1460
Period size: 309 Copynumber: 2.6 Consensus size: 309
5082101 TAAATTTAGC
* *
5082111 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAATCTGCTTCACTGCAACTTCAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAGTCTGCTTCACTGCAACTTCAG
* * * *
5082176 GAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTTCAAGGAGACAAAATTTGTAATTT
66 GAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTTCAGGGAGACCAGATCTGTAATTT
5082241 TCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTT
131 TCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTT
5082306 AGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAAT
196 AGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAAT
5082371 TTAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGAT
261 TTAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGAT
*
5082420 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTTTCAGTCTGCTTCACTGCAACTTCAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAGTCTGCTTCACTGCAACTTCAG
* *
5082485 GAAGACAAGATTCGCTAGATTCGATTTGTTCCACTGCAACTTCAGGGAGACCAGATCTGTAATTT
66 GAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTTCAGGGAGACCAGATCTGTAATTT
*
5082550 TCAGCCTACTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTT
131 TCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTT
5082615 AGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAAT
196 AGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAAT
*
5082680 TTAGCCTATTATCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGAT
261 TTAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGAT
*
5082729 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAGTCTGCTTTACTGCAACTTCAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAGTCTGCTTCACTGCAACTTCAG
5082794 GAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTTCAGGGAGACCAGATCTGTAATTT
66 GAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTTCAGGGAGACCAGATCTGTAATTT
* *
5082859 TTAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCCGTAAATTT
131 TCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTT
5082904 ACTGATTCTA
Statistics
Matches: 466, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
309 466 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (309 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTTCAGTCTGCTTCACTGCAACTTCAG
GAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTTCAGGGAGACCAGATCTGTAATTT
TCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTT
AGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAAT
TTAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGAT
Found at i:5082447 original size:44 final size:44
Alignment explanation
Indices: 5082249--5082447 Score: 163
Period size: 43 Copynumber: 4.6 Consensus size: 44
5082239 TTTCAGCCTA
* * * * *
5082249 TTACCCTACTACTTAGGGGGTTAAGG-TCTGTAAATTTGGCT-TG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTC-ATAAACTTCGATCTG
* * *
5082292 TTACCCTACTGCTTAGGGGGTTAAAGCTCATTATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTCATAAACTTCGATCTG
* * * * * * * * *
5082336 TTTCCCTACTGCTTAGGGTGATAA-GATCTGTAAATTTAG-CCTA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTC-ATAAACTTCGATCTG
* * *
5082379 TTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTCATAAACTTCGATCTG
*
5082423 TTTCCCTACTGCTTAGGGGGTTAAG
1 TTACCCTACTGCTTAGGGGGTTAAG
5082448 ATTTGTAAAT
Statistics
Matches: 118, Mismatches: 33, Indels: 9
0.74 0.21 0.06
Matches are distributed among these distances:
43 60 0.51
44 58 0.49
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTTAAGGCTCATAAACTTCGATCTG
Found at i:5082717 original size:87 final size:87
Alignment explanation
Indices: 5082561--5082768 Score: 308
Period size: 87 Copynumber: 2.4 Consensus size: 87
5082551 CAGCCTACTA
* * * * *
5082561 CCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAAA
* *
5082626 GCTCATTATCTTCGATCTGTTT
66 GCTCATCACCTTCGATCTGTTT
* * * * *
5082648 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTATTATCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAAA
5082713 GCTCATCACCTTCGATCTGTTT
66 GCTCATCACCTTCGATCTGTTT
5082735 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
5082769 TCAGTCTGCT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 107 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAAA
GCTCATCACCTTCGATCTGTTT
Found at i:5087602 original size:18 final size:18
Alignment explanation
Indices: 5087579--5087622 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
5087569 TTCTTCCAAG
5087579 TCCTTTCCCTGGCAAGGC
1 TCCTTTCCCTGGCAAGGC
5087597 TCCTTTCCCTGGCAAGGC
1 TCCTTTCCCTGGCAAGGC
*
5087615 TCCCTTCC
1 TCCTTTCC
5087623 TAACCATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.43, G:0.18, T:0.30
Consensus pattern (18 bp):
TCCTTTCCCTGGCAAGGC
Found at i:5093677 original size:74 final size:74
Alignment explanation
Indices: 5093556--5093713 Score: 289
Period size: 74 Copynumber: 2.1 Consensus size: 74
5093546 TATCCCCAGC
5093556 GGAGTCGCCAAGCTGTCGTAACCATTTTTTAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
1 GGAGTCGCCAAGCTGTCGTAACCATTTTTTAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
5093621 AAAAGAACG
66 AAAAGAACG
* **
5093630 GGAGTCGCCATGCTGTCGTAACCATTTTTTTGAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
1 GGAGTCGCCAAGCTGTCGTAACCATTTTTTAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
5093695 AAAAGAACG
66 AAAAGAACG
5093704 GGAGTCGCCA
1 GGAGTCGCCA
5093714 CCGATCTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (74 bp):
GGAGTCGCCAAGCTGTCGTAACCATTTTTTAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
AAAAGAACG
Found at i:5093776 original size:12 final size:12
Alignment explanation
Indices: 5093759--5093783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5093749 CATAAAAGTG
5093759 GTTGTCCGCCGT
1 GTTGTCCGCCGT
5093771 GTTGTCCGCCGT
1 GTTGTCCGCCGT
5093783 G
1 G
5093784 CCGGCCGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (12 bp):
GTTGTCCGCCGT
Found at i:5094191 original size:31 final size:31
Alignment explanation
Indices: 5094153--5094224 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
5094143 AGGAAAAATG
*
5094153 GGTGGTGGAGTAGAGGCCACTTGCAGGCATC
1 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
*
5094184 GGTGGTGGAGCAGAGGCCACTTGCAGGCGTC
1 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
5094215 GGTGGTGGAG
1 GGTGGTGGAG
5094225 GGGTGGGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.17, C:0.18, G:0.47, T:0.18
Consensus pattern (31 bp):
GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
Found at i:5096050 original size:55 final size:55
Alignment explanation
Indices: 5095946--5096056 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 55
5095936 TATTATTAAC
5095946 TATTGAAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
1 TATTGAAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
5096001 TATTGAAAATAAAATATTTGAAAGAAGTTTTATTAGTATAT-TTTTTTTCAAATCG
1 TATTG-AAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
5096056 T
1 T
5096057 CAAAATTAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 20 0.36
56 35 0.64
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (55 bp):
TATTGAAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
Found at i:5100327 original size:30 final size:31
Alignment explanation
Indices: 5100291--5100359 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 31
5100281 ATGTTATTTT
5100291 AGTTTATAGTTCAAATATTTTAATTATAAAA
1 AGTTTATAGTTCAAATATTTTAATTATAAAA
5100322 A-TTTATAGTTCAAATATTTTAATTATAAAA
1 AGTTTATAGTTCAAATATTTTAATTATAAAA
5100352 AGTTTATA
1 AGTTTATA
5100360 TAAATTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (31 bp):
AGTTTATAGTTCAAATATTTTAATTATAAAA
Found at i:5100340 original size:15 final size:15
Alignment explanation
Indices: 5100293--5100340 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
5100283 GTTATTTTAG
5100293 TTTATAGTTCAAATA
1 TTTATAGTTCAAATA
* * *
5100308 TTT-TAATTATAAAAA
1 TTTATAGTT-CAAATA
5100323 TTTATAGTTCAAATA
1 TTTATAGTTCAAATA
5100338 TTT
1 TTT
5100341 TAATTATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (15 bp):
TTTATAGTTCAAATA
Found at i:5101270 original size:58 final size:58
Alignment explanation
Indices: 5101200--5101317 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
5101190 CCTGAACTGA
*
5101200 TTGGTATACCGTCAGAGTTTTTCCTCCGTTAAAACCAAATCCAACAGAGGTTGAGGCT
1 TTGGTATACCGTCAGAGTTTTTCCTCCATTAAAACCAAATCCAACAGAGGTTGAGGCT
*
5101258 TTGGTATACCGTCGGAGTTTTTCCTCCATTAAAACCAAATCCAACAGAGGTTGAGGCT
1 TTGGTATACCGTCAGAGTTTTTCCTCCATTAAAACCAAATCCAACAGAGGTTGAGGCT
5101316 TT
1 TT
5101318 CTTTTTTATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (58 bp):
TTGGTATACCGTCAGAGTTTTTCCTCCATTAAAACCAAATCCAACAGAGGTTGAGGCT
Found at i:5104034 original size:19 final size:20
Alignment explanation
Indices: 5103999--5104044 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
5103989 AATAAAAATA
*
5103999 AATAAAATTTATTAAATTTT
1 AATAAAATATATTAAATTTT
5104019 AATAAAATAT-TTAAATTTT
1 AATAAAATATATTAAATTTT
*
5104038 ATTAAAA
1 AATAAAA
5104045 AATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAAAATATATTAAATTTT
Found at i:5104053 original size:19 final size:18
Alignment explanation
Indices: 5104012--5104075 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 18
5104002 AAAATTTATT
* **
5104012 AAATTTTAATAAAATATTT
1 AAATTTT-ATAAAAAATAA
5104031 AAATTTTATTAAAAAATAA
1 AAATTTTA-TAAAAAATAA
5104050 AAA--TTATAAAAATCATAA
1 AAATTTTATAAAAA--ATAA
5104068 AAATTTTA
1 AAATTTTA
5104076 ATTTTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.16
17 3 0.08
18 8 0.22
19 17 0.46
20 3 0.08
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTATAAAAAATAA
Found at i:5104443 original size:29 final size:29
Alignment explanation
Indices: 5104388--5104460 Score: 71
Period size: 32 Copynumber: 2.5 Consensus size: 29
5104378 CATGCACCCA
*
5104388 TTTTCTATAATTCTTTTTATAACTTTTAATAT
1 TTTTCTATAATT-TTTATATAACTTTT--TAT
*
5104420 TTTTCTATAATTTTTAT-TGA-TTTTTAT
1 TTTTCTATAATTTTTATATAACTTTTTAT
*
5104447 TTTT-TATTATTTTT
1 TTTTCTATAATTTTT
5104461 CGTCACATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 9 0.24
27 7 0.18
29 4 0.11
30 2 0.05
31 4 0.11
32 12 0.32
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (29 bp):
TTTTCTATAATTTTTATATAACTTTTTAT
Found at i:5104596 original size:19 final size:19
Alignment explanation
Indices: 5104574--5104673 Score: 77
Period size: 19 Copynumber: 5.4 Consensus size: 19
5104564 TTTTTGATAT
5104574 ATTTTATATATTTTTTACA
1 ATTTTATATATTTTTTACA
*
5104593 ATTTT-TATAATTTTTTACG
1 ATTTTATAT-ATTTTTTACA
*
5104612 ATTTT-TTTATTTTTT-CTA
1 ATTTTATATATTTTTTAC-A
*
5104630 ATTTTTATATTTTTATTTA-A
1 A-TTTTATATATTT-TTTACA
* *
5104650 ATTTAATA-ATTTTATA-A
1 ATTTTATATATTTTTTACA
5104667 ATTTTAT
1 ATTTTAT
5104674 TGATTTTATT
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
17 11 0.17
18 14 0.21
19 31 0.47
20 7 0.11
21 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
ATTTTATATATTTTTTACA
Found at i:5104606 original size:28 final size:27
Alignment explanation
Indices: 5104564--5104671 Score: 83
Period size: 28 Copynumber: 3.8 Consensus size: 27
5104554 TTAAAAAGTC
5104564 TTTTTGATATATTTTATATATTTTTTACAA
1 TTTTT-ATA-ATTTTATATATTTTTTA-AA
* * * *
5104594 TTTTTATAATTTTTTACGATTTTTTTAT
1 TTTTTATAATTTTATA-TATTTTTTAAA
* *
5104622 TTTTTCTAATTTTTATATTTTTATTTAAA
1 TTTTTATAA-TTTTATATATTT-TTTAAA
* *
5104651 -TTTAATAATTTTATAAATTTT
1 TTTTTATAATTTTATATATTTT
5104672 ATTGATTTTA
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
26 1 0.02
27 10 0.16
28 25 0.41
29 20 0.33
30 5 0.08
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTATAATTTTATATATTTTTTAAA
Found at i:5105194 original size:31 final size:29
Alignment explanation
Indices: 5105158--5105226 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
5105148 CTTAGGCTAA
5105158 TATTTTAGTTAAGTTT-T-GTTATTTTTATTAT
1 TATTTTA-TT-AGTTTCTAGTTA-TTTTATT-T
*
5105189 TATTTTATTTGTTTCTAGTTATTTTATTT
1 TATTTTATTAGTTTCTAGTTATTTTATTT
5105218 TATTTTATT
1 TATTTTATT
5105227 TTTCCTCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 14 0.40
30 10 0.29
31 11 0.31
ACGTcount: A:0.20, C:0.01, G:0.07, T:0.71
Consensus pattern (29 bp):
TATTTTATTAGTTTCTAGTTATTTTATTT
Found at i:5105199 original size:24 final size:23
Alignment explanation
Indices: 5105172--5105229 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
5105162 TTAGTTAAGT
5105172 TTTGTTATTTTTATTATTATTTTA
1 TTTGTTATTTTTATT-TTATTTTA
*
5105196 TTTGTT-TCTAGTTATTTTATTTTA
1 TTTGTTAT-T-TTTATTTTATTTTA
5105220 -TT-TTATTTTT
1 TTTGTTATTTTT
5105230 CCTCTTGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 4 0.14
24 15 0.52
25 5 0.17
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (23 bp):
TTTGTTATTTTTATTTTATTTTA
Found at i:5109078 original size:21 final size:21
Alignment explanation
Indices: 5109054--5109098 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5109044 TACACGCCTA
* *
5109054 TGTGGAGGCCACACACACTCG
1 TGTGAAGGCCACACACACCCG
* *
5109075 TGTGAAGGCCCCACATACCCG
1 TGTGAAGGCCACACACACCCG
5109096 TGT
1 TGT
5109099 AGATAGGGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
TGTGAAGGCCACACACACCCG
Found at i:5110242 original size:27 final size:27
Alignment explanation
Indices: 5110191--5110270 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
5110181 GTGACAGAGT
*
5110191 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
5110220 CACCAGAAGAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
*
5110247 CACCAAAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
5110271 TAGCCACTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 22 0.50
28 15 0.34
29 7 0.16
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:5110433 original size:28 final size:28
Alignment explanation
Indices: 5110386--5110478 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
5110376 AAATTAACCC
* *
5110386 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
5110414 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
5110442 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
5110470 TAGGGGTAT
1 TAGGGGTAT
5110479 TCTAGTACAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:5110741 original size:8 final size:8
Alignment explanation
Indices: 5110725--5110756 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
5110715 CCTAAAATAC
5110725 CGGCTTTT
1 CGGCTTTT
*
5110733 CGGCATTT
1 CGGCTTTT
5110741 CGGCTTTT
1 CGGCTTTT
5110749 CGGCTTTT
1 CGGCTTTT
5110757 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:5115319 original size:11 final size:12
Alignment explanation
Indices: 5115275--5115319 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
5115265 TATCTCTTTT
5115275 ATAATTATATAA
1 ATAATTATATAA
*
5115287 A-AATTATATTA
1 ATAATTATATAA
5115298 ATAA--ATATAA
1 ATAATTATATAA
5115308 ATAATT-TATAA
1 ATAATTATATAA
5115319 A
1 A
5115320 GAAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTATATAA
Found at i:5115701 original size:25 final size:25
Alignment explanation
Indices: 5115673--5115723 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5115663 TAATTTGAAA
*
5115673 AAACTTGCAAGAAGGGTATAGCAAG
1 AAACTTGCAAGAAGGGCATAGCAAG
* * *
5115698 AAACTTGTAGGAAGGGCATAGGAAG
1 AAACTTGCAAGAAGGGCATAGCAAG
5115723 A
1 A
5115724 GGGTTGGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.31, T:0.16
Consensus pattern (25 bp):
AAACTTGCAAGAAGGGCATAGCAAG
Found at i:5116844 original size:14 final size:14
Alignment explanation
Indices: 5116827--5116863 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5116817 CACATACAAA
5116827 ACTAAATGGGTTCT
1 ACTAAATGGGTTCT
*
5116841 ACTAAATGGGTTTT
1 ACTAAATGGGTTCT
*
5116855 ACTAGATGG
1 ACTAAATGG
5116864 TGAGAGGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (14 bp):
ACTAAATGGGTTCT
Found at i:5117373 original size:122 final size:122
Alignment explanation
Indices: 5117156--5117399 Score: 470
Period size: 122 Copynumber: 2.0 Consensus size: 122
5117146 AAAAAAGAGG
5117156 CGTCCCCAAGATCTTTCATCTCAAAATGCTTGGATAAAAATCTCTTGGTTTCATGCAATAAGCCT
1 CGTCCCCAAGATCTTTCATCTCAAAATGCTTGGATAAAAATCTCTTGGTTTCATGCAATAAGCCT
*
5117221 ATATCATTAGTGGCAAGCAAAATGTCATCAACATATAGAACTAGAAATATGTACTTA
66 ATATAATTAGTGGCAAGCAAAATGTCATCAACATATAGAACTAGAAATATGTACTTA
5117278 CGTCCCCAAGATCTTTCATCTCAAAATGCTTGGATAAAAATCTCTTGGTTTCATGCAATAAGCCT
1 CGTCCCCAAGATCTTTCATCTCAAAATGCTTGGATAAAAATCTCTTGGTTTCATGCAATAAGCCT
*
5117343 ATATAATTAGTGGCAAGCAAAATGTCATCAACATATAGAATTAGAAATATGTACTTA
66 ATATAATTAGTGGCAAGCAAAATGTCATCAACATATAGAACTAGAAATATGTACTTA
5117400 TTCCCATTGA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (122 bp):
CGTCCCCAAGATCTTTCATCTCAAAATGCTTGGATAAAAATCTCTTGGTTTCATGCAATAAGCCT
ATATAATTAGTGGCAAGCAAAATGTCATCAACATATAGAACTAGAAATATGTACTTA
Found at i:5121465 original size:42 final size:42
Alignment explanation
Indices: 5121418--5121507 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
5121408 GCATGATTAC
5121418 TCATAAAGAGGTGGCCAAAAACATAAATTACTTAATAAAAAT
1 TCATAAAGAGGTGGCCAAAAACATAAATTACTTAATAAAAAT
5121460 TCATAAAGAGGTGGCCAAAAACATAAATTACTTAATAAAAAT
1 TCATAAAGAGGTGGCCAAAAACATAAATTACTTAATAAAAAT
5121502 T-ATAAA
1 TCATAAA
5121508 ACCTAAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 5 0.10
42 43 0.90
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.24
Consensus pattern (42 bp):
TCATAAAGAGGTGGCCAAAAACATAAATTACTTAATAAAAAT
Found at i:5121590 original size:25 final size:25
Alignment explanation
Indices: 5121562--5121614 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
5121552 AAAGTAATTT
*
5121562 AAAAAGATAAATAAAGATAA-AAATA
1 AAAAAAATAAA-AAAGATAATAAATA
5121587 AAAAAAATAAAAAAGATAATAAATA
1 AAAAAAATAAAAAAGATAATAAATA
5121612 AAA
1 AAA
5121615 GTCTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (25 bp):
AAAAAAATAAAAAAGATAATAAATA
Found at i:5123328 original size:44 final size:44
Alignment explanation
Indices: 5123258--5124056 Score: 417
Period size: 44 Copynumber: 17.6 Consensus size: 44
5123248 TACCATGGCG
* * *
5123258 AATCTTATCTCCCTGAAATTGCAGTGGAACAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
5123302 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * ** *
5123347 AATCTTATCTCTCTGAAGTTGTAGTGAAGCAGATTAAAGCCATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * *
5123391 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTATTATGGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---TTA---CA
* * * * * *
5123441 AATCTTATCTCACTGAGGTTGCAGTGGAGTAGATTGAAATCACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * * *
5123485 AACCTTATCTCCCTTAAGTTGTAGTGGAGCAGGTTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTACA
**
5123530 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
** * * *
5123574 AATCCCATAC-CCTTGAAATTGCAGTGG-GATAGATTGAAGTTACTA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGTTAC-A
* ** * *
5123619 TGGCGAATCTTATCTCCCTGAGGTTGCAGCAGAGCAGATTGAAGTCACG
1 -----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * *
5123668 AACCTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTACA
* * * *
5123713 AATCTTATCTCCTTGAAATTGCATTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
** ** * * * *
5123757 AATCCCATAC-CTTTGAAGTTACAAT-GAG-ATGGATTAAAGTTATTA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA--GATTGAAGTTA-CA
* ** * ** *
5123802 TGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCCACT
1 -----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * *
5123851 AACCTTATCTCCCTAAAGTTGCAATAGG-GTA-AGTTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGA-TTGAAG-TTACA
* * * * *
5123896 AATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * * * * *
5123941 AATCTCATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * ** *
5123985 AATCTCATCTCACTGAAGTTGCAGTGG-GACAAAATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-C-AGATTGAAGTTACA
*
5124030 AATCTTATCTCCCTGAAGTTGTAGTGG
1 AATCTTATCTCCCTGAAGTTGCAGTGG
5124057 GTTAGAATGA
Statistics
Matches: 571, Mismatches: 145, Indels: 77
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.00
43 5 0.01
44 255 0.45
45 210 0.37
46 1 0.00
47 3 0.01
49 2 0.00
50 90 0.16
51 3 0.01
52 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
Found at i:5123401 original size:89 final size:89
Alignment explanation
Indices: 5123258--5124056 Score: 295
Period size: 89 Copynumber: 8.8 Consensus size: 89
5123248 TACCATGGCG
* * * *** * *
5123258 AATCTTATCTCCCTGAAATTGCAGTGGAA-CAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCACTGAAGTTGCAGT-GAAGCAGATTGAAACCACAAATCTTATCTCCCTAAAGTT
*
5123322 GTAGTGGAGCAGACTGAAGATAGCA
65 GTAGTGGAGCAGATTGAAGATAGCA
* * *
5123347 AATCTTATCTCTCTGAAGTTGTAGTGAAGCAGATT-AAAGCCATAAATCTTATCTCCCTAAAGTT
1 AATCTTATCTCACTGAAGTTGCAGTGAAGCAGATTGAAA-CCACAAATCTTATCTCCCTAAAGTT
** *
5123411 ACAGTGGAGTAGATTGAAGTTATTATGGCA
65 GTAGTGGAGCAGATTGAAG--A-TA--GCA
* * * * * * *
5123441 AATCTTATCTCACTGAGGTTGCAGTGGAGTAGATTGAAATCACGAACCTTATCTCCCTTAAGTTG
1 AATCTTATCTCACTGAAGTTGCAGTGAAGCAGATTGAAACCACAAATCTTATCTCCCTAAAGTTG
* * * *
5123506 TAGTGGAGCAGGTTAAAAATAACA
66 TAGTGGAGCAGATTGAAGATAGCA
* * *** ** *
5123530 AATCTTATCTCCCTGAAGTTGCAGTGGAA-TAGATTGAAGTTACAAATCCCATAC-CCTTGAAA-
1 AATCTTATCTCACTGAAGTTGCAGT-GAAGCAGATTGAAACCACAAATCTTAT-CTCCCT-AAAG
* * *
5123592 TTGCAGTGG-GATAGATTGAAGTTACTATGGCG
63 TTGTAGTGGAG-CAGATTGAAG--A-TA--GCA
* * * ** * * *
5123624 AATCTTATCTCCCTGAGGTTGCAG-CAGAGCAGATTGAAGTCACGAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCACTGAAGTTGCAGTGA-AGCAGATTGAAACCACAAATCTTATCTCCCTAAAGTT
* * * * *
5123688 GAAGTGGAGCAGGTTAAAAATAACA
65 GTAGTGGAGCAGATTGAAGATAGCA
* * * * *** ** ** *
5123713 AATCTTATCTC-CTTGAAATTGCATTGGAGTAGATTGAAGTTACAAATCCCATAC-CTTTGAAGT
1 AATCTTATCTCAC-TGAAGTTGCAGTGAAGCAGATTGAAACCACAAATCTTAT-CTCCCTAAAGT
** * * **
5123776 TACAAT-GAG-ATGGATTAAAGTTATTATGGTG
64 TGTAGTGGAGCA--GATTGAAG--A-TA--GCA
* * * * *
5123807 AATCTTATCTCCCTGAAGTTGTAGTGGAA-TAGATT-AAAGCCACTAACCTTATCTCCCTAAAGT
1 AATCTTATCTCACTGAAGTTGCAGT-GAAGCAGATTGAAA-CCACAAATCTTATCTCCCTAAAGT
* * * * *
5123870 TGCAATAGG-GTA-AGTTGAAGATAACG
64 TGTAGT-GGAGCAGA-TTGAAGATAGCA
* * * * * * *
5123896 AATCTTATTTCCCTGAAGTTGCAGT-AGAGTAGATTGAAGA-TAGAAAATCTCATCTCTCTAAAG
1 AATCTTATCTCACTGAAGTTGCAGTGA-AGCAGATTGAA-ACCA-CAAATCTTATCTCCCTAAAG
* * * *
5123959 TTGTAGTAGAGCAGATTAAAGCTA-TA
63 TTGTAGTGGAGCAGATTGAAGATAGCA
* * * * * *
5123985 AATCTCATCTCACTGAAGTTGCAGTG-GGACAAAATTGAAGCCACTAATCTTATCTCCCTGAAGT
1 AATCTTATCTCACTGAAGTTGCAGTGAAG-C-AGATTGAAACCACAAATCTTATCTCCCTAAAGT
5124049 TGTAGTGG
64 TGTAGTGG
5124057 GTTAGAATGA
Statistics
Matches: 524, Mismatches: 135, Indels: 102
0.69 0.18 0.13
Matches are distributed among these distances:
87 2 0.00
88 12 0.02
89 253 0.48
90 45 0.09
91 11 0.02
92 10 0.02
93 8 0.02
94 173 0.33
95 8 0.02
96 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCACTGAAGTTGCAGTGAAGCAGATTGAAACCACAAATCTTATCTCCCTAAAGTTG
TAGTGGAGCAGATTGAAGATAGCA
Found at i:5123467 original size:139 final size:139
Alignment explanation
Indices: 5123304--5123571 Score: 342
Period size: 139 Copynumber: 1.9 Consensus size: 139
5123294 AAGTTACAAG
* * * *
5123304 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAT-AGCAAATCTTATCTCTCTGAAGTTG
1 TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTGAA-ATCA-CAAACCTTATCTCCCTGAAGTTG
* * * *
5123368 TAGTGAAGCAGATT-AAAGCCATAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTT
64 TAGTGAAGCAGATTAAAAACAACAAATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGTT
5123432 ATTATGGCAAA
129 ATTATGGCAAA
* * * * *
5123443 TCTTATCTCACTGAGGTTGCAGTGGAGTAGATTGAAATCACGAACCTTATCTCCCTTAAGTTGTA
1 TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTGAAATCACAAACCTTATCTCCCTGAAGTTGTA
* * * * *
5123508 GTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTA
66 GTGAAGCAGATTAAAAACAACAAATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGTTA
5123572 CAAATCCCAT
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
138 33 0.30
139 76 0.70
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (139 bp):
TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTGAAATCACAAACCTTATCTCCCTGAAGTTGTA
GTGAAGCAGATTAAAAACAACAAATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGTTAT
TATGGCAAA
Found at i:5123493 original size:94 final size:93
Alignment explanation
Indices: 5123252--5123933 Score: 340
Period size: 89 Copynumber: 7.5 Consensus size: 93
5123242 CAAATCTACC
* * * * * * ** *
5123252 ATGGCGAATCTTATCTCCCTGAAATTGCAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCACAAACCTTATCTCCCTA
** * *
5123317 AAGTTGTAGTGGAGCAGACTGAAG--AT
66 AAGTTACAGTGGAGTAGATTGAAGTTAT
* * * * * *
5123343 A--GCAAATCTTATCTCTCTGAAGTTGTAGTGAAGCAGATT-AAAGCCATAAATCTTATCTCCCT
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TCACAAACCTTATCTCCCT
5123405 AAAGTTACAGTGGAGTAGATTGAAGTTATT
65 AAAGTTACAGTGGAGTAGATTGAAGTTA-T
* * * * *
5123435 ATGGCAAATCTTATCTCACTGAGGTTGCAGTGGAGTAGATTGAAATCACGAACCTTATCTCCCTT
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCACAAACCTTATCTCCCTA
** * * *
5123500 AAGTTGTAGTGGAGCAGGTT-AA---AA
66 AAGTTACAGTGGAGTAGATTGAAGTTAT
** ** * * * *
5123524 ATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTACAAATCC-CATAC-CCT
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCACAAA-CCTTAT-CTCCC
*
5123587 TGAAA-TTGCAGTGG-GATAGATTGAAGTTACT
64 T-AAAGTTACAGTGGAG-TAGATTGAAGTTA-T
* * ** * * *
5123618 ATGGCGAATCTTATCTCCCTGAGGTTGCAGCAGAGCAGATTGAAGTCACGAACCTTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCACAAACCTTATCTCCCTA
* * *
5123683 AAGTTGA-AGTGGAGCAGGTT-AA---AA
66 AAGTT-ACAGTGGAGTAGATTGAAGTTAT
** * * * * * * * **
5123707 ATAACAAATCTTATCTCCTTGAAATTGCATTGGAGTAGATTGAAGTTACAAATCC-CATAC-CTT
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCACAAA-CCTTAT-CTCCC
* * * *
5123770 TGAAGTTACAAT-GAGATGGATTAAAGTTATT
64 TAAAGTTACAGTGGAG-TAGATTGAAGTTA-T
** * ** * *
5123801 ATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAATAGATT-AAAGCCACTAACCTTATCTCCCT
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TCACAAACCTTATCTCCCT
* *
5123865 AAAGTTGCAATAGG-GTA-AGTTGAAG--AT
65 AAAGTTACAGT-GGAGTAGA-TTGAAGTTAT
* * * * *
5123892 A--ACGAATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTGAA
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
5123934 GATAGAAAAT
Statistics
Matches: 444, Mismatches: 110, Indels: 75
0.71 0.17 0.12
Matches are distributed among these distances:
88 7 0.02
89 214 0.48
90 16 0.04
91 4 0.01
92 3 0.01
93 17 0.04
94 177 0.40
95 5 0.01
96 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (93 bp):
ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCACAAACCTTATCTCCCTA
AAGTTACAGTGGAGTAGATTGAAGTTAT
Found at i:5123778 original size:366 final size:366
Alignment explanation
Indices: 5123252--5123934 Score: 820
Period size: 366 Copynumber: 1.9 Consensus size: 366
5123242 CAAATCTACC
** * * *
5123252 ATGGCGAATCTTATCTCCCTGAAATTGCAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTG
1 ATGGCGAATCTTATCTCCCTGAAATTGCAGCAGAACAGATTGAAGTCACAAGCCTTATCTCCCTG
* * * * * *
5123317 AAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTGAAGCAGATT
66 AAGTTGAAGTGGAGCAGACTAAAAATAACAAATCTTATCTCTCTGAAATTGCAGTGAAGCAGATT
* ** * *
5123382 AAAGCCATAAATCTTATCTCCCTAAAGTTACAGTG-GAGTAGATTGAAGTTATTATGGCAAATCT
131 AAAGCCACAAATCCCATCTCCCTAAAGTTACAATGAGA-TAGATTAAAGTTATTATGGCAAATCT
* * * * * *
5123446 TATCTCACTGAGGTTGCAGTGGAGTAGATTGAAA-TCACGAACCTTATCTCCCTTAAGTTGTAGT
195 TATCTCACTGAAGTTGCAGTGGAATAGATT-AAAGCCACGAACCTTATCTCCCTAAAGTTGCAAT
* *
5123510 -GGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTACA
259 AGG-GCAAGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTGAAGTTACA
5123574 AATCCCATACCCTTGAAATTGCAGTGGGATAGATTGAAGTTACT
323 AATCCCATACCCTTGAAATTGCAGTGGGATAGATTGAAGTTACT
** *
5123618 ATGGCGAATCTTATCTCCCTGAGGTTGCAGCAGAGCAGATTGAAGTCACGAA-CCTTATCTCCCT
1 ATGGCGAATCTTATCTCCCTGAAATTGCAGCAGAACAGATTGAAGTCAC-AAGCCTTATCTCCCT
** * * *
5123682 GAAGTTGAAGTGGAGCAGGTTAAAAATAACAAATCTTATCTC-CTTGAAATTGCATTGGAGTAGA
65 GAAGTTGAAGTGGAGCAGACTAAAAATAACAAATCTTATCTCTC-TGAAATTGCAGTGAAGCAGA
* ** ** * * **
5123746 TTGAAGTTACAAATCCCATAC-CTTTGAAGTTACAATGAGATGGATTAAAGTTATTATGGTGAAT
129 TTAAAGCCACAAATCCCAT-CTCCCTAAAGTTACAATGAGATAGATTAAAGTTATTATGGCAAAT
* * *
5123810 CTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCCACTAACCTTATCTCCCTAAAGTTGCAA
193 CTTATCTCACTGAAGTTGCAGTGGAATAGATTAAAGCCACGAACCTTATCTCCCTAAAGTTGCAA
* * * * * *
5123875 TAGGGTAAGTTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTGAAG
258 TAGGGCAAGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTGAAG
5123935 ATAGAAAATC
Statistics
Matches: 261, Mismatches: 50, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
365 4 0.02
366 250 0.96
367 7 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (366 bp):
ATGGCGAATCTTATCTCCCTGAAATTGCAGCAGAACAGATTGAAGTCACAAGCCTTATCTCCCTG
AAGTTGAAGTGGAGCAGACTAAAAATAACAAATCTTATCTCTCTGAAATTGCAGTGAAGCAGATT
AAAGCCACAAATCCCATCTCCCTAAAGTTACAATGAGATAGATTAAAGTTATTATGGCAAATCTT
ATCTCACTGAAGTTGCAGTGGAATAGATTAAAGCCACGAACCTTATCTCCCTAAAGTTGCAATAG
GGCAAGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTGAAGTTACAAAT
CCCATACCCTTGAAATTGCAGTGGGATAGATTGAAGTTACT
Found at i:5123928 original size:183 final size:182
Alignment explanation
Indices: 5123252--5123934 Score: 685
Period size: 183 Copynumber: 3.7 Consensus size: 182
5123242 CAAATCTACC
** ** * * * *
5123252 ATGGCGAATCTTATCTCCCTGAAATTGCAGTGGAACAGGTTGAAGTTAC-AAGTCTTATCTCCCT
1 ATGGCGAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGTCACGAA-CCTTATCTCCCT
* * ** * * * * * * *
5123316 GAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTGAAGCAGAT
65 AAAGTTG-AATGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
* ** * ** * *
5123381 TAAAGCCATAAATCTTAT-CTCCCT-AAAGTTACAGTG-GAGTAGATTGAAGTTATT
129 TGAAGTTACAAATCCCATAC-CCTTGAAA-TTACAATGAGA-TAGATTGAAGTTATT
* *
5123435 ATGGCAAATCTTATCTCACTGAGGTTGCAGTGGAGTAGATTGAAA-TCACGAACCTTATCTCCCT
1 ATGGCGAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATT-AAAGTCACGAACCTTATCTCCCT
* * *
5123499 TAAGTTGTAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGAT
65 AAAGTTG-AATGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
* * * *
5123564 TGAAGTTACAAATCCCATACCCTTGAAATTGCAGTGGGATAGATTGAAGTTACT
129 TGAAGTTACAAATCCCATACCCTTGAAATTACAATGAGATAGATTGAAGTTATT
** * * *
5123618 ATGGCGAATCTTATCTCCCTGAGGTTGCAGCAGAGCAGATTGAAGTCACGAACCTTATCTCCCTG
1 ATGGCGAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGTCACGAACCTTATCTCCCTA
* * *
5123683 AAGTTGAAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCTTGAAATTGCATTGGAGTAGATT
66 AAGTTGAA-TGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
* * * *
5123748 GAAGTTACAAATCCCATACCTTTGAAGTTACAATGAGATGGATTAAAGTTATT
130 GAAGTTACAAATCCCATACCCTTGAAATTACAATGAGATAGATTGAAGTTATT
* * * * * *
5123801 ATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCCACTAACCTTATCTCCCTA
1 ATGGCGAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGTCACGAACCTTATCTCCCTA
* * * * * * *
5123866 AAGTTGCAATAGG-GTAAGTTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTAGAGTAGAT
66 AAGTTG-AAT-GGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
5123930 TGAAG
129 TGAAG
5123935 ATAGAAAATC
Statistics
Matches: 420, Mismatches: 71, Indels: 18
0.83 0.14 0.04
Matches are distributed among these distances:
182 3 0.01
183 403 0.96
184 14 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (182 bp):
ATGGCGAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGTCACGAACCTTATCTCCCTA
AAGTTGAATGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG
AAGTTACAAATCCCATACCCTTGAAATTACAATGAGATAGATTGAAGTTATT
Found at i:5124440 original size:26 final size:26
Alignment explanation
Indices: 5124404--5124513 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
5124394 TGATACAAAT
5124404 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
5124430 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5124456 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
5124482 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5124508 TGATAA
1 TGATAA
5124514 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5126234 original size:27 final size:26
Alignment explanation
Indices: 5126130--5126244 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
5126120 TGGAGGAAGC
* *
5126130 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
5126157 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
5126184 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* **
5126211 GTATCTGGTGACTCTATCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
5126238 GTTCTGG
1 GTTCTGG
5126245 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 56 0.72
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:5126237 original size:54 final size:54
Alignment explanation
Indices: 5126130--5126244 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
5126120 TGGAGGAAGC
* *
5126130 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
* * * *
5126184 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTACCACATATATCT
5126238 GTTCTGG
1 GTTCTGG
5126245 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
Found at i:5128540 original size:21 final size:20
Alignment explanation
Indices: 5128500--5128550 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
5128490 CTCTCACATT
* *
5128500 TTTTATTATTTTATTTATTTA
1 TTTTATT-TATTATTAATTTA
5128521 CTTTTATTTATTATTAATTTA
1 -TTTTATTTATTATTAATTTA
5128542 TTATTATTT
1 TT-TTATTT
5128551 CTTCATCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 17 0.65
22 7 0.27
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTATTATTAATTTA
Found at i:5130787 original size:19 final size:20
Alignment explanation
Indices: 5130743--5130789 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
5130733 CAACAATAAT
5130743 ATAAAATA-ATGATATGTAC
1 ATAAAATATATGATATGTAC
5130762 A-AAAATATAT-ATATGTAC
1 ATAAAATATATGATATGTAC
5130780 ATAAAATATA
1 ATAAAATATA
5130790 CACTAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAAATATATGATATGTAC
Found at i:5130925 original size:34 final size:33
Alignment explanation
Indices: 5130864--5130930 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
5130854 CAATATGGTG
* *
5130864 TTTAAAAATATATATATATGTATATATAATAATA
1 TTTAAAAATATATACATAAGTATATATAA-AATA
*
5130898 TTTAAGAATATATACATAAG-ATGATATAAAATA
1 TTTAAAAATATATACATAAGTAT-ATATAAAATA
5130931 CATACATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (33 bp):
TTTAAAAATATATACATAAGTATATATAAAATA
Done.