Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 199 of 313
Found at i:61021319 original size:17 final size:17
Alignment explanation
Indices: 61021297--61021329 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61021287 CTAAAAAAAA
61021297 AATTATAGTTAATTTTT
1 AATTATAGTTAATTTTT
61021314 AATTATAGTTAATTTT
1 AATTATAGTTAATTTT
61021330 ATTGTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTATAGTTAATTTTT
Found at i:61024241 original size:3 final size:3
Alignment explanation
Indices: 61024233--61024261 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61024223 AAGGACAAAA
61024233 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
61024262 CTTTTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:61031888 original size:8 final size:8
Alignment explanation
Indices: 61031868--61031918 Score: 86
Period size: 8 Copynumber: 6.4 Consensus size: 8
61031858 TATGATATGA
61031868 TTTAAAT-
1 TTTAAATG
61031875 TATTAAATG
1 T-TTAAATG
61031884 TTTAAATG
1 TTTAAATG
61031892 TTTAAATG
1 TTTAAATG
61031900 TTTAAATG
1 TTTAAATG
61031908 TTTAAATG
1 TTTAAATG
61031916 TTT
1 TTT
61031919 CTGATTTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 1 0.02
8 40 0.95
9 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (8 bp):
TTTAAATG
Found at i:61033693 original size:40 final size:39
Alignment explanation
Indices: 61033649--61033741 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
61033639 CTTAATACAA
* * *
61033649 CTATTTTCATATAA-TCGATTCATATAATCATTTCGTATAT
1 CTATTTTCATATAACT-GATTCAT-TAACCATTCCATATAT
* *
61033689 CTATTTCCATATAACTGATTCATTTACCATTCCATATAT
1 CTATTTTCATATAACTGATTCATTAACCATTCCATATAT
61033728 CTA-TTTCATATAAC
1 CTATTTTCATATAAC
61033742 CATTTCATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 10 0.22
39 15 0.33
40 20 0.43
41 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (39 bp):
CTATTTTCATATAACTGATTCATTAACCATTCCATATAT
Found at i:61033735 original size:25 final size:26
Alignment explanation
Indices: 61033693--61033745 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
61033683 GTATATCTAT
*
61033693 TTCCATATAACTGATTCAT-TTACCA
1 TTCCATATAACTGATTCATATAACCA
*
61033718 TTCCATATATCT-ATTTCATATAACCA
1 TTCCATATAACTGA-TTCATATAACCA
61033744 TT
1 TT
61033746 TCATTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 16 0.67
26 7 0.29
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (26 bp):
TTCCATATAACTGATTCATATAACCA
Found at i:61033739 original size:13 final size:13
Alignment explanation
Indices: 61033653--61033749 Score: 58
Period size: 13 Copynumber: 7.5 Consensus size: 13
61033643 ATACAACTAT
*
61033653 TTTCATATAATCGA
1 TTTCATAT-ATCTA
61033667 -TTCATATAATC-A
1 TTTCATAT-ATCTA
*
61033679 TTTCGTATATCTA
1 TTTCATATATCTA
*
61033692 TTTCCATATAACTGA
1 TTT-CATATATCT-A
* *
61033707 -TTCATTTA-CCA
1 TTTCATATATCTA
*
61033718 TTCCATATATCTA
1 TTTCATATATCTA
* *
61033731 TTTCATATAACCA
1 TTTCATATATCTA
61033744 TTTCAT
1 TTTCAT
61033750 TTTACACATT
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
11 1 0.02
12 11 0.17
13 44 0.67
14 9 0.14
15 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTCATATATCTA
Found at i:61033754 original size:39 final size:40
Alignment explanation
Indices: 61033649--61033759 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
61033639 CTTAATACAA
* * * *
61033649 CTATTTTCATATAA-TCGATTCATATA-ATCATTTCGTATAT
1 CTATTTCCATATAACTC-ATTCATTTACA-CATTCCATATAT
*
61033689 CTATTTCCATATAACTGATTCATTTAC-CATTCCATATAT
1 CTATTTCCATATAACTCATTCATTTACACATTCCATATAT
61033728 CTATTT-CATATAAC-CATTTCATTTTACACATT
1 CTATTTCCATATAACTCA-TTCA-TTTACACATT
61033760 TAGCACATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
37 1 0.02
38 12 0.20
39 21 0.35
40 25 0.42
41 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.46
Consensus pattern (40 bp):
CTATTTCCATATAACTCATTCATTTACACATTCCATATAT
Found at i:61036031 original size:24 final size:24
Alignment explanation
Indices: 61036003--61036071 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
61035993 ACACTCCACA
*
61036003 TTGTGGCCAAGCCACTCAATAGCG
1 TTGTGGCCAAGCCACTCAATAACG
* *
61036027 TTGTGGTCAAGCCACTCAATAATG
1 TTGTGGCCAAGCCACTCAATAACG
* **
61036051 TTCTAACCAAGCCACTCAATA
1 TTGTGGCCAAGCCACTCAATA
61036072 TTGCAGATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (24 bp):
TTGTGGCCAAGCCACTCAATAACG
Found at i:61036138 original size:39 final size:39
Alignment explanation
Indices: 61036058--61036149 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 39
61036048 ATGTTCTAAC
* * * ** * *
61036058 CAAGCCACTCAATATTGCAGATAAGCTGCATGTTGTTGT
1 CAAGCCACTCAATATCGCAGACAAGCTACACCTTATGGT
*
61036097 CAAGCCATTCAATATCGCAGACAAGCTACACCTTATGGT
1 CAAGCCACTCAATATCGCAGACAAGCTACACCTTATGGT
**
61036136 CAAGATACTCAATA
1 CAAGCCACTCAATA
61036150 ATGTTGCGGC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (39 bp):
CAAGCCACTCAATATCGCAGACAAGCTACACCTTATGGT
Found at i:61037592 original size:9 final size:9
Alignment explanation
Indices: 61037578--61037603 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61037568 ATATTTATAA
61037578 CTCATAAAC
1 CTCATAAAC
61037587 CTCATAAAC
1 CTCATAAAC
61037596 CTCATAAA
1 CTCATAAA
61037604 TAAAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (9 bp):
CTCATAAAC
Found at i:61038019 original size:16 final size:15
Alignment explanation
Indices: 61037977--61038019 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
61037967 CTAATTCAAG
61037977 CATATATCACA-TAA
1 CATATATCACATTAA
61037991 CATATATTC-CATTAA
1 CATATA-TCACATTAA
61038006 TCATATATCACATT
1 -CATATATCACATT
61038020 TCACACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 10 0.40
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (15 bp):
CATATATCACATTAA
Found at i:61039611 original size:50 final size:50
Alignment explanation
Indices: 61039500--61039697 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 50
61039490 ATTTGGGTAA
*
61039500 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
61039556 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * *
61039606 AGAGGTCCCCCGTAAAACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * *
61039656 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
61039698 GTACAAGAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 80 0.65
53 3 0.02
55 1 0.01
56 40 0.32
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:61039665 original size:100 final size:104
Alignment explanation
Indices: 61039511--61039697 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 104
61039501 GAGATCCCAT
* * **
61039511 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAAACCATGTCTGGGACATGGCATGGGCATCA-T-AGATTATGAGAACTCCCATGTAAGACCA
* *
61039576 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
61039617 GTAAAACCATGTCTGGGACATGGCATGGGCA-C-T-GA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAAACCATGTCTGGGACATGGCATGGGCATCATAGATTATGAGAACTCCCATGTAAGACCATA
*
61039678 TCTGGGATATGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
61039698 GTACAAGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 41 0.55
101 2 0.03
103 1 0.01
105 1 0.01
106 29 0.39
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (104 bp):
GTAAAACCATGTCTGGGACATGGCATGGGCATCATAGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:61045538 original size:50 final size:50
Alignment explanation
Indices: 61045412--61045609 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 50
61045402 ATTTGGGTAA
* *
61045412 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
61045468 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * *
61045518 AGAGGTCCCCCGTAAAACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * *
61045568 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
61045610 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.64
53 3 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:61045608 original size:100 final size:104
Alignment explanation
Indices: 61045423--61045609 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 104
61045413 GAGATCCCAT
* * * **
61045423 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATTAGAGGTCCCATGTAAGACCA
1 GTAAAACCATGTCTGGGACATGGCATGGGCATCA-T-AGATTATGAGAACTCCCATGTAAGACCA
* *
61045488 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
61045529 GTAAAACCATGTCTGGGACATGGCATGGGCA-C-T-GA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAAACCATGTCTGGGACATGGCATGGGCATCATAGATTATGAGAACTCCCATGTAAGACCATA
*
61045590 TCTGGGATATGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
61045610 GTACAAGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.55
101 2 0.03
103 1 0.01
105 1 0.01
106 29 0.40
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (104 bp):
GTAAAACCATGTCTGGGACATGGCATGGGCATCATAGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:61045986 original size:24 final size:21
Alignment explanation
Indices: 61045957--61046001 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
61045947 ATTTAACCCG
61045957 TCTTCAAAACGAACACACATTTCT
1 TCTTC-AAAC-AACACA-ATTTCT
*
61045981 TCTTCAGACAACACAATTTCT
1 TCTTCAAACAACACAATTTCT
61046002 CGAGTATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 3 0.15
24 5 0.25
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (21 bp):
TCTTCAAACAACACAATTTCT
Found at i:61048115 original size:34 final size:34
Alignment explanation
Indices: 61048076--61048155 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
61048066 TTAACCATCT
* *
61048076 AGCACACCATATGCTC-AAATGAGCCATTCCAACC
1 AGCACACCAAATGCTCGAAA-GAGCCAATCCAACC
* *
61048110 AGCACACCAAATGCTCGTAAGAGCCAATCCATCC
1 AGCACACCAAATGCTCGAAAGAGCCAATCCAACC
61048144 AGCACACCAAAT
1 AGCACACCAAAT
61048156 AACTTATATC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 39 0.95
35 2 0.05
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (34 bp):
AGCACACCAAATGCTCGAAAGAGCCAATCCAACC
Found at i:61056764 original size:20 final size:20
Alignment explanation
Indices: 61056724--61056764 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
61056714 ATTATTTTTT
*
61056724 AAAATTATAAAAAATATATA
1 AAAATTATAAAAAATAAATA
61056744 AAAATTATAAATAAA-AAATA
1 AAAATTATAAA-AAATAAATA
61056764 A
1 A
61056765 TGTCTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATTATAAAAAATAAATA
Found at i:61060746 original size:17 final size:19
Alignment explanation
Indices: 61060724--61060761 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
61060714 GGTCAGCTTA
61060724 CATGTTTAAC-T-CATATG
1 CATGTTTAACTTACATATG
61060741 CATGTTTAACTTACATATG
1 CATGTTTAACTTACATATG
61060760 CA
1 CA
61060762 ATGATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (19 bp):
CATGTTTAACTTACATATG
Found at i:61062747 original size:27 final size:27
Alignment explanation
Indices: 61062717--61062797 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
61062707 AGGATTATTA
61062717 TTAAAAATAATTTAATAAAAAAATAAT
1 TTAAAAATAATTTAATAAAAAAATAAT
** * * ** *
61062744 TTAATCATATTTTAATATAATTATTA-
1 TTAAAAATAATTTAATAAAAAAATAAT
61062770 TTAAATAA-AATTTAATAAAAATAATAAT
1 TTAAA-AATAATTTAATAAAAA-AATAAT
61062798 ATACAATTTA
Statistics
Matches: 37, Mismatches: 14, Indels: 5
0.66 0.25 0.09
Matches are distributed among these distances:
26 14 0.38
27 23 0.62
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAAAAATAATTTAATAAAAAAATAAT
Found at i:61062814 original size:53 final size:53
Alignment explanation
Indices: 61062699--61062800 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
61062689 TTATCATTAA
** *
61062699 ATTTTAATAGGATTATTATTAAAAATAATTTAATAAAAAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAAAAAAATAATATAATCAT
61062752 ATTTTAATATAATTATTATTAAATAA-AATTTAATAAAAATAATAATATA
1 ATTTTAATATAATTATTATTAAA-AATAATTTAATAAAAA-AATAATATA
61062801 CAATTTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 34 0.77
54 10 0.23
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (53 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAAAAAATAATATAATCAT
Found at i:61064711 original size:40 final size:40
Alignment explanation
Indices: 61064659--61064769 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
61064649 ACACCAGCCT
* *
61064659 AAAGCCTACTAGGCGCTAAGCCCGATA-ATTACACC-GGCAC
1 AAAGCCTGCTAGGCACTAAGCCCGATAGA-TAC-CCTGGCAC
* * *
61064699 GAAGCTTGCTAGGCATTAAGCCCGATAGATACCCTGGCAC
1 AAAGCCTGCTAGGCACTAAGCCCGATAGATACCCTGGCAC
* * *
61064739 AAAGCCTGCTAGGCATTAGGCCCAATAGATA
1 AAAGCCTGCTAGGCACTAAGCCCGATAGATA
61064770 TACCGATACG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.03
40 57 0.95
41 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAGCCTGCTAGGCACTAAGCCCGATAGATACCCTGGCAC
Found at i:61064784 original size:40 final size:40
Alignment explanation
Indices: 61064696--61064793 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
61064686 ATTACACCGG
* * * *
61064696 CACGAAGCTTGCTAGGCATTAAGCCCGATAGATACCCTGG
1 CACGAAGCCTGCTAGGCATTAAGCCCAATAGATAACCTGA
* *
61064736 CACAAAGCCTGCTAGGCATTAGGCCCAATAGATATACC-GA
1 CACGAAGCCTGCTAGGCATTAAGCCCAATAGATA-ACCTGA
*
61064776 TACGAAGCCTGCTAGGCA
1 CACGAAGCCTGCTAGGCA
61064794 GAAGGCCCGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (40 bp):
CACGAAGCCTGCTAGGCATTAAGCCCAATAGATAACCTGA
Found at i:61066933 original size:58 final size:58
Alignment explanation
Indices: 61066834--61066953 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 58
61066824 ATTTTATGAA
* * *
61066834 TGAAATTGAAAGTTGCTATAAATATGTGCTGTAATTTTATGATGAAATAGCATGAAAT
1 TGAAATTGAAAGTTGCTATAAATATGTGCTGGAAGTATATGATGAAATAGCATGAAAT
* *
61066892 TGAAATTGAAAGTTGCTATGAATATGTTCTGGAAGTATATGATGAAATAGCATGAAAT
1 TGAAATTGAAAGTTGCTATAAATATGTGCTGGAAGTATATGATGAAATAGCATGAAAT
61066950 TGAA
1 TGAA
61066954 GCTTTAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (58 bp):
TGAAATTGAAAGTTGCTATAAATATGTGCTGGAAGTATATGATGAAATAGCATGAAAT
Found at i:61078533 original size:16 final size:16
Alignment explanation
Indices: 61078500--61078533 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61078490 AGAGTTTTCC
* *
61078500 ACCAGATTCGCGGTGA
1 ACCAGATTCGAGGCGA
61078516 ACCAGATTCGAGGCGA
1 ACCAGATTCGAGGCGA
61078532 AC
1 AC
61078534 GAAACCTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.15
Consensus pattern (16 bp):
ACCAGATTCGAGGCGA
Found at i:61087440 original size:51 final size:51
Alignment explanation
Indices: 61087372--61087529 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
61087362 ATCACATTTA
*
61087372 TCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
61087423 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
61087474 TCACTAGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
61087525 TCACT
1 TCACT
61087530 GATTAGAAGT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:61095926 original size:17 final size:17
Alignment explanation
Indices: 61095904--61095938 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61095894 CTAAATTGAA
61095904 GATTAATTTGAGAAACC
1 GATTAATTTGAGAAACC
61095921 GATTAATTTGAGAAACC
1 GATTAATTTGAGAAACC
61095938 G
1 G
61095939 TCAAACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (17 bp):
GATTAATTTGAGAAACC
Found at i:61096789 original size:36 final size:36
Alignment explanation
Indices: 61096748--61096832 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
61096738 GATATCGTCC
* * **
61096748 GTTTATCCGACTAGCGCTAGGCGCAACTCATTGTTG
1 GTTTATCCGACTAGAGCTAGGCACAAAACATTGTTG
*
61096784 GTTTATCCGACTAGAGCTGGGCACAAAACATTGTTG
1 GTTTATCCGACTAGAGCTAGGCACAAAACATTGTTG
* *
61096820 ATTTATCGGACTA
1 GTTTATCCGACTA
61096833 ATTTTGGGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (36 bp):
GTTTATCCGACTAGAGCTAGGCACAAAACATTGTTG
Found at i:61096865 original size:40 final size:40
Alignment explanation
Indices: 61096821--61096906 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
61096811 ACATTGTTGA
** *
61096821 TTTATCGGACTAATTTTGGGAACACATTTGATATCGTCAG
1 TTTATCGGACTAATGCTGGGAACACATTTGATATCATCAG
* * * *
61096861 TTTATCTGACTAGTGCTGGGCACACATTTGATATCATCGG
1 TTTATCGGACTAATGCTGGGAACACATTTGATATCATCAG
61096901 TTTATC
1 TTTATC
61096907 CATCTAGCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTATCGGACTAATGCTGGGAACACATTTGATATCATCAG
Found at i:61096872 original size:112 final size:113
Alignment explanation
Indices: 61096671--61096873 Score: 277
Period size: 112 Copynumber: 1.8 Consensus size: 113
61096661 GTATTTTTCA
* ** * * *
61096671 GTTTATCCGACTAGCGCTGGGTGCAAAATCATTGTTGGTTTATTCGATTAGTGCTGGACACACAT
1 GTTTATCCGACTAGAGCTGGGCACAAAATCATTGTTGATTTATTCGACTAATGCTGGACACACAT
*
61096736 TTGATATCGTCCGTTTATCCGACTAGCGCTAGGCGCAACTCATTGTTG
66 TTGATATCGTCAGTTTATCCGACTAGCGCTAGGCGCAACTCATTGTTG
**
61096784 GTTTATCCGACTAGAGCTGGGCACAAAA-CATTGTTGATTTA-TCGGACTAATTTTGGGA-ACAC
1 GTTTATCCGACTAGAGCTGGGCACAAAATCATTGTTGATTTATTC-GACTAATGCT-GGACACAC
*
61096846 ATTTGATATCGTCAGTTTATCTGACTAG
64 ATTTGATATCGTCAGTTTATCCGACTAG
61096874 TGCTGGGCAC
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
111 2 0.03
112 48 0.62
113 28 0.36
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (113 bp):
GTTTATCCGACTAGAGCTGGGCACAAAATCATTGTTGATTTATTCGACTAATGCTGGACACACAT
TTGATATCGTCAGTTTATCCGACTAGCGCTAGGCGCAACTCATTGTTG
Found at i:61096919 original size:40 final size:40
Alignment explanation
Indices: 61096837--61096921 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
61096827 GGACTAATTT
* * * *
61096837 TGGGAACACATTTGATATCGTCAGTTTATCTGACTAGTGC
1 TGGGCACACATTTGATATCATCAGTTTATCTCACTAGCGC
*
61096877 TGGGCACACATTTGATATCATCGGTTTATC-CATCTAGCGC
1 TGGGCACACATTTGATATCATCAGTTTATCTCA-CTAGCGC
61096917 TGGGC
1 TGGGC
61096922 GAAAAACTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (40 bp):
TGGGCACACATTTGATATCATCAGTTTATCTCACTAGCGC
Found at i:61097040 original size:24 final size:24
Alignment explanation
Indices: 61097013--61097059 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
61097003 ATTGAAGAAG
*
61097013 GTTGAAAAGGATATAAATGAAAAT
1 GTTGAAAAAGATATAAATGAAAAT
*
61097037 GTTGAAAAAGATATCAATGAAAA
1 GTTGAAAAAGATATAAATGAAAA
61097060 GGTCAGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.19, T:0.23
Consensus pattern (24 bp):
GTTGAAAAAGATATAAATGAAAAT
Found at i:61100585 original size:13 final size:13
Alignment explanation
Indices: 61100567--61100592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61100557 TTCAACCATA
61100567 TCAGTGAAAATTG
1 TCAGTGAAAATTG
61100580 TCAGTGAAAATTG
1 TCAGTGAAAATTG
61100593 CGATCATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
TCAGTGAAAATTG
Found at i:61105856 original size:17 final size:17
Alignment explanation
Indices: 61105845--61105889 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
61105835 GCATACTATA
61105845 ATAGTTTGCATATTGTT
1 ATAGTTTGCATATTGTT
*
61105862 ATGGTTTGCATATTGTT
1 ATAGTTTGCATATTGTT
61105879 ATAGTTTGCAT
1 ATAGTTTGCAT
61105890 GAAATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (17 bp):
ATAGTTTGCATATTGTT
Found at i:61107923 original size:20 final size:19
Alignment explanation
Indices: 61107853--61107923 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
61107843 CAAGAATTAT
*
61107853 CACATATATAATAGGGTTTA
1 CACATATAT-ATAGGGTTTG
*
61107873 CACATATAT-TATGGTTTG
1 CACATATATATAGGGTTTG
* *
61107891 --CATAAATGGTAGGGTTTG
1 CACATATAT-ATAGGGTTTG
61107909 CACATATAGTATAGG
1 CACATATA-TATAGG
61107924 TTCGCATAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 6 0.15
18 15 0.38
20 18 0.45
21 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (19 bp):
CACATATATATAGGGTTTG
Found at i:61108750 original size:17 final size:17
Alignment explanation
Indices: 61108701--61108771 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
61108691 TTGTGAATTG
* *
61108701 TATTCGCTAGGTGATAC
1 TATTCGCCAAGTGATAC
* * * *
61108718 TATCCACCAGGAGATAC
1 TATTCGCCAAGTGATAC
61108735 TATTCGCCAAGTGATAC
1 TATTCGCCAAGTGATAC
61108752 TA-TCTGCC-AGATGATAC
1 TATTC-GCCAAG-TGATAC
61108769 TAT
1 TAT
61108772 CTATCATGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
16 4 0.09
17 39 0.91
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (17 bp):
TATTCGCCAAGTGATAC
Found at i:61108772 original size:17 final size:17
Alignment explanation
Indices: 61108712--61108773 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
61108702 ATTCGCTAGG
**
61108712 TGATACTATCCACCAGGA
1 TGATACTATCTGCCA-GA
61108730 -GATACTAT-TCGCCA-A
1 TGATACTATCT-GCCAGA
61108745 GTGATACTATCTGCCAGA
1 -TGATACTATCTGCCAGA
61108763 TGATACTATCT
1 TGATACTATCT
61108774 ATCATGCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
15 1 0.03
17 34 0.92
18 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (17 bp):
TGATACTATCTGCCAGA
Found at i:61111917 original size:17 final size:17
Alignment explanation
Indices: 61111883--61111917 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61111873 CTTAAGAACA
* *
61111883 AAAGAAAGAATTATGAG
1 AAAGAAAGAATGAAGAG
61111900 AAAGAAAGAATGAAGAG
1 AAAGAAAGAATGAAGAG
61111917 A
1 A
61111918 GGAATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (17 bp):
AAAGAAAGAATGAAGAG
Found at i:61120007 original size:43 final size:43
Alignment explanation
Indices: 61119938--61120082 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
61119928 TTCGAGGTGT
* *
61119938 GATTTCGTGTAAGA-CACTGTCTGGGACATTGGCATCAATATGA
1 GATTACGTGTAAGACCA-TGTTTGGGACATTGGCATCAATATGA
* **
61119981 GATTACGTGTTAGACCATGTTTGGGACATTGGCA-CTGTAT-A
1 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCAATATGA
* ** * *
61120022 TGATT-CGTGTAAGACCCTGTTTGGGACAAAGGCATCGATATGT
1 -GATTACGTGTAAGACCATGTTTGGGACATTGGCATCAATATGA
* *
61120065 GATAACATGTAAGACCAT
1 GATTACGTGTAAGACCAT
61120083 ATCTGAGATA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 26 0.32
42 15 0.18
43 39 0.48
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTTTGGGACATTGGCATCAATATGA
Found at i:61121541 original size:23 final size:23
Alignment explanation
Indices: 61121498--61121542 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61121488 TTTGACATAA
* *
61121498 TGCTAGTTTGGTATCTATTTTCT
1 TGCTAGTTTGATACCTATTTTCT
61121521 TGCTAGTTTCGATACCT-TTTTC
1 TGCTAGTTT-GATACCTATTTTC
61121543 CAAAAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.13, C:0.18, G:0.16, T:0.53
Consensus pattern (23 bp):
TGCTAGTTTGATACCTATTTTCT
Found at i:61127068 original size:151 final size:151
Alignment explanation
Indices: 61126791--61127093 Score: 435
Period size: 151 Copynumber: 2.0 Consensus size: 151
61126781 TTAGAGATCT
* * *
61126791 ATGTGAAATTGTGAATAAAGTGGATTCGGGCGCTGGTCATAAGTTCTACCAGTGGCTGGGTATAC
1 ATGTGAAACTGTGAATAAAGTGAATTCGGGCGCTAGTCATAAGTTCTACCAGTGGCTGGGTATAC
* * * * * ** * *
61126856 TGGTATATGTTGTAGATACCTGACAACTTGTGTGAGCAGCACTGAGTAGTAACGGATGACTGTCA
66 CGGCATATGCTGCAGATACCTAACAACTTGTGTGAGCAGCACTGAGTAGTAACAAAAGACTGACA
* *
61126921 GCTTGTGTGAGCAGGCCCGTG
131 GCTTGTATGAGCAGACCCGTG
* * *
61126942 ATGTGAAACTGTGATTAAAGTGAATTCGGGTGCTAGTCTTAAGTTCTACCAGTGGCTGGGTATAC
1 ATGTGAAACTGTGAATAAAGTGAATTCGGGCGCTAGTCATAAGTTCTACCAGTGGCTGGGTATAC
* *
61127007 CGGCATATGCTGCGGATACCTAACAGCTTGTGTGAGCAGCACTGAGTAGTAACAAAAGACTGACA
66 CGGCATATGCTGCAGATACCTAACAACTTGTGTGAGCAGCACTGAGTAGTAACAAAAGACTGACA
61127072 GCTTGTATGAGCAGACCCGTG
131 GCTTGTATGAGCAGACCCGTG
61127093 A
1 A
61127094 AAGTGAATAG
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
151 133 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (151 bp):
ATGTGAAACTGTGAATAAAGTGAATTCGGGCGCTAGTCATAAGTTCTACCAGTGGCTGGGTATAC
CGGCATATGCTGCAGATACCTAACAACTTGTGTGAGCAGCACTGAGTAGTAACAAAAGACTGACA
GCTTGTATGAGCAGACCCGTG
Found at i:61138076 original size:22 final size:22
Alignment explanation
Indices: 61138029--61138073 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
61138019 ATGCAATCTT
*
61138029 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
61138051 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
61138074 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:61144521 original size:44 final size:44
Alignment explanation
Indices: 61144472--61145511 Score: 1832
Period size: 44 Copynumber: 23.6 Consensus size: 44
61144462 GATACTAGTT
* * *
61144472 CTATCTCCCTGG-AAAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAA-TAGTGGAATAGGTTGAAGATTGTGAGTC
**
61144516 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144560 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144604 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144648 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144692 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144736 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144780 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144824 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144868 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144912 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61144956 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61145000 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61145044 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61145088 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61145132 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
*
61145176 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
**
61145220 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
61145264 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
** *
61145308 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
** *
61145352 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
** * *
61145396 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGTGAATC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
* ** *
61145440 TTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
1 CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
* *
61145484 TTATCTCCCTGAG-CAATAGTGGAGTAGG
1 CTATCTCCCTG-GTCAATAGTGGAATAGG
61145512 CAGGAAATTA
Statistics
Matches: 972, Mismatches: 22, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
44 970 1.00
45 2 0.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (44 bp):
CTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTC
Found at i:61145621 original size:176 final size:177
Alignment explanation
Indices: 61145439--61145845 Score: 534
Period size: 176 Copynumber: 2.3 Consensus size: 177
61145429 GATGGTGAAT
* * *
61145439 CTTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGT-GAATCTTATCTCCCTGAGCAATA
1 CTTATCTCCCTGAGTCAGCAGTGGAGTAGGTTGAAGATTGTAG-ACCTTATCTCCCTGAGCAACA
* * * * ** * *
61145502 GTGGAGTAGGCAGGAAATTACATATTTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGACGGT
65 GTGGAGTAGGCAGAAAATTACAGATCTTATATCCCTAAGCAATAGTGGAGCAGATCAAAAACGGC
*
61145567 GAATCTTATCTTCCCAAGGTAGTAGGAAAGAAAATTTAAGCCACTAGC
130 AAATCTTATCTTCCCAAGGTAGTAGGAAAGAAAATTTAAGCCACTAGC
* * *
61145615 CTTATCTCCCTGAG-CAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAG
1 CTTATCTCCCTGAGTCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAACAG
** *
61145679 TGGAGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCAAAAACGGCA
66 TGGAGTAGGCAGAAAATTACAGATCTTATATCCCTAAGCAATAGTGGAGCAGATCAAAAACGGCA
* * *
61145744 AATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAGC
131 AATCTTATCTTCCCAAGGTAGTAGGAAAGAAAATTTAAGCCACTAGC
* * * * **
61145791 TTTATCTCCCTGAGT-AGTAGTGGAGTAGGTTGAAAATTATAGATTTTATCTCCCT
1 CTTATCTCCCTGAGTCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCT
61145846 AAGTTGCGGT
Statistics
Matches: 199, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
176 197 0.99
177 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (177 bp):
CTTATCTCCCTGAGTCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAACAG
TGGAGTAGGCAGAAAATTACAGATCTTATATCCCTAAGCAATAGTGGAGCAGATCAAAAACGGCA
AATCTTATCTTCCCAAGGTAGTAGGAAAGAAAATTTAAGCCACTAGC
Found at i:61145662 original size:44 final size:44
Alignment explanation
Indices: 61145614--61145727 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
61145604 AAGCCACTAG
* **
61145614 CCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGA
* *
61145658 CCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGA
* * * *
61145702 TCTTATATCCCTAAGCAGTAGTGGAG
1 CCTTATCTCCCTGAGCAGCAGTGGAG
61145728 CAGATCAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGA
Found at i:61146548 original size:19 final size:21
Alignment explanation
Indices: 61146511--61146563 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 21
61146501 ATCTTCAAGG
61146511 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
61146532 ATATGCAATC-TA-TTATG--
1 ATATGCAATCTTAGATATGAT
61146549 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
61146564 AGATATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 4 0.14
20 2 0.07
21 10 0.36
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:61146568 original size:17 final size:17
Alignment explanation
Indices: 61146510--61146570 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
61146500 AATCTTCAAG
61146510 GATATGCAATCTTAGATA
1 GATATGCAATCTTAGA-A
* *
61146528 TGATATATGCAATC-TATTAT
1 -G--ATATGCAATCTTA-GAA
61146548 GATATGCAATCTTAGAA
1 GATATGCAATCTTAGAA
61146565 GATATG
1 GATATG
61146571 ATTTTGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 17 0.50
18 2 0.06
19 2 0.06
20 2 0.06
21 11 0.32
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (17 bp):
GATATGCAATCTTAGAA
Found at i:61146834 original size:23 final size:23
Alignment explanation
Indices: 61146790--61146834 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
61146780 TCTTATTTTG
* *
61146790 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
61146813 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
61146835 CAAATCTCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:61148872 original size:18 final size:18
Alignment explanation
Indices: 61148849--61148890 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
61148839 GACAACATTG
61148849 AATTAAAT-TTTTAAAAAA
1 AATTAAATGTTTT-AAAAA
*
61148867 AATT-AATGTTTTAAAGA
1 AATTAAATGTTTTAAAAA
61148884 AATTAAA
1 AATTAAA
61148891 AATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATGTTTTAAAAA
Found at i:61170907 original size:43 final size:43
Alignment explanation
Indices: 61170833--61170980 Score: 206
Period size: 43 Copynumber: 3.4 Consensus size: 43
61170823 TGTCCCAGAC
* ** **
61170833 ATGGTCTTACATGGAAATCTCGTATAAATGCCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
61170877 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAACCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * *
61170920 ATGGTCTCACATGAAATCTCAAATCGATGCCAATAGTCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
61170963 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGAAATC
61170981 ACACCTCGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 81 0.88
44 11 0.12
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:61171151 original size:31 final size:31
Alignment explanation
Indices: 61171106--61171243 Score: 152
Period size: 31 Copynumber: 4.5 Consensus size: 31
61171096 CTGAAATCAG
* * *
61171106 TTCGACAATATATATCCATATACGAATCAAA
1 TTCGGCAATGTATATCCATATACAAATCAAA
* * *
61171137 TTCAGCAATGTATATCTACATACAAATC-AA
1 TTCGGCAATGTATATCCATATACAAATCAAA
* * *
61171167 TTCGGTACTGTATATCTATATACAAATCAAA
1 TTCGGCAATGTATATCCATATACAAATCAAA
* *
61171198 TTCGGCAATGTATAAACCATATACAAATCCAA
1 TTCGGCAATGTAT-ATCCATATACAAATCAAA
*
61171230 TTCGTCAATGTATA
1 TTCGGCAATGTATA
61171244 AAACATATAC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
30 26 0.29
31 36 0.40
32 27 0.30
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (31 bp):
TTCGGCAATGTATATCCATATACAAATCAAA
Found at i:61171225 original size:32 final size:31
Alignment explanation
Indices: 61171106--61171254 Score: 138
Period size: 32 Copynumber: 4.8 Consensus size: 31
61171096 CTGAAATCAG
* * * *
61171106 TTCGACAATATATATCCATATACGAATCAAA
1 TTCGGCAATGTATAACCATATACAAATCAAA
* * * *
61171137 TTCAGCAATGTATATCTACATACAAATC-AA
1 TTCGGCAATGTATAACCATATACAAATCAAA
* * * *
61171167 TTCGGTACTGTATATCTATATACAAATCAAA
1 TTCGGCAATGTATAACCATATACAAATCAAA
*
61171198 TTCGGCAATGTATAAACCATATACAAATCCAA
1 TTCGGCAATGTAT-AACCATATACAAATCAAA
* *
61171230 TTCGTCAATGTATAAAACATATACA
1 TTCGGCAATGTAT-AACCATATACA
61171255 TTTAAATTCA
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 26 0.26
31 35 0.35
32 38 0.38
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (31 bp):
TTCGGCAATGTATAACCATATACAAATCAAA
Found at i:61176595 original size:23 final size:22
Alignment explanation
Indices: 61176555--61176598 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
61176545 AAATTATAAA
*
61176555 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
61176577 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
61176599 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:61176601 original size:27 final size:25
Alignment explanation
Indices: 61176559--61176617 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
61176549 TATAAAATAT
61176559 AAAAATATATATATGT-ACA-TATAA
1 AAAAATATATATATGTGA-ATTATAA
61176583 GAAAAATATATATGTATGTGAATTATAA
1 -AAAAATATATA--TATGTGAATTATAA
61176611 AAAAATA
1 AAAAATA
61176618 AAAAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 11 0.37
27 13 0.43
28 6 0.20
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (25 bp):
AAAAATATATATATGTGAATTATAA
Found at i:61176667 original size:25 final size:24
Alignment explanation
Indices: 61176614--61176669 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
61176604 ATTATAAAAA
*
61176614 AATAAAAAATATTATAAATATTTT
1 AATAAAAAATATTATAAATATTAT
*
61176638 AATAAAAAATATATATAAGTATGTAT
1 AATAAAAAATAT-TATAAATAT-TAT
61176664 -ATAAAA
1 AATAAAA
61176670 TTATGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 12 0.43
25 14 0.50
26 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAAAAAATATTATAAATATTAT
Found at i:61176723 original size:36 final size:36
Alignment explanation
Indices: 61176683--61176758 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
61176673 TGAAACATAG
*
61176683 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
61176719 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
61176756 AAA
1 AAA
61176759 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:61177324 original size:23 final size:22
Alignment explanation
Indices: 61177281--61177338 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
61177271 AAAGGGTATC
* *
61177281 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
61177302 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
61177325 TGCATATCATATCT
1 TACAAATCATATCT
61177339 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:61177354 original size:21 final size:21
Alignment explanation
Indices: 61177317--61177371 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
61177307 AATCATATCT
61177317 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
61177336 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
61177357 TGTAAGATTGCATAT
1 TCTAAGATTGCATAT
61177372 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:61177962 original size:44 final size:44
Alignment explanation
Indices: 61177912--61178023 Score: 152
Period size: 44 Copynumber: 2.5 Consensus size: 44
61177902 ATTCTGATCC
* * * *
61177912 ACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCT
1 ACTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCT
* *
61177956 ATTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATTT
1 ACTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCT
* *
61178000 GCTCCACTGCAACCTCAAGGAGAT
1 ACTCCACTGCAACCTCAGGGAGAT
61178024 GAGACTGGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
ACTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCT
Found at i:61178182 original size:45 final size:45
Alignment explanation
Indices: 61178132--61179649 Score: 1857
Period size: 45 Copynumber: 33.8 Consensus size: 45
61178122 TCTGCCTTCA
* * *
61178132 ATCTACTTCTCTGCCAATACAGGAAGATAAGATCTACTATTTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * *
61178177 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCCGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * * * * * *
61178222 ATCCACTTCCCTACCAATATAGGAAGCCCAGATCTGTTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * **
61178267 ATCTACTTCGCTGCCAATACAAGAAGAAAAGATCTATTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178312 ATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * * *
61178357 ATCTACCTCGCTGCCGATATAGGAAGACAAGATCTGTTATATTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178402 ATCTACTTTGCTACCAATATAGGAAGACAAGATCTGCTATGTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178447 ATCTACTTCGCTGCTAGTACAGGAAGACAAGATCTGTTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * ** *
61178492 ATCTACTTCACTGTCAATACAGGAAGACAAGATCTATTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * * *
61178537 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61178582 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178627 ATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61178672 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178717 ATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61178762 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178807 ATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61178852 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178897 ATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61178942 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * *
61178987 ATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * *
61179032 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * * * *
61179077 ATCTACTTCGCTGACAGTACGGGAAGACAAGATCTGTTATATTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * *
61179122 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
* * * *
61179167 ATCTACTTCACTGCCAATACAGGAAGATAAGATCTGTTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61179212 ATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCG
*
61179257 ATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* *
61179302 ATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * * *
61179347 ATCTACTTCACTGCTAATACAGGAAGACAAGATCTACTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
*
61179392 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * * *
61179437 ATCTACTTCGCTACCAGTACAGGAAGACAAGATCTACTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * *
61179482 ATCTACTTCACTGCCAATAAAGGAAGACAAGATCTGCTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * *
61179527 ATCTACTTCGCTGCCAATACAGGAAGACAAGGTCTACT-CTTT-G
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
* * *
61179570 ATCTACTTC-ATGCCAATACAGGAAGACAAGAT-TTCTTTTCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT-TTCG
61179614 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
61179650 TTCTCTACAG
Statistics
Matches: 1279, Mismatches: 171, Indels: 45
0.86 0.11 0.03
Matches are distributed among these distances:
41 3 0.00
42 22 0.02
43 12 0.01
44 31 0.02
45 1192 0.93
46 19 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCG
Found at i:61178246 original size:90 final size:90
Alignment explanation
Indices: 61178127--61179651 Score: 2182
Period size: 90 Copynumber: 17.0 Consensus size: 90
61178117 TTACTTCTGC
* * * * * *
61178127 CTTCAATCTACTTCTCTGCCAATACAGGAAGATAAGATCTACTAT-TTTCGATCTACTTCGCTGC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTT-GATCTACTTCGCTGC
*
61178191 CAATACAGGAAGACAAGATCCGTTAT
65 CAATACAGGAAGACAAGATCTGTTAT
* * * * * *
61178217 CTTCGATCCACTTCCCTACCAATATAGGAAGCCCAGATCTGTTATCTTTGATCTACTTCGCTGCC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
* * *
61178282 AATACAAGAAGAAAAGATCTATTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * * *
61178307 CTTTGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACCTCGCTGCC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
* *
61178372 GATATAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * * * *
61178397 ATTTGATCTACTTTGCTACCAATATAGGAAGACAAGATCTGCTATGTTTGATCTACTTCGCTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
*
61178462 AGTACAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * ** * ** * * *
61178487 CTTTGATCTACTTCACTGTCAATACAGGAAGACAAGATCTATTATCTTCGATCTACTTCGCTACC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
*
61178552 AATATAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
*
61178577 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
61178642 AATACAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
*
61178667 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
61178732 AATACAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
*
61178757 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
61178822 AATACAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
*
61178847 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
61178912 AATACAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
*
61178937 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
61179002 AATACAGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * *
61179027 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCTGAC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
* *
61179092 AGTACGGGAAGACAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * * *
61179117 ATTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
*
61179182 AATACAGGAAGATAAGATCTGTTAT
66 AATACAGGAAGACAAGATCTGTTAT
*
61179207 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGCC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
* *
61179272 AGTACAGGAAGACAAGATCTGCTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * * * * * * *
61179297 TTTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATCTTCGATCTACTTCACTGCT
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
**
61179362 AATACAGGAAGACAAGATCTACTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * * * *
61179387 CTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
* **
61179452 AGTACAGGAAGACAAGATCTACTAT
66 AATACAGGAAGACAAGATCTGTTAT
* * * * *
61179477 CTTCGATCTACTTCACTGCCAATAAAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCC
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
*
61179542 AATACAGGAAGACAAGGTC---TACT
66 AATACAGGAAGACAAGATCTGTTA-T
* * * * * *
61179565 CTTTGATCTACTTC-ATGCCAATACAGGAAGACAAGAT-TTCT-TTTCTTCGATCTACTTCGCTG
1 CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATAT-TT-GATCTACTTCGCTG
61179627 CCAATACAGGAAGACAAGATCTGTT
64 CCAATACAGGAAGACAAGATCTGTT
61179652 CTCTACAGTC
Statistics
Matches: 1320, Mismatches: 108, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
85 2 0.00
86 4 0.00
87 57 0.04
88 14 0.01
90 1240 0.94
91 3 0.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (90 bp):
CTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCC
AATACAGGAAGACAAGATCTGTTAT
Found at i:61186234 original size:23 final size:24
Alignment explanation
Indices: 61186204--61186250 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
61186194 AAATTAAATC
61186204 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
61186227 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
61186251 AAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:61188389 original size:27 final size:27
Alignment explanation
Indices: 61188358--61188446 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
61188348 AGCACGTCAA
* * *
61188358 GAAAGAAAAGCCTTTATGGCGTAACAT
1 GAAAGAAAAGCTTTTGTGGCATAACAT
* * *
61188385 GAAAGAAGAGCTTTTGCGGTATAACAT
1 GAAAGAAAAGCTTTTGTGGCATAACAT
61188412 GAAAGAAAAGCTTTTGTGGCATAACAT
1 GAAAGAAAAGCTTTTGTGGCATAACAT
61188439 GAAAGAAA
1 GAAAGAAA
61188447 TCCTTCGCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (27 bp):
GAAAGAAAAGCTTTTGTGGCATAACAT
Found at i:61190740 original size:25 final size:25
Alignment explanation
Indices: 61190711--61190761 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
61190701 CATTTTTAAC
* *
61190711 TTTAGTTT-AATGTATTTCAGTTTGT
1 TTTAGTTTCAAT-TAGTTAAGTTTGT
61190736 TTTAGTTTCAATTAGTTAAGTTTGT
1 TTTAGTTTCAATTAGTTAAGTTTGT
61190761 T
1 T
61190762 CCTTTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.59
Consensus pattern (25 bp):
TTTAGTTTCAATTAGTTAAGTTTGT
Found at i:61193010 original size:12 final size:11
Alignment explanation
Indices: 61192995--61193030 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
61192985 GATATAAATA
61192995 ATAATATATAT
1 ATAATATATAT
61193006 GATAATATATAT
1 -ATAATATATAT
61193018 ATACATATATAT
1 ATA-ATATATAT
61193030 A
1 A
61193031 AGTTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 3 0.13
12 20 0.87
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (11 bp):
ATAATATATAT
Found at i:61195546 original size:15 final size:15
Alignment explanation
Indices: 61195526--61195559 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
61195516 TTATTTTATA
61195526 TTTTTGATTAT-TTTG
1 TTTTTGATT-TGTTTG
61195541 TTTTTGATTTGTTTG
1 TTTTTGATTTGTTTG
61195556 TTTT
1 TTTT
61195560 GTTTTCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (15 bp):
TTTTTGATTTGTTTG
Found at i:61209608 original size:25 final size:27
Alignment explanation
Indices: 61209554--61209613 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 27
61209544 AATAAAAAAA
61209554 ATTTTAAATTTATTATTTAATCCTATTTT
1 ATTTTAAATTTATTATTTAA--CTATTTT
61209583 ATTTTAAATTTATTATTTAA-T-TTTT
1 ATTTTAAATTTATTATTTAACTATTTT
61209608 ATTTTA
1 ATTTTA
61209614 TAAATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.32
26 1 0.03
29 20 0.65
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTAAATTTATTATTTAACTATTTT
Found at i:61210371 original size:22 final size:23
Alignment explanation
Indices: 61210346--61210388 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
61210336 AATATTATTT
61210346 TTTTAAAAGTAAT-AAAATAACA
1 TTTTAAAAGTAATGAAAATAACA
*
61210368 TTTTAAAAGTGATGAAAATAA
1 TTTTAAAAGTAATGAAAATAA
61210389 AAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
TTTTAAAAGTAATGAAAATAACA
Found at i:61212148 original size:23 final size:23
Alignment explanation
Indices: 61212118--61212163 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
61212108 TCATCACTAT
61212118 CCAATTCCTCAATTTAAACATTC
1 CCAATTCCTCAATTTAAACATTC
*
61212141 CCAATTCCTCAATTTAACCATTC
1 CCAATTCCTCAATTTAAACATTC
61212164 AATATACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (23 bp):
CCAATTCCTCAATTTAAACATTC
Found at i:61215140 original size:21 final size:21
Alignment explanation
Indices: 61215114--61215156 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61215104 GTTGGAGTAT
61215114 TGCAAATTAGTACATATAAAG
1 TGCAAATTAGTACATATAAAG
61215135 TGCAAATTAGTACATATAAAG
1 TGCAAATTAGTACATATAAAG
61215156 T
1 T
61215157 CGGGAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
TGCAAATTAGTACATATAAAG
Found at i:61215413 original size:20 final size:21
Alignment explanation
Indices: 61215364--61215414 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
61215354 GCTTGTATGA
*
61215364 GATTTGCACTTCGGTCCCTCT
1 GATTTGCACATCGGTCCCTCT
61215385 G-TTTGCACATCGGTGCCCT-T
1 GATTTGCACATCGGT-CCCTCT
61215405 GATTT-CACAT
1 GATTTGCACAT
61215415 TTGTGTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.14, C:0.29, G:0.20, T:0.37
Consensus pattern (21 bp):
GATTTGCACATCGGTCCCTCT
Found at i:61223843 original size:19 final size:18
Alignment explanation
Indices: 61223805--61223848 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
61223795 GGATTTTTAT
*
61223805 TAAAATATTACAAAAAAA
1 TAAAATAATACAAAAAAA
*
61223823 TAAAATAATATCAAAATAA
1 TAAAATAATA-CAAAAAAA
61223842 TATAAAT
1 TA-AAAT
61223849 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAATAATACAAAAAAA
Found at i:61224235 original size:152 final size:152
Alignment explanation
Indices: 61223975--61224395 Score: 559
Period size: 153 Copynumber: 2.8 Consensus size: 152
61223965 TTTAGTCATC
** * * *
61223975 TGTTCGTATTTTTTTTCGGATTTTATTACTTTTAAAAAATATAATATTTTCTATTTTTTTTATTT
1 TGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTATTT
*
61224040 TACATTATTTTAGTACATTATA-TTTTAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-TT-A
66 TACATTATTTTAGTACATTA-AGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAA
* * *
61224102 AAAAA-TCTTTATTTCTG-CATTT
130 AAAAACCCCTTATTTCGGCCA-TT
*
61224124 TGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTTCTAATTTTATTA
1 TGTTCGTATTTTTTCCCGGATTTTATTACTTT-AA-AAAAATATAATA-TTTTCTAATTTTATTA
*
61224189 TTTTACATTATTTTAGTACATCAAGTTTGAAATGTATTAATTTAGTGT-TTTTTTAAATAAATTT
63 TTTTACATTATTTTAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT
61224253 AAAAAAAAACCCCTTATTTCGGCCATT
128 --AAAAAAACCCCTTATTTCGGCCATT
** * * *
61224280 TGTTCGTA-TTTTTCCATAGAGTCTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATT
1 TGTTCGTATTTTTTCC-CGGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTATT
* *
61224344 TTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTT
65 TTACATTATTTTAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTT
61224396 NNNNNNNNNN
Statistics
Matches: 241, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
149 30 0.12
150 1 0.00
151 25 0.10
152 60 0.25
153 61 0.25
154 16 0.07
155 15 0.06
156 31 0.13
157 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.53
Consensus pattern (152 bp):
TGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTATTT
TACATTATTTTAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAA
AAAACCCCTTATTTCGGCCATT
Found at i:61226662 original size:71 final size:71
Alignment explanation
Indices: 61226524--61226663 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 71
61226514 AATTTTACTA
* *
61226524 CCCAAAATTTTTTCTTTTATTTTCTTCCTAATTCTTTTATTTCCTCTAAAAAAATTTAGTTTCTT
1 CCCAAAATTTTTTCTTTTACTTTCTTCCTAATTCTTTCATTTCCTCTAAAAAAATTTAGTTTCTT
61226589 CAAACC
66 CAAACC
**
61226595 CCCAAAATTTTTTTCTTTTACTTT-TTCCTTAATAT-TTTCACTTTCCT-TTCAAAAATTTA-TT
1 CCCAAAA-TTTTTTCTTTTACTTTCTTCC-TAAT-TCTTTCA-TTTCCTCTAAAAAAATTTAGTT
*
61226656 TTTTCAAA
62 TCTTCAAA
61226664 AACTCTCAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
71 20 0.33
72 33 0.55
73 7 0.12
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.53
Consensus pattern (71 bp):
CCCAAAATTTTTTCTTTTACTTTCTTCCTAATTCTTTCATTTCCTCTAAAAAAATTTAGTTTCTT
CAAACC
Found at i:61234512 original size:41 final size:40
Alignment explanation
Indices: 61234464--61234549 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 40
61234454 TTATAAAAGT
** *
61234464 CACAAATAATACGTGGGGTTACTCTAACCTCTTTCCCTTG
1 CACAAATAATACGCAGGGTTACTCTAACATCTTTCCCTTG
61234504 CACNAAATAATACGCAGGGTTACTCTAACATCTTTCCCTTG
1 CAC-AAATAATACGCAGGGTTACTCTAACATCTTTCCCTTG
61234545 CACAA
1 CACAA
61234550 GGACCATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 5 0.12
41 37 0.88
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (40 bp):
CACAAATAATACGCAGGGTTACTCTAACATCTTTCCCTTG
Found at i:61242966 original size:75 final size:75
Alignment explanation
Indices: 61242843--61243312 Score: 859
Period size: 75 Copynumber: 6.3 Consensus size: 75
61242833 TGGCCAAGCT
* *
61242843 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
61242908 AGCAATTTTC
66 AGCAATTTTC
* * * *
61242918 ATTTGTTGTGTAGATTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAACTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
61242983 AGCAATTTTC
66 AGCAATTTTC
**
61242993 ATTTGTTGAATAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
61243058 AGCAATTTTC
66 AGCAATTTTC
61243068 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
61243133 AGCAATTTTC
66 AGCAATTTTC
61243143 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
61243208 AGCAATTTTC
66 AGCAATTTTC
*
61243218 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGAGG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
61243283 AGCAATTTTC
66 AGCAATTTTC
61243293 ATTTGTTGTGTAGGTTTAAC
1 ATTTGTTGTGTAGGTTTAAC
61243313 CCAAATGGGT
Statistics
Matches: 384, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 384 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (75 bp):
ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGAAACTATTGTTTCTGAATAGCTTAGACG
AGCAATTTTC
Found at i:61246231 original size:27 final size:27
Alignment explanation
Indices: 61246200--61246377 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61246190 TAAATTGTAC
61246200 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61246227 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61246253 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61246281 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61246309 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61246336 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61246363 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61246378 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61246314 original size:82 final size:81
Alignment explanation
Indices: 61246201--61246356 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61246191 AAATTGTACA
* *
61246201 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61246265 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61246282 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61246347 TGCGAGTTGA
65 TGCGAATTGA
61246357 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61246368 original size:82 final size:81
Alignment explanation
Indices: 61246197--61246377 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61246187 GATTAAATTG
* *
61246197 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61246262 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61246278 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61246342 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61246360 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61246378 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61246388 original size:27 final size:27
Alignment explanation
Indices: 61246282--61246388 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
61246272 TGACCATGCG
* * * *
61246282 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
61246310 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
61246337 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
61246364 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
61246389 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:61254420 original size:27 final size:27
Alignment explanation
Indices: 61254389--61254566 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61254379 TAAATTGTAC
61254389 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61254416 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61254442 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61254470 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61254498 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61254525 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61254552 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61254567 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61254503 original size:82 final size:81
Alignment explanation
Indices: 61254390--61254545 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61254380 AAATTGTACA
* *
61254390 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61254454 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61254471 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61254536 TGCGAGTTGA
65 TGCGAATTGA
61254546 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61254557 original size:82 final size:81
Alignment explanation
Indices: 61254386--61254566 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61254376 GATTAAATTG
* *
61254386 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61254451 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61254467 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61254531 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61254549 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61254567 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61257272 original size:6 final size:6
Alignment explanation
Indices: 61257258--61257329 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
61257248 AATGTTTCAT
*
61257258 AAAAA- AAAAAG AAAAAG AAGAAAAG AGAAAGAG AAAGAA- AAAAAG AGAAAG
1 AAAAAG AAAAAG AAAAAG -A-AAAAG A-AAA-AG AAA-AAG AAAAAG AAAAAG
61257309 -AAAAG -AAAA- AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG
61257330 GAGAGGCCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
5 19 0.33
6 20 0.35
7 9 0.16
8 9 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:61257281 original size:14 final size:14
Alignment explanation
Indices: 61257264--61257329 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
61257254 TCATAAAAAA
61257264 AAAAGAAAAAGAAG
1 AAAAGAAAAAGAAG
*
61257278 AAAAGAGAAAG-AG
1 AAAAGAAAAAGAAG
61257291 -AAAGAAAAA-AAG
1 AAAAGAAAAAGAAG
* *
61257303 AGAAAGAAAAGAAAAA
1 A-AAAGAAAA-AGAAG
61257319 AAAAGAAAAAG
1 AAAAGAAAAAG
61257330 GAGAGGCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 10 0.23
13 2 0.05
14 19 0.44
15 9 0.21
16 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAG
Found at i:61257281 original size:20 final size:19
Alignment explanation
Indices: 61257258--61257322 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
61257248 AATGTTTCAT
61257258 AAAAAAAAAAGAAAAAGAA
1 AAAAAAAAAAGAAAAAGAA
* * *
61257277 GAAAAGAGAAAGAGAAAGAA
1 -AAAAAAAAAAGAAAAAGAA
*
61257297 AAAAAGAGAAAG-AAAAGAA
1 AAAAA-AAAAAGAAAAAGAA
61257316 AAAAAAA
1 AAAAAAA
61257323 GAAAAAGGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.39
20 22 0.58
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAGAA
Found at i:61258441 original size:181 final size:181
Alignment explanation
Indices: 61258131--61258699 Score: 777
Period size: 181 Copynumber: 3.2 Consensus size: 181
61258121 AATTAAAGAC
* * **
61258131 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTCATTTCCC-GAAAGTTAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTCATTTCCCTG-AAGTTGT
* *
61258195 AGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCA
65 AGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
* * * * *
61258260 TAGCAAACATTATCTCCCTGAAGTTGTAGTGGAATATGTTGAAATCACAAGT
130 TAGCAAACATTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATAACAAAT
*
61258312 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAATCTCATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTCATTTCCCTGAAGTTGTA
* * * * * *
61258377 ATGGAATAGATGGAAGCTATAAATTATAGATCTTGTCTCTCTGAAGTTGCAGTAGAGTAGATCAT
66 GTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT
* *
61258442 AGCAAACATTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAATAACAAAT
131 AGCAAACATTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATAACAAAT
* * * * *
61258493 CTCATTTCCCTGAAGTTACAGTGGAGGAGATTGAAGATAACAAATCTCATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTCATTTCCCTGAAGTTGTA
*
61258558 GTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT
66 GTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT
* * * * * * ** *
61258623 AGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT--CATGGCAAAC
131 AGCAAACATTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATAACAAAT
*
61258671 CTTATCTCCCTAAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
61258700 GTTGAAATCA
Statistics
Matches: 341, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
178 30 0.09
180 2 0.01
181 308 0.90
182 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (181 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTCATTTCCCTGAAGTTGTA
GTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT
AGCAAACATTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATAACAAAT
Found at i:61258646 original size:41 final size:41
Alignment explanation
Indices: 61258589--61258880 Score: 206
Period size: 41 Copynumber: 6.7 Consensus size: 41
61258579 AATTACAGAT
61258589 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
*
61258630 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATGGCAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
* * * * * * * *
61258671 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAATCACAAGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATCATAGCA-AA-C
* * * *
61258715 CTTATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAAC
* * * * * * * *
61258760 CTCATTTCTCTGAAGTTGTAATAGAACAAATTGAAGCTATAAATTACAAAT
1 CTTATCTCTCTGAAGTTGCAGTAGAGC--A--G-ATC-AT--A--GCAAAC
*
61258811 CTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATAGCAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
* * *
61258852 CTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAG
61258881 GTTGAAGTCA
Statistics
Matches: 195, Mismatches: 39, Indels: 34
0.73 0.15 0.13
Matches are distributed among these distances:
41 94 0.48
42 5 0.03
43 4 0.02
44 26 0.13
45 23 0.12
46 4 0.02
47 8 0.04
49 3 0.02
50 1 0.01
51 27 0.14
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (41 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
Found at i:61258653 original size:222 final size:222
Alignment explanation
Indices: 61258412--61258975 Score: 754
Period size: 222 Copynumber: 2.5 Consensus size: 222
61258402 ATAGATCTTG
*
61258412 TCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAACATTATCTCCCTAAAGTTGCAGTGGAGCA
1 TCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTAAAGTTGCAGTGGAGCA
* * *
61258477 GGTTGAAATAACAAATCTCATTTCCCTGAAGTTACAGTGGAGGAGATTGAAGATAACAAATCTCA
66 GGTTGAAATAACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACAAATCTCA
* * * *
61258542 TTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTG
131 TTTCCCTGAAGTTGTAATAGAACAAATTAAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTG
*
61258607 CAGTAGAGCAGATCATAGCAAACCTTA
196 CAGTAGAGCAAATCATAGCAAACCTTA
* *
61258634 TCTCTCTGAAGTTGCAGTAGAGCAGATCATGGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCA
1 TCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTAAAGTTGCAGTGGAGCA
* * * * *
61258699 GGTTGAAATCACAAGTCTTATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTCA
66 GGTTGAAATAACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACAAATCTCA
* *
61258764 TTTCTCTGAAGTTGTAATAGAACAAATTGAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTG
131 TTTCCCTGAAGTTGTAATAGAACAAATTAAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTG
61258829 CAGTAGAGCAAATCATAGCAAACCTTA
196 CAGTAGAGCAAATCATAGCAAACCTTA
* * * * * * * ** *
61258856 TCTCCCTGAAGTTGTAGTGGAGCAGGTTGA-AGTCACAAGTC-CTATCTCCCTGAAGTTAAAATG
1 TCTCTCTGAAGTTGCAGTAGAGCA-GATCATAG-CA-AA--CATTATCTCCCTAAAGTTGCAGTG
* ** * * *
61258919 GGGCAGACTGAAGATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAA
61 GAGCAGGTTGAA-ATAACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAA
61258976 TTTGCAGTGG
Statistics
Matches: 299, Mismatches: 37, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
222 226 0.76
223 5 0.02
224 2 0.01
225 26 0.09
226 40 0.13
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (222 bp):
TCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTAAAGTTGCAGTGGAGCA
GGTTGAAATAACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACAAATCTCA
TTTCCCTGAAGTTGTAATAGAACAAATTAAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTG
CAGTAGAGCAAATCATAGCAAACCTTA
Found at i:61258931 original size:44 final size:45
Alignment explanation
Indices: 61258673--61258975 Score: 149
Period size: 45 Copynumber: 6.7 Consensus size: 45
61258663 TGGCAAACCT
* * ** * * *
61258673 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAA-ATCACAAGTCT
1 TATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCC
* *
61258717 TATCTCTCTGAAGTT-ACAGTGGAGCAGACTGAAGATAGCAAAT-C
1 TATCTCCCTGAAGTTGA-AGTGGAGCAGACTGAAGATAACAAATCC
* * * * * * *
61258761 TCATTTCTCTGAAGTTGTAA-TAGAACAAATTGAAGCTATAAATTACAAATCT
1 T-ATCTCCCTGAAGTTG-AAGTGGAGCAGACTGAAG--AT--A--ACAAATCC
* * * ** *
61258813 TATCTCTCTGAAGTTGCAGTAGAGCA-A---ATCATAGCAAA-CC
1 TATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCC
* ** * *
61258853 TTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG-TCACAAGTCC
1 -TATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCC
* * * *
61258898 TATCTCCCTGAAGTTAAAATGGGGCAGACTGAAGATAACAAATCT
1 TATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCC
* *
61258943 TATCTCCCTAAAGTTGCAGTGGAGCAGACTGAA
1 TATCTCCCTGAAGTTGAAGTGGAGCAGACTGAA
61258976 TTTGCAGTGG
Statistics
Matches: 193, Mismatches: 46, Indels: 39
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.01
41 27 0.14
43 1 0.01
44 60 0.31
45 70 0.36
46 1 0.01
47 4 0.02
49 1 0.01
50 2 0.01
51 25 0.13
52 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCC
Found at i:61264408 original size:28 final size:28
Alignment explanation
Indices: 61264340--61264612 Score: 377
Period size: 28 Copynumber: 9.5 Consensus size: 28
61264330 CATGAGATTG
* * * *
61264340 GCACTAAGTGTGCGTGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61264369 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61264397 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
61264425 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61264453 GCACTAAGTGTGCGAGTTGAGTTTGATTATATA
1 GCACTAAGTGTGC-----GAGTTTGATTATATA
61264486 GCACACTAAGTGTGCGAGTTTGATTATATA
1 G--CACTAAGTGTGCGAGTTTGATTATATA
* *
61264516 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61264544 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61264572 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61264599 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61264613 GACTTAATAT
Statistics
Matches: 222, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
27 23 0.10
28 139 0.63
29 18 0.08
30 16 0.07
33 14 0.06
35 12 0.05
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61264507 original size:91 final size:84
Alignment explanation
Indices: 61264368--61264611 Score: 400
Period size: 91 Copynumber: 2.8 Consensus size: 84
61264358 TAAATTGTAC
61264368 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
61264433 TGTGCAAGTTTGATTATGT
66 TGTGCAAGTTTGATTATGT
61264452 AGCACTAAGTGTGCGAGTTGAGTTTGATTATATAGCACACTAAGTGTGCGAGTTTGATTATATAG
1 AGCACTAAGTGTGC-----GAGTTTGATTATATAG--CACTAAGTGTGCGAGTTTGATTATATAG
61264517 CACTAAGTGTGCAAGTTTGATTATGT
59 CACTAAGTGTGCAAGTTTGATTATGT
* *
61264543 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGTGAG-TTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
61264607 TGTGC
66 TGTGC
61264612 GGACTTAATA
Statistics
Matches: 151, Mismatches: 2, Indels: 15
0.90 0.01 0.09
Matches are distributed among these distances:
83 23 0.15
84 28 0.19
86 16 0.11
89 16 0.11
91 68 0.45
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (84 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
TGTGCAAGTTTGATTATGT
Found at i:61264581 original size:119 final size:119
Alignment explanation
Indices: 61264370--61264591 Score: 399
Period size: 119 Copynumber: 1.9 Consensus size: 119
61264360 AATTGTACAG
*
61264370 CACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTG
1 CACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTAAGTG
*
61264435 TGCAAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGAGTTTGATTATATAGCA
66 TGCAAGTTTGATTATATAGCACTAAGTGTGCGAGTTGAGTTTGATTATATAGCA
*
61264489 CACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATGTAGCACTAAGTG
1 CACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTAAGTG
* *
61264554 TGCGAGTTTGATTATATAGCACTAAGTGTGTGAGTTGA
66 TGCAAGTTTGATTATATAGCACTAAGTGTGCGAGTTGA
61264592 TTATATAGCA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 98 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (119 bp):
CACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTAAGTG
TGCAAGTTTGATTATATAGCACTAAGTGTGCGAGTTGAGTTTGATTATATAGCA
Found at i:61272417 original size:27 final size:28
Alignment explanation
Indices: 61272251--61272404 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
61272241 CATGAGATTG
* * * *
61272251 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61272280 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61272308 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61272336 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61272364 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61272391 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61272405 GACTTAATAT
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.20
28 78 0.65
29 18 0.15
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61279580 original size:16 final size:18
Alignment explanation
Indices: 61279561--61279593 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
61279551 CATACAAATT
61279561 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
61279577 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
61279594 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:61280231 original size:43 final size:43
Alignment explanation
Indices: 61280158--61280321 Score: 233
Period size: 43 Copynumber: 3.8 Consensus size: 43
61280148 CTGAACTCAT
*
61280158 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
* * **
61280200 TCACCGGCATTATAGCCTTCTAGGATCGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
61280243 TCACCGGCATTATAGCCTGCTAGGCTCGAAG-CTCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCT-GATATTAAC
* * *
61280286 TAACCGGCATTATAGCCTGCTAGGTTCAAAGCCTGA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGA
61280322 ATAGTAACGT
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 13 0.12
43 92 0.86
44 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
Found at i:61283308 original size:21 final size:22
Alignment explanation
Indices: 61283269--61283309 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61283259 GTTGAATTGT
61283269 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
61283291 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
61283310 GTGTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:61284912 original size:49 final size:49
Alignment explanation
Indices: 61284840--61285026 Score: 216
Period size: 49 Copynumber: 3.8 Consensus size: 49
61284830 TGAGGTCACG
*
61284840 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
61284889 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-TGGTCGCA
** *
61284940 TGTGTAGTACTAAGTGCA-ATTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
61284988 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
61285027 GCTTCGGCTA
Statistics
Matches: 110, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
48 23 0.21
49 51 0.46
50 14 0.13
51 22 0.20
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:61285009 original size:99 final size:100
Alignment explanation
Indices: 61284835--61285021 Score: 322
Period size: 99 Copynumber: 1.9 Consensus size: 100
61284825 TATTGTGAGG
* *
61284835 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
61284900 AAGTGTAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
* *
61284935 TCACGTGTGTAGTACTAAGTGCA-ATTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
61284999 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
61285022 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 59 0.72
100 23 0.28
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
Found at i:61289299 original size:12 final size:11
Alignment explanation
Indices: 61289277--61289309 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
61289267 AAAAAAGTTC
61289277 AAAATTCGAAA
1 AAAATTCGAAA
61289288 AAAATTCAGAAA
1 AAAATTC-GAAA
61289300 AAAATTCGAA
1 AAAATTCGAA
61289310 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (11 bp):
AAAATTCGAAA
Found at i:61290405 original size:30 final size:28
Alignment explanation
Indices: 61290371--61290427 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
61290361 AGTTGAAAAA
* *
61290371 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
61290401 GAAAAAGAGAGTGAGCAAAAAGAAAGT
1 GAAAAAGAGAGTGAGCAAAAAGAAAGT
61290428 GTGGAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 16 0.64
ACGTcount: A:0.53, C:0.04, G:0.30, T:0.14
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:61294790 original size:43 final size:43
Alignment explanation
Indices: 61294665--61294791 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
61294655 CGAAAAGCTC
* * *
61294665 ATACAATGCCAATGTTCCAGACGTGGTCTTACATGT-AATCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA
* * * *
61294707 ATATCAATCCCACTGTCCCAGACAGGGTCTTACAC-AAAATCAA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA
*
61294750 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA
61294792 TAAGTCAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 30 0.43
43 40 0.57
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA
Found at i:61295550 original size:10 final size:10
Alignment explanation
Indices: 61295535--61295591 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
61295525 AACTCCGACC
61295535 AGCTCAATTG
1 AGCTCAATTG
* *
61295545 AGCTCATTTA
1 AGCTCAATTG
*
61295555 AGCTCAATCG
1 AGCTCAATTG
*
61295565 AGCTCAATTT
1 AGCTCAATTG
*
61295575 AGCTACAATTC
1 AGCT-CAATTG
61295586 AGCTCA
1 AGCTCA
61295592 TTTATTTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
10 29 0.76
11 9 0.24
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:61295558 original size:20 final size:20
Alignment explanation
Indices: 61295535--61295595 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
61295525 AACTCCGACC
61295535 AGCTCAATTGAGCTCATTTA
1 AGCTCAATTGAGCTCATTTA
*
61295555 AGCTCAATCGAGCTCAATTT-
1 AGCTCAATTGAGCTC-ATTTA
*
61295575 AGCTACAATTCAGCTCATTTA
1 AGCT-CAATTGAGCTCATTTA
61295596 TTTTATTGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (20 bp):
AGCTCAATTGAGCTCATTTA
Found at i:61300193 original size:11 final size:11
Alignment explanation
Indices: 61300179--61300218 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
61300169 AACAAGCTAA
61300179 TGAGCTGGAGT
1 TGAGCTGGAGT
61300190 TGAGCTGGAGT
1 TGAGCTGGAGT
*
61300201 TGAGCT--CGT
1 TGAGCTGGAGT
61300210 TGAGCTGGA
1 TGAGCTGGA
61300219 ACTGAGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.17, C:0.12, G:0.42, T:0.28
Consensus pattern (11 bp):
TGAGCTGGAGT
Found at i:61300213 original size:20 final size:20
Alignment explanation
Indices: 61300188--61300237 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
61300178 ATGAGCTGGA
**
61300188 GTTGAGCTGGAGTTGAGCTC
1 GTTGAGCTGGAACTGAGCTC
*
61300208 GTTGAGCTGGAACTGAGCTT
1 GTTGAGCTGGAACTGAGCTC
*
61300228 GCTGAGCTGG
1 GTTGAGCTGG
61300238 TTGCGAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (20 bp):
GTTGAGCTGGAACTGAGCTC
Found at i:61302180 original size:42 final size:42
Alignment explanation
Indices: 61302133--61302229 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
61302123 AGATTATGAG
* * *
61302133 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
61302175 AGAAAATGAGAGAATCTTGAATGAAATTGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
61302217 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
61302230 AAAGGAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.20
42 40 0.80
ACGTcount: A:0.57, C:0.04, G:0.24, T:0.15
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:61302258 original size:18 final size:18
Alignment explanation
Indices: 61302235--61302294 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
61302225 AAGAAAAAGG
*
61302235 AAAAGAGAGTGAGAGTGA
1 AAAAGAGAATGAGAGTGA
* * *
61302253 AAAAGAAAAAGAGAATGA
1 AAAAGAGAATGAGAGTGA
** *
61302271 AAAAGAGTTTGAGAGAGA
1 AAAAGAGAATGAGAGTGA
61302289 AAAAGA
1 AAAAGA
61302295 ATGTGAACAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (18 bp):
AAAAGAGAATGAGAGTGA
Found at i:61313367 original size:27 final size:27
Alignment explanation
Indices: 61313336--61313513 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61313326 TAAATTGTAC
61313336 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61313363 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61313389 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61313417 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61313445 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61313472 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61313499 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61313514 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61313450 original size:82 final size:81
Alignment explanation
Indices: 61313337--61313492 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61313327 AAATTGTACA
* *
61313337 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61313401 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61313418 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61313483 TGCGAGTTGA
65 TGCGAATTGA
61313493 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61313504 original size:82 final size:81
Alignment explanation
Indices: 61313333--61313513 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61313323 GATTAAATTG
* *
61313333 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61313398 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61313414 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61313478 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61313496 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61313514 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61319700 original size:53 final size:53
Alignment explanation
Indices: 61319620--61319725 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
61319610 CGATATCCAA
61319620 ACCTATTTACTGGTAAGATTTTCGAGGACGAAAATTTCTTAAGTGAGGGAGAG
1 ACCTATTTACTGGTAAGATTTTCGAGGACGAAAATTTCTTAAGTGAGGGAGAG
61319673 ACCTATTTACTGGTAAGATTTTCGAGGACGAAAATTTCTTAAGTGAGGGAGAG
1 ACCTATTTACTGGTAAGATTTTCGAGGACGAAAATTTCTTAAGTGAGGGAGAG
61319726 TTGTGACAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (53 bp):
ACCTATTTACTGGTAAGATTTTCGAGGACGAAAATTTCTTAAGTGAGGGAGAG
Found at i:61322684 original size:13 final size:13
Alignment explanation
Indices: 61322666--61322694 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61322656 GATCACCTTT
61322666 TCGAGATTGATTC
1 TCGAGATTGATTC
61322679 TCGAGATTGATTC
1 TCGAGATTGATTC
61322692 TCG
1 TCG
61322695 GTGGACTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (13 bp):
TCGAGATTGATTC
Found at i:61322899 original size:20 final size:20
Alignment explanation
Indices: 61322868--61322922 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
61322858 AGCTCTGTCC
61322868 AGCTCAAATCCAGCTTATTCG
1 AGCTC-AATCCAGCTTATTCG
* * *
61322889 AGCTCAATCCAACTTGTTTG
1 AGCTCAATCCAGCTTATTCG
* *
61322909 AGCTAAATCGAGCT
1 AGCTCAATCCAGCT
61322923 CACTCCTAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (20 bp):
AGCTCAATCCAGCTTATTCG
Found at i:61324875 original size:24 final size:23
Alignment explanation
Indices: 61324848--61324903 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
61324838 NNAAATCCCT
**
61324848 TACCATTTCGTACCAATTCCCAAA
1 TACCATTTCGTACCAA-AACCAAA
***
61324872 TACCAAAACGTACCAAAACCAAA
1 TACCATTTCGTACCAAAACCAAA
61324895 TACCATTTC
1 TACCATTTC
61324904 TTAATTAATC
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.41, C:0.32, G:0.04, T:0.23
Consensus pattern (23 bp):
TACCATTTCGTACCAAAACCAAA
Found at i:61328210 original size:16 final size:15
Alignment explanation
Indices: 61328189--61328233 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
61328179 AGAAAGTTGT
61328189 AAAAAAATAAAAGAA
1 AAAAAAATAAAAGAA
*
61328204 GAGAAAAA-AAAAGAA
1 -AAAAAAATAAAAGAA
61328219 AAAGAAAATAAAAGA
1 AAA-AAAATAAAAGA
61328234 GAGTGACAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (15 bp):
AAAAAAATAAAAGAA
Found at i:61328231 original size:21 final size:21
Alignment explanation
Indices: 61328169--61328231 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
61328159 CAAATGAGAG
* **
61328169 AAAAAGAAAAAGAAAGTTGTAA
1 AAAAAGAAAAAGAAA-ATAAAA
* * *
61328191 AAAAA-TAAAAGAAGAGAAAA
1 AAAAAGAAAAAGAAAATAAAA
61328211 AAAAAGAAAAAGAAAATAAAA
1 AAAAAGAAAAAGAAAATAAAA
61328232 GAGAGTGACA
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 7 0.23
21 19 0.61
22 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAATAAAA
Found at i:61331690 original size:30 final size:29
Alignment explanation
Indices: 61331654--61331752 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 29
61331644 CGAGCTCACT
61331654 CCTAGCTCATA-TTCAGCTCACGAGCTAAA
1 CCTAGCTCA-ACTTCAGCTCACGAGCTAAA
* * * *
61331683 CCATAGCTCAACTTCAGCTTAGGAGTTTAA
1 CC-TAGCTCAACTTCAGCTCACGAGCTAAA
* *
61331713 TCTCAGCTCAACTTTAGCTCACGAGCTAAA
1 CCT-AGCTCAACTTCAGCTCACGAGCTAAA
*
61331743 GCTTAGCTCA
1 -CCTAGCTCA
61331753 TTTTAGTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
29 4 0.07
30 49 0.91
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CCTAGCTCAACTTCAGCTCACGAGCTAAA
Found at i:61339350 original size:40 final size:40
Alignment explanation
Indices: 61339313--61339443 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
61339303 GCTACTCGTT
*
61339313 CAAATGCCTTCGAGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATT-CAGTAACTCGCA
* * *
61339353 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTCAGTAACTCGCA
* * * * *
61339393 CCAATGCCTTCG-GGCTTAGCCCGAAATT-AGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCG-GATTCAGTAACTCGCA
61339432 CAAATGCCTTCG
1 CAAATGCCTTCG
61339444 GATCTTAGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.39
40 47 0.59
41 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGAGACATAACCCGGATTCAGTAACTCGCA
Found at i:61339438 original size:39 final size:40
Alignment explanation
Indices: 61339342--61339444 Score: 163
Period size: 39 Copynumber: 2.6 Consensus size: 40
61339332 GCCCGGTTAC
* *
61339342 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAATT
* *
61339382 AGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAATT
1 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAATT
61339421 AGTAACTCGCACAAATGCCTTCGG
1 AGTAACTCGCACAAATGCCTTCGG
61339445 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.59
40 24 0.41
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAATT
Done.