Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 218 of 325
Found at i:67580798 original size:31 final size:31
Alignment explanation
Indices: 67580760--67580828 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
67580750 TGTTTGACTA
67580760 TTGAGTGCTTAATTATTGAACCTTAAACACT
1 TTGAGTGCTTAATTATTGAACCTTAAACACT
67580791 TTGAGTGCTTAATTATTGAACCTTAAACACT
1 TTGAGTGCTTAATTATTGAACCTTAAACACT
67580822 TTGAGTG
1 TTGAGTG
67580829 ATTTGAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (31 bp):
TTGAGTGCTTAATTATTGAACCTTAAACACT
Found at i:67585096 original size:2 final size:2
Alignment explanation
Indices: 67585089--67585124 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
67585079 ACATTTAAAC
67585089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67585125 CACCTATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67587616 original size:21 final size:20
Alignment explanation
Indices: 67587551--67587619 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 20
67587541 CACAAAAGCA
*
67587551 CATAAGTGCTAAACGAAAACC
1 CATAAG-GCTGAACGAAAACC
* * * * * *
67587572 CGTGAGGTTGAACGGAAGCT
1 CATAAGGCTGAACGAAAACC
67587592 CATAAGAGCTGAACGAAAACC
1 CATAAG-GCTGAACGAAAACC
67587613 CATAAGG
1 CATAAGG
67587620 GTTAAATTAA
Statistics
Matches: 34, Mismatches: 13, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (20 bp):
CATAAGGCTGAACGAAAACC
Found at i:67587641 original size:42 final size:42
Alignment explanation
Indices: 67587587--67587666 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
67587577 GGTTGAACGG
* *
67587587 AAGCTCATAAGAGCTGAACGA-AAACCCATAAGGGTTAAATTA
1 AAGCTCAAAAGAGCT-AAAGAGAAACCCATAAGGGTTAAATTA
*
67587629 AAGCTCAAAAGAGCTAAAGAGAAACCCATTAGGGTTAA
1 AAGCTCAAAAGAGCTAAAGAGAAACCCATAAGGGTTAA
67587667 TCGGAAACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.17
Consensus pattern (42 bp):
AAGCTCAAAAGAGCTAAAGAGAAACCCATAAGGGTTAAATTA
Found at i:67594158 original size:18 final size:18
Alignment explanation
Indices: 67594135--67594170 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
67594125 GATATGATTC
67594135 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
67594153 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
67594171 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:67594516 original size:35 final size:37
Alignment explanation
Indices: 67594460--67594550 Score: 150
Period size: 35 Copynumber: 2.5 Consensus size: 37
67594450 AATTATATCT
67594460 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
67594497 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCATA
67594533 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
67594551 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.37
36 16 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:67594558 original size:17 final size:19
Alignment explanation
Indices: 67594460--67594550 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
67594450 AATTATATCT
67594460 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
67594479 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
67594497 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
67594514 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
67594533 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
67594551 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:67594705 original size:20 final size:20
Alignment explanation
Indices: 67594668--67594706 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67594658 TTGGACTTCG
* **
67594668 TTTTTTTTTTGGGTTTATTA
1 TTTTGTTTTTGGACTTATTA
67594688 TTTTGTTTTTGGACTTATT
1 TTTTGTTTTTGGACTTATT
67594707 TCTAGGCCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTGTTTTTGGACTTATTA
Found at i:67594989 original size:44 final size:45
Alignment explanation
Indices: 67594899--67595082 Score: 171
Period size: 44 Copynumber: 4.1 Consensus size: 45
67594889 GGAAGGTGAT
* * *
67594899 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
67594944 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
67594988 ATATG-TCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
67595033 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
67595080 ATC
1 ATC
67595083 ATCTTGGATC
Statistics
Matches: 107, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
43 7 0.07
44 42 0.39
45 27 0.25
46 1 0.01
47 19 0.18
48 5 0.05
49 6 0.06
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:67595174 original size:77 final size:77
Alignment explanation
Indices: 67595022--67595237 Score: 369
Period size: 77 Copynumber: 2.8 Consensus size: 77
67595012 ATGTAAACAC
67595022 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCC-TCTAATACAGAGATGCCAAATCATCT
67595087 TGGATCTGCTTCA
65 TGGATCTGCTTCA
*
67595100 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCTCTAATACAGAGATGCCAAATCATCTT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCTCTAATACAGAGATGCCAAATCATCTT
67595165 GGATCTGCTTCA
66 GGATCTGCTTCA
* * **
67595177 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCCTCTAATACAGAGATGCCAAATC
67595238 TGTTTCTTCG
Statistics
Matches: 131, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
77 73 0.56
78 58 0.44
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (77 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCA
Found at i:67595210 original size:37 final size:37
Alignment explanation
Indices: 67595084--67595210 Score: 96
Period size: 37 Copynumber: 3.4 Consensus size: 37
67595074 TGCCAAATCA
* *
67595084 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTG
1 TCTTCGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* ** * ** * *
67595121 TCTTCGATCTGCTCCCCTCTAA--TACAGAGATGCCAAATCA
1 TCTTCGATCTGCTTCAAT-GAAGGT-CAGATCTG-C-TAT-G
*
67595161 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTCGATCTGCTTCAATGAAGGTCAGATCTGCTATG
67595198 TCTTCGATCTGCT
1 TCTTCGATCTGCT
67595211 CTCCGTCGAA
Statistics
Matches: 63, Mismatches: 20, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
36 1 0.02
37 32 0.51
38 5 0.08
39 4 0.06
40 20 0.32
41 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (37 bp):
TCTTCGATCTGCTTCAATGAAGGTCAGATCTGCTATG
Found at i:67595572 original size:220 final size:220
Alignment explanation
Indices: 67595179--67595771 Score: 956
Period size: 220 Copynumber: 2.7 Consensus size: 220
67595169 CTGCTTCAAT
* *
67595179 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTC
* * *
67595244 TTCGATTTGTT-TTTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGGGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
* *
67595308 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAACTCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
*
67595373 GATCTACTTCGATGTGAAGACATCC
196 GATCTACTTCGATGTGAAAACATCC
* *
67595398 GAAGGTTAGATTTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTATTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTC
* *
67595463 TTCGATTTGTTCTCTGACAGTACAGAGATACCAAATCATCTTAGATCTGCTTCAGCATAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
67595528 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
67595593 GATCTACTTCGATGTGAAAACATCC
196 GATCTACTTCGATGTGAAAACATCC
* * *
67595618 GAAGGTTAGATCTACTATGTCTTCGATCTGCTCTTCATTGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTC
* * ** * * *
67595683 TTCGATTTGTTCTCTGACAATACAAAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACT
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
* *
67595748 TGAAGGTCAAATCTGCTATG-CTTT
131 TGAAAGCCAAATCTGCTATGTCTTT
67595772 ATCCTGTTAC
Statistics
Matches: 345, Mismatches: 28, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
219 76 0.22
220 269 0.78
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:67604616 original size:23 final size:22
Alignment explanation
Indices: 67604586--67604630 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
67604576 AAATTAAATC
67604586 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
67604609 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
67604631 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:67604665 original size:35 final size:37
Alignment explanation
Indices: 67604602--67604680 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
67604592 ATTACAAAAT
67604602 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
67604638 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
67604673 CATATCAT
1 CATATCAT
67604681 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:67604678 original size:14 final size:15
Alignment explanation
Indices: 67604623--67604678 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
67604613 AGATTGCATA
67604623 TCATATCTAAGATTG
1 TCATATCTAAGATTG
67604638 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
67604656 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
67604673 -CATATC
1 TCATATC
67604679 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:67604688 original size:17 final size:19
Alignment explanation
Indices: 67604609--67604680 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
67604599 AATCATATCT
67604609 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
67604628 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
67604646 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
67604663 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
67604681 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:67606889 original size:40 final size:39
Alignment explanation
Indices: 67606740--67606891 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
67606730 AATGTTCGAG
*
67606740 TGATATCCGGGCTAAGCCTGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
67606779 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
67606818 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
67606857 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
67606892 GGTTACCATA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:67606907 original size:40 final size:40
Alignment explanation
Indices: 67606746--67606921 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
67606736 CGAGTGATAT
* * ** *
67606746 CCGGGCTAAG-CCTGAAGGCAATTGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** *
67606785 CCGGGCTAAG-CCCGAAGGCAATTGTGCAAGCTATGATAC
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
67606824 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
67606863 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
67606903 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
67606922 TGTTTTGAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 80 0.67
40 40 0.33
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:67608894 original size:7 final size:7
Alignment explanation
Indices: 67608882--67609008 Score: 51
Period size: 7 Copynumber: 17.7 Consensus size: 7
67608872 ACTAATTAAT
67608882 CTAAACC
1 CTAAACC
67608889 CTAAACC
1 CTAAACC
*
67608896 CTTAATCC
1 C-TAAACC
*
67608904 CTAAACT
1 CTAAACC
*
67608911 TTAAACC
1 CTAAACC
*
67608918 CTAAAATC
1 CT-AAACC
*
67608926 CTAAAAC
1 CTAAACC
*
67608933 ATAAACC
1 CTAAACC
* *
67608940 ATTAACC
1 CTAAACC
* *
67608947 TTGAACCC
1 CT-AAACC
67608955 CT-AACC
1 CTAAACC
67608961 CTTAAACC
1 C-TAAACC
*
67608969 TTAAACC
1 CTAAACC
*
67608976 C-CAACC
1 CTAAACC
67608982 CTTAAACC
1 C-TAAACC
* *
67608990 ATAATCC
1 CTAAACC
*
67608997 ATAAACC
1 CTAAACC
*
67609004 TTAAA
1 CTAAA
67609009 ATAGTAACTC
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
6 9 0.10
7 56 0.63
8 24 0.27
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:67608907 original size:15 final size:14
Alignment explanation
Indices: 67608883--67609066 Score: 63
Period size: 14 Copynumber: 12.9 Consensus size: 14
67608873 CTAATTAATC
67608883 TAAACCCTAAACCCT
1 TAAACCCTAAA-CCT
* *
67608898 TAATCCCTAAACTT
1 TAAACCCTAAACCT
67608912 TAAACCCTAAAATCC-
1 TAAACCCT-AAA-CCT
* *
67608927 TAAAACATAAACCAT
1 TAAACCCTAAACC-T
* * *
67608942 T-AACCTTGAACCCC
1 TAAACCCT-AAACCT
67608956 T-AACCCTTAAACCT
1 TAAACCC-TAAACCT
* *
67608970 TAAACCCCAACCCT
1 TAAACCCTAAACCT
* * *
67608984 TAAACCATAATCCA
1 TAAACCCTAAACCT
* *
67608998 TAAACCTTAAA--A
1 TAAACCCTAAACCT
* *
67609010 TAGTAACTCATAAACAT
1 TA--AAC-CCTAAACCT
* *
67609027 TAAACCCTTAACCA
1 TAAACCCTAAACCT
* * *
67609041 TATACCCTAAATCG
1 TAAACCCTAAACCT
67609055 TAAACCCTAAAC
1 TAAACCCTAAAC
67609067 TATAATAATA
Statistics
Matches: 124, Mismatches: 33, Indels: 25
0.68 0.18 0.14
Matches are distributed among these distances:
12 3 0.02
13 2 0.02
14 78 0.63
15 38 0.31
16 1 0.01
17 2 0.02
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:67608965 original size:21 final size:20
Alignment explanation
Indices: 67608936--67608986 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
67608926 CTAAAACATA
* *
67608936 AACCATTAACCTTGAACCCC
1 AACCCTTAACCTTAAACCCC
67608956 TAACCCTTAAACCTTAAACCCC
1 -AACCCTT-AACCTTAAACCCC
67608978 AACCCTTAA
1 AACCCTTAA
67608987 ACCATAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.48
22 12 0.44
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (20 bp):
AACCCTTAACCTTAAACCCC
Found at i:67608987 original size:21 final size:22
Alignment explanation
Indices: 67608943--67608989 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
67608933 ATAAACCATT
*
67608943 AACCTTGAACCCCTAACCCTTA
1 AACCTTAAACCCCTAACCCTTA
67608965 AACCTTAAACCCC-AACCCTTA
1 AACCTTAAACCCCTAACCCTTA
67608986 AACC
1 AACC
67608990 ATAATCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.19
Consensus pattern (22 bp):
AACCTTAAACCCCTAACCCTTA
Found at i:67609177 original size:7 final size:7
Alignment explanation
Indices: 67609165--67609319 Score: 60
Period size: 7 Copynumber: 21.7 Consensus size: 7
67609155 ACTAATTAAT
67609165 CTAAACC
1 CTAAACC
67609172 CTAAACC
1 CTAAACC
* *
67609179 CTTAATCT
1 C-TAAACC
**
67609187 CTAATTC
1 CTAAACC
*
67609194 TTAAACC
1 CTAAACC
*
67609201 ATAAACC
1 CTAAACC
*
67609208 CTAAATC
1 CTAAACC
*
67609215 CTAAAAC
1 CTAAACC
*
67609222 ATAAACC
1 CTAAACC
*
67609229 CTGAACCC
1 CT-AAACC
67609237 CT-AACC
1 CTAAACC
* *
67609243 TTTAACCC
1 -CTAAACC
*
67609251 CTAACCC
1 CTAAACC
*
67609258 CTAAGCC
1 CTAAACC
*
67609265 ATAAACC
1 CTAAACC
* *
67609272 CCAATCC
1 CTAAACC
*
67609279 TTAAACC
1 CTAAACC
* *
67609286 ATAATCC
1 CTAAACC
67609293 CTAAACC
1 CTAAACC
*
67609300 CATAATCC
1 C-TAAACC
*
67609308 ATAAACC
1 CTAAACC
*
67609315 TTAAA
1 CTAAA
67609320 ATAGTAACTC
Statistics
Matches: 107, Mismatches: 36, Indels: 10
0.70 0.24 0.07
Matches are distributed among these distances:
6 3 0.03
7 85 0.79
8 19 0.18
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:67609200 original size:29 final size:28
Alignment explanation
Indices: 67609166--67609236 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
67609156 CTAATTAATC
* ** *
67609166 TAAACCCTAAACCCTTAATCTCTAATTCT
1 TAAACCCTAAACCCTAAATC-CTAAAACA
*
67609195 TAAACCATAAACCCTAAATCCTAAAACA
1 TAAACCCTAAACCCTAAATCCTAAAACA
*
67609223 TAAACCCTGAACCC
1 TAAACCCTAAACCC
67609237 CTAACCTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
28 17 0.49
29 18 0.51
ACGTcount: A:0.42, C:0.32, G:0.01, T:0.24
Consensus pattern (28 bp):
TAAACCCTAAACCCTAAATCCTAAAACA
Found at i:67609212 original size:14 final size:14
Alignment explanation
Indices: 67609195--67609382 Score: 67
Period size: 14 Copynumber: 13.2 Consensus size: 14
67609185 CTCTAATTCT
* *
67609195 TAAACCATAAACCC
1 TAAACCCTAAACCA
* *
67609209 TAAATCCTAAAACA
1 TAAACCCTAAACCA
* *
67609223 TAAACCCTGAACCCC
1 TAAACCCT-AAACCA
* * *
67609238 T-AACCTTTAACCCC
1 TAAACC-CTAAACCA
* *
67609252 TAACCCCTAAGCCA
1 TAAACCCTAAACCA
* * *
67609266 TAAACCCCAATCCT
1 TAAACCCTAAACCA
* * *
67609280 TAAACCATAATCCC
1 TAAACCCTAAACCA
*
67609294 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
67609309 TAAACCTTAAA--A
1 TAAACCCTAAACCA
*
67609321 TAGTAACTCATAAACCA
1 TA--AAC-CCTAAACCA
*
67609338 TAAACCCTTAACCA
1 TAAACCCTAAACCA
** *
67609352 TATGCCCTAAACCG
1 TAAACCCTAAACCA
* *
67609366 TAAACCGTAAACTA
1 TAAACCCTAAACCA
67609380 TAA
1 TAA
67609383 TGATAATTAA
Statistics
Matches: 129, Mismatches: 36, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
12 3 0.02
14 95 0.74
15 28 0.22
17 3 0.02
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:67609219 original size:21 final size:21
Alignment explanation
Indices: 67609195--67609377 Score: 111
Period size: 21 Copynumber: 8.6 Consensus size: 21
67609185 CTCTAATTCT
*
67609195 TAAACCATAAACCCTAAATCC
1 TAAACCATAAACCCTAAACCC
* *
67609216 TAAAACATAAACCCTGAACCCC
1 TAAACCATAAACCCT-AAACCC
* * *
67609238 T-AACCTTTAACCCCTAACCCC
1 TAAACC-ATAAACCCTAAACCC
* * * *
67609259 TAAGCCATAAACCCCAATCCT
1 TAAACCATAAACCCTAAACCC
*
67609280 TAAACCATAATCCCTAAACCC
1 TAAACCATAAACCCTAAACCC
* * *
67609301 ATAATCCATAAACCTTAAA--A
1 -TAAACCATAAACCCTAAACCC
*
67609321 TAGTAACTCATAAACCATAAACCC
1 TA--AAC-CATAAACCCTAAACCC
* ** *
67609345 TTAACCATATGCCCTAAACCG
1 TAAACCATAAACCCTAAACCC
*
67609366 TAAACCGTAAAC
1 TAAACCATAAAC
67609378 TATAATGATA
Statistics
Matches: 120, Mismatches: 33, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.02
21 72 0.60
22 45 0.38
24 1 0.01
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCCTAAACCC
Found at i:67609273 original size:15 final size:15
Alignment explanation
Indices: 67609253--67609314 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
67609243 TTTAACCCCT
* *
67609253 AACCCCTAAGCCATA
1 AACCCATAATCCATA
* *
67609268 AACCC-CAATCCTTA
1 AACCCATAATCCATA
*
67609282 AA-CCATAATCCCTA
1 AACCCATAATCCATA
67609296 AACCCATAATCCATA
1 AACCCATAATCCATA
67609311 AACC
1 AACC
67609315 TTAAAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.05
14 17 0.44
15 20 0.51
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.18
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:67610208 original size:40 final size:40
Alignment explanation
Indices: 67610079--67610209 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 40
67610069 CATAAGTTTT
* * * * **
67610079 GCGGCTTTTTTTAAAAAGCGCCGCTAAAGGT-GAACCTATA
1 GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCG-TGCTATA
* *
67610119 GCGGCGTTTGTTAAAAAGTGCCGCTAATGCTCGTGCTTTA
1 GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCGTGCTATA
* * *
67610159 GCGGTGTTTTTTGAAAAA-TGTCGCTAATGCTTGAT-CTATA
1 GCGGCGTTTTTT-AAAAAGTGCCGCTAATGCTCG-TGCTATA
*
67610199 GTGGCGTTTTT
1 GCGGCGTTTTT
67610210 CATTCAAACA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
40 66 0.90
41 7 0.10
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCGTGCTATA
Found at i:67614957 original size:14 final size:16
Alignment explanation
Indices: 67614938--67614969 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
67614928 TTCCTGGAAG
67614938 CTTTCT-TTTT-TTTC
1 CTTTCTCTTTTGTTTC
67614952 CTTTCTCTTTTGTTTC
1 CTTTCTCTTTTGTTTC
67614968 CT
1 CT
67614970 CTTCCCCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (16 bp):
CTTTCTCTTTTGTTTC
Found at i:67615202 original size:28 final size:28
Alignment explanation
Indices: 67615170--67615226 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
67615160 TACAGTTAGG
67615170 AGTCTTAATTGGATGTTGAATTAAGGGA
1 AGTCTTAATTGGATGTTGAATTAAGGGA
67615198 AGTCTTAATTGGATGTTGAATTAAGGGA
1 AGTCTTAATTGGATGTTGAATTAAGGGA
67615226 A
1 A
67615227 CTAACTGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (28 bp):
AGTCTTAATTGGATGTTGAATTAAGGGA
Found at i:67616021 original size:40 final size:40
Alignment explanation
Indices: 67615973--67616048 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
67615963 TGGTACACTA
* *
67615973 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCTATGTT
1 TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCTATGTT
*
67616013 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCTA
1 TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCTA
67616049 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.13, C:0.09, G:0.37, T:0.41
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCTATGTT
Found at i:67623606 original size:40 final size:40
Alignment explanation
Indices: 67623545--67623620 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
67623535 CGGTACACTA
* * *
67623545 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATGTT
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCATGTT
*
67623585 TGGTGTGTAGAGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCA
67623621 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCATGTT
Found at i:67626115 original size:21 final size:21
Alignment explanation
Indices: 67626091--67626163 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
67626081 CCGTGAGGGT
*
67626091 TGAACGGAAGCTCATAAGAGC
1 TGAACGAAAGCTCATAAGAGC
* * * *
67626112 TGAACGAAAACACATAAGGGT
1 TGAACGAAAGCTCATAAGAGC
* *
67626133 TGAACTAAAGCTCAAAAGAGC
1 TGAACGAAAGCTCATAAGAGC
*
67626154 TAAACTGAAA
1 TGAAC-GAAA
67626164 TCCATTAGGG
Statistics
Matches: 38, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
21 35 0.92
22 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (21 bp):
TGAACGAAAGCTCATAAGAGC
Found at i:67626118 original size:42 final size:42
Alignment explanation
Indices: 67626055--67626190 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
67626045 AGGCTGCACA
* * * * *
67626055 GAAGCACATAAGTGCTAAACGAAAACCCGTGAGGGTTGAACG
1 GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
* *
67626097 GAAGCTCATAAGAGCTGAACGAAAACACATAAGGGTTGAACT
1 GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
* * * *
67626139 AAAGCTCAAAAGAGCTAAACTGAAATC-CATTAGGGTT-AATCG
1 GAAGCTCATAAGAGCTAAAC-GAAAACACATAAGGGTTGAA-CG
*
67626181 GAAACTCATA
1 GAAGCTCATA
67626191 TGAGTTAACT
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.03
42 69 0.91
43 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
Found at i:67628939 original size:28 final size:28
Alignment explanation
Indices: 67628898--67628953 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
67628888 TTATATGTAC
*
67628898 ACTGCTTATTTTATGAGAACTGTTGTGT
1 ACTGCTTATGTTATGAGAACTGTTGTGT
67628926 ACTGCTTATGTTATGAGAACTGTTGTGT
1 ACTGCTTATGTTATGAGAACTGTTGTGT
67628954 TGTGTGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (28 bp):
ACTGCTTATGTTATGAGAACTGTTGTGT
Found at i:67632401 original size:35 final size:35
Alignment explanation
Indices: 67632348--67632443 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
67632338 ATGCTCATAT
* *
67632348 GAGCCAATCCATCTAAAACACACCAACGCTCGTAA
1 GAGCTAATCCATCCAAAACACACCAACGCTCGTAA
* *
67632383 GAGCTAATCCCTCCAAAACACACCAATGCTCGTAA
1 GAGCTAATCCATCCAAAACACACCAACGCTCGTAA
* * * *
67632418 AAGCTAGTCCAACCGAAACACACCAA
1 GAGCTAATCCATCCAAAACACACCAA
67632444 AACAGAGATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.41, C:0.34, G:0.11, T:0.14
Consensus pattern (35 bp):
GAGCTAATCCATCCAAAACACACCAACGCTCGTAA
Found at i:67639769 original size:26 final size:26
Alignment explanation
Indices: 67639740--67639817 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
67639730 CAACCTTAAC
* *
67639740 CCTATGGGTATATCAGTAATTTTGCT
1 CCTATGGGTATATCAGTAATTTTCCA
* * *
67639766 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTATGGGTATATCAGT-AATTTTCCA
* *
67639793 CCTATAAAGGTATTTCAGTAATTTT
1 CCTAT--GGGTATATCAGTAATTTT
67639818 ATCAGTTTTG
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
26 14 0.36
27 11 0.28
28 6 0.15
29 8 0.21
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (26 bp):
CCTATGGGTATATCAGTAATTTTCCA
Found at i:67651898 original size:9 final size:9
Alignment explanation
Indices: 67651884--67651959 Score: 82
Period size: 9 Copynumber: 8.6 Consensus size: 9
67651874 TTTATACAAA
67651884 TAATTCGGT
1 TAATTCGGT
*
67651893 TAATTCAGT
1 TAATTCGGT
* **
67651902 TAATTTGAC
1 TAATTCGGT
*
67651911 TAATTCGGG
1 TAATTCGGT
67651920 TAATTCGGT
1 TAATTCGGT
*
67651929 TAATTCGAT
1 TAATTCGGT
*
67651938 TAATTCTGT
1 TAATTCGGT
67651947 TAA-TCGGT
1 TAATTCGGT
67651955 TAATT
1 TAATT
67651960 TTATACTTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
8 7 0.13
9 46 0.87
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:67651923 original size:27 final size:27
Alignment explanation
Indices: 67651884--67651960 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
67651874 TTTATACAAA
*
67651884 TAATTCGGTTAATTCAGTTAATTTGAC
1 TAATTCGGTTAATTCGGTTAATTTGAC
* * *
67651911 TAATTCGGGTAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTCGGTTAATTTGAC
*
67651938 TAATTCTGTTAA-TCGGTTAATTT
1 TAATTCGGTTAATTCGGTTAATTT
67651961 TATACTTATT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 10 0.23
27 33 0.77
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTTGAC
Found at i:67654333 original size:18 final size:18
Alignment explanation
Indices: 67654310--67654346 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67654300 TTTAATGAGA
*
67654310 TATTTTACTATTTATTAT
1 TATTTTACTATTAATTAT
*
67654328 TATTTTATTATTAATTAT
1 TATTTTACTATTAATTAT
67654346 T
1 T
67654347 TAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTACTATTAATTAT
Found at i:67656065 original size:40 final size:40
Alignment explanation
Indices: 67655980--67656118 Score: 143
Period size: 40 Copynumber: 3.5 Consensus size: 40
67655970 CTTGAGAATA
* * ** *
67655980 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAACT
* *
67656020 CAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAACT
* ** * *
67656060 TAAAGTGAATAGGATTTATTCCTAATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAACT
* **
67656100 TAAGGCAGATAGGATTTGC
1 TAAAGTGGATAGGATTTGC
67656119 CTGAAAAGAG
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAACT
Found at i:67656175 original size:78 final size:78
Alignment explanation
Indices: 67656082--67656312 Score: 320
Period size: 79 Copynumber: 2.9 Consensus size: 78
67656072 GATTTATTCC
* * **
67656082 TAATTCACTACGGTAACTTAAGGCAGATAGGATTTG-CCTGAAAAGAGTAATCCTGATTCGCTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAG-GTAATCCTGATTCGCTAC
67656146 GGTTACATGATATA
65 GGTTACATGATATA
* * *
67656160 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTAAAAAGGGTAATCCTGATTCGCTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
*
67656225 GATTACATGATATA
65 GGTTACATGATATA
* * * * *
67656239 TAATTCCTTATGATAACTTAAGGTGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCCCTACA
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
67656304 GTTACATGA
66 GTTACATGA
67656313 GATGTGACTC
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 56 0.42
79 77 0.57
80 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (78 bp):
TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
GTTACATGATATA
Found at i:67662624 original size:20 final size:21
Alignment explanation
Indices: 67662599--67662652 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
67662589 AAATTATACA
67662599 AAAATCATAATTTA-TTTTTT
1 AAAATCATAATTTATTTTTTT
**
67662619 AAAATCATAAAAATATTTTTTT
1 AAAATCAT-AATTTATTTTTTT
*
67662641 AAAATTATAATT
1 AAAATCATAATT
67662653 ATACAAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 13 0.48
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAATCATAATTTATTTTTTT
Found at i:67675720 original size:70 final size:70
Alignment explanation
Indices: 67675600--67675739 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
67675590 TTAAAATAAA
67675600 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
67675665 TGATG
66 TGATG
* * *
67675670 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCTGATACTAAATGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
67675735 TGATG
66 TGATG
67675740 GCATTGAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (70 bp):
CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
TGATG
Found at i:67680698 original size:2 final size:2
Alignment explanation
Indices: 67680653--67680683 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
67680643 AGAAACTAAA
67680653 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
67680684 AATTAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:67681115 original size:18 final size:18
Alignment explanation
Indices: 67681094--67681154 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 18
67681084 AAATAAAATT
67681094 TTTAATATAAATAATTAA
1 TTTAATATAAATAATTAA
67681112 TTTAATGATAAATTTACATTTAA
1 TTTAAT-ATAAA--TA-A-TTAA
*
67681135 TTTAATATATAAAAATTAA
1 TTTAATATA-AATAATTAA
67681154 T
1 T
67681155 CATTTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
18 6 0.17
19 10 0.28
20 1 0.03
21 3 0.08
22 4 0.11
23 12 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTAATATAAATAATTAA
Found at i:67681860 original size:4 final size:4
Alignment explanation
Indices: 67681851--67681875 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
67681841 TTAATGAAGG
67681851 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
67681876 AAGAGTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:67685987 original size:41 final size:41
Alignment explanation
Indices: 67685839--67685990 Score: 142
Period size: 43 Copynumber: 3.6 Consensus size: 41
67685829 CATACCAATT
* * * * *
67685839 CCATATCCTAGATATGGTCTTACATGTAATCTCATATCGATA
1 CCATATCCCAGATATGATCTTACACGAAATCTCATA-CGATG
* * * * * * * *
67685881 CCAATAGCCTAGCTATGGTCTTATAAGAAATCTCATGTCGACG
1 CC-ATATCCCAGATATGATCTTACACGAAATCTCAT-ACGATG
* *
67685924 CCACATCACAGATATGATCTTACACGAAATCTCATACGATG
1 CCATATCCCAGATATGATCTTACACGAAATCTCATACGATG
67685965 CCATATCCCAGATATGATCTTACACG
1 CCATATCCCAGATATGATCTTACACG
67685991 TAGTCTTAGT
Statistics
Matches: 88, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 28 0.32
42 27 0.31
43 33 0.38
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (41 bp):
CCATATCCCAGATATGATCTTACACGAAATCTCATACGATG
Found at i:67693139 original size:39 final size:39
Alignment explanation
Indices: 67693085--67693163 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
67693075 AAAGGGAGTA
67693085 AACTTTAAAGCTTAGTAAGTTCCCATGCAAATAATAGGC
1 AACTTTAAAGCTTAGTAAGTTCCCATGCAAATAATAGGC
67693124 AACTTTAAAGCTTAGTAAGTTCCCATGCAAATAATAGGC
1 AACTTTAAAGCTTAGTAAGTTCCCATGCAAATAATAGGC
67693163 A
1 A
67693164 TCATAAACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (39 bp):
AACTTTAAAGCTTAGTAAGTTCCCATGCAAATAATAGGC
Found at i:67693537 original size:41 final size:41
Alignment explanation
Indices: 67693397--67693550 Score: 150
Period size: 41 Copynumber: 3.7 Consensus size: 41
67693387 TACCATACCT
* * * * *
67693397 ATGCCACATCCTAGATATGGTCTTACATGTAATCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT-G
* * * *
67693439 ATGCCAATAGCCCAGCTATGGTCTTAC-TGAAATCTCATGTTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAT-ATG
* **
67693481 ACT-CTATATAACAGATATGGTCTTACACGAAATCTCATATG
1 A-TGCCATATCCCAGATATGGTCTTACACGAAATCTCATATG
67693522 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
67693551 TAGTCTTAGT
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 43 0.48
42 27 0.30
43 19 0.21
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATG
Found at i:67706475 original size:24 final size:25
Alignment explanation
Indices: 67706448--67706495 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
67706438 CAAGCGAGCC
*
67706448 ATATTAGGAAGCTAAT-AAGAGCTT
1 ATATCAGGAAGCTAATGAAGAGCTT
* *
67706472 ATATCAGGACGCTCATGAAGAGCT
1 ATATCAGGAAGCTAATGAAGAGCT
67706496 GTGTTTGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (25 bp):
ATATCAGGAAGCTAATGAAGAGCTT
Found at i:67712773 original size:17 final size:15
Alignment explanation
Indices: 67712730--67712769 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
67712720 TAGAGTTTAC
67712730 CATTTAATTTCAGTTA
1 CATTT-ATTTCAGTTA
67712746 -ATTTATTTCAGTTA
1 CATTTATTTCAGTTA
67712760 CTATTTATTT
1 C-ATTTATTT
67712770 TCAGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (15 bp):
CATTTATTTCAGTTA
Found at i:67725001 original size:17 final size:18
Alignment explanation
Indices: 67724978--67725040 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
67724968 TTGATGGAAT
* *
67724978 AAAAATAAATAAATAATG
1 AAAAATAAACAAATAAAG
* *
67724996 -AAAATAAAGAAAGAAAG
1 AAAAATAAACAAATAAAG
*
67725013 AAAAATAAACAAATGAAAT
1 AAAAATAAACAAAT-AAAG
67725032 AAAAA-AAAC
1 AAAAATAAAC
67725041 TAATTAGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 14 0.38
18 15 0.41
19 8 0.22
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAATAAACAAATAAAG
Found at i:67726233 original size:25 final size:25
Alignment explanation
Indices: 67726205--67726253 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
67726195 TATTATATAT
*
67726205 CATTCTTTAATATATACATTATTTG
1 CATTCATTAATATATACATTATTTG
* * *
67726230 CATTCATTGATATATTCTTTATTT
1 CATTCATTAATATATACATTATTT
67726254 TCTTCGATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (25 bp):
CATTCATTAATATATACATTATTTG
Found at i:67730102 original size:33 final size:32
Alignment explanation
Indices: 67730064--67730132 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
67730054 ATCATAGGTT
67730064 TCATGAAATAGACAATTTAAAGATAGATTTTTA
1 TCATGAAATAGACAATTTAAAGATAGA-TTTTA
67730097 TCATGAAATAGACAATTTAAAGATAGATTTTA
1 TCATGAAATAGACAATTTAAAGATAGATTTTA
67730129 TCAT
1 TCAT
67730133 TTCTGAGCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 9 0.25
33 27 0.75
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (32 bp):
TCATGAAATAGACAATTTAAAGATAGATTTTA
Found at i:67733662 original size:18 final size:19
Alignment explanation
Indices: 67733641--67733705 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
67733631 TCTTTCTAGT
67733641 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
*
67733659 TTATTTTTCTTTAATT-AA
1 TTATTTTTATTTAATTAAA
*
67733677 TT-TTTATT-TTTAAATT-TA
1 TTATTT-TTATTT-AATTAAA
67733695 TTATTTTTATT
1 TTATTTTTATT
67733706 ATCTCGGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 6 0.15
18 26 0.65
19 8 0.20
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:67733698 original size:15 final size:14
Alignment explanation
Indices: 67733643--67733703 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 14
67733633 TTTCTAGTTT
67733643 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
67733658 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
67733676 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
67733690 ATTTATTATTTTTA
1 ATTT-TTATTTTTA
67733704 TTATCTCGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.13
15 16 0.41
16 6 0.15
17 6 0.15
18 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:67740373 original size:16 final size:16
Alignment explanation
Indices: 67740348--67740378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67740338 ACTACTTTTT
67740348 ATTTTATTTTTATTTA
1 ATTTTATTTTTATTTA
*
67740364 ATTTTCTTTTTATTT
1 ATTTTATTTTTATTT
67740379 CATCCTTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTATTTTTATTTA
Found at i:67746814 original size:2 final size:2
Alignment explanation
Indices: 67746807--67746840 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
67746797 CAGCATTCGA
67746807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67746841 TTAAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67747983 original size:20 final size:20
Alignment explanation
Indices: 67747958--67748003 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
67747948 AAACCTCGGT
* * *
67747958 AGGTATCGATTTTTTTCTTA
1 AGGTATCGATATATTTCCTA
67747978 AGGTATCGATATATTTCCTA
1 AGGTATCGATATATTTCCTA
67747998 AGGTAT
1 AGGTAT
67748004 TGACATTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (20 bp):
AGGTATCGATATATTTCCTA
Found at i:67753540 original size:2 final size:2
Alignment explanation
Indices: 67753533--67753569 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
67753523 AGGAACTGAG
67753533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67753570 GGTATGAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67754518 original size:23 final size:23
Alignment explanation
Indices: 67754492--67754575 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 23
67754482 ACTTGTTCGT
*
67754492 TAAAGTCTATGTGGCATATTCTG
1 TAAAGTCTATGTGGCATATTCTA
* * *
67754515 TAAAG-CTTTTATGGCATGTTCTA
1 TAAAGTC-TATGTGGCATATTCTA
* *
67754538 TAAATTCTTTGTGGCATATTCTA
1 TAAAGTCTATGTGGCATATTCTA
* * *
67754561 TGATGACTATGTGGC
1 TAAAGTCTATGTGGC
67754576 GTGTTCTGTA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (23 bp):
TAAAGTCTATGTGGCATATTCTA
Found at i:67754535 original size:46 final size:46
Alignment explanation
Indices: 67754464--67754559 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
67754454 ACACGTAATG
* *
67754464 TTCTGTAAAGCCTTTGTGACTTGTTCGT-TAAAGTCTATGTGGCATA
1 TTCTGTAAAGCCTTTATGACATGTTC-TATAAAGTCTATGTGGCATA
* * * *
67754510 TTCTGTAAAGCTTTTATGGCATGTTCTATAAATTCTTTGTGGCATA
1 TTCTGTAAAGCCTTTATGACATGTTCTATAAAGTCTATGTGGCATA
67754556 TTCT
1 TTCT
67754560 ATGATGACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.45
Consensus pattern (46 bp):
TTCTGTAAAGCCTTTATGACATGTTCTATAAAGTCTATGTGGCATA
Found at i:67758890 original size:16 final size:18
Alignment explanation
Indices: 67758859--67758891 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
67758849 AACTCGTCAC
67758859 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
67758877 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
67758892 AATTTGTATG
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:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:67759251 original size:19 final size:19
Alignment explanation
Indices: 67759227--67759270 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
67759217 ACCCAAATTC
67759227 TGAAGTTAATTAGGATCAT
1 TGAAGTTAATTAGGATCAT
67759246 TGAAGTTAATTAGGATCAT
1 TGAAGTTAATTAGGATCAT
67759265 TGAAGT
1 TGAAGT
67759271 GAGTTGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (19 bp):
TGAAGTTAATTAGGATCAT
Found at i:67762268 original size:21 final size:22
Alignment explanation
Indices: 67762244--67762284 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67762234 CCATTTAGGT
*
67762244 CTTTTGTC-TATTAAACATTAC
1 CTTTTCTCATATTAAACATTAC
67762265 CTTTTCTCATATTAAACATT
1 CTTTTCTCATATTAAACATT
67762285 TAATTCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
CTTTTCTCATATTAAACATTAC
Found at i:67764431 original size:23 final size:23
Alignment explanation
Indices: 67764411--67764494 Score: 150
Period size: 23 Copynumber: 3.7 Consensus size: 23
67764401 TAACTTAATC
*
67764411 GAACATGTTCACGAACATTAAAT
1 GAACATGTTCACGAACATTAGAT
*
67764434 GAATATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
67764457 GAACATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
67764480 GAACATGTTCACGAA
1 GAACATGTTCACGAA
67764495 AAATGTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAGAT
Found at i:67767479 original size:46 final size:44
Alignment explanation
Indices: 67767406--67767525 Score: 136
Period size: 46 Copynumber: 2.7 Consensus size: 44
67767396 ATTGAGACGA
* * *
67767406 GAGCTAGTGTAAGACATATCTGGGACATGCA-TCGGCCT-CGAGAT
1 GAGCCAGTGTAAAACATGTCTGGGACATGCACT-GG-CTACGAGAT
*
67767450 GTAAGCCAGTGTAAAACATGTCTGAGACATGCACTGGCTACGAGAT
1 G--AGCCAGTGTAAAACATGTCTGGGACATGCACTGGCTACGAGAT
*
67767496 GAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAA-AACATGTCTGGGACATG
67767526 GCATTGGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
44 12 0.18
45 17 0.26
46 35 0.54
47 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (44 bp):
GAGCCAGTGTAAAACATGTCTGGGACATGCACTGGCTACGAGAT
Found at i:67767703 original size:2 final size:2
Alignment explanation
Indices: 67767653--67767684 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
67767643 ATACAGGTAC
67767653 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67767685 AGATGAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67771595 original size:2 final size:2
Alignment explanation
Indices: 67771588--67771650 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
67771578 TGTCCCTTCA
67771588 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
67771630 TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC T
67771651 ATGTGTGTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:67777526 original size:39 final size:39
Alignment explanation
Indices: 67777472--67777551 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
67777462 TGTTCTAAAA
67777472 CTATAGCTAAACCATCATCTTGACAATTTTAATATTTTT
1 CTATAGCTAAACCATCATCTTGACAATTTTAATATTTTT
67777511 CTATAGCTAAACCATCATCTTGACAATTTTAATATTTTT
1 CTATAGCTAAACCATCATCTTGACAATTTTAATATTTTT
67777550 CT
1 CT
67777552 TAACAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (39 bp):
CTATAGCTAAACCATCATCTTGACAATTTTAATATTTTT
Found at i:67783132 original size:24 final size:24
Alignment explanation
Indices: 67783013--67783132 Score: 84
Period size: 24 Copynumber: 5.0 Consensus size: 24
67783003 GCCTTATCAT
67783013 GGGAAGCTCACAAAGAGCCATATC
1 GGGAAGCTCACAAAGAGCCATATC
* * * *
67783037 GGGAAGCTTATC--CGGGCTATATAAC
1 GGGAAGCTCA-CAAAGAGCCATAT--C
* * *
67783062 AGGAATCTCATAAA-AGCCATAATC
1 GGGAAGCTCACAAAGAGCCAT-ATC
* * * *
67783086 AGGAAGTTCATAAAGAACCATATC
1 GGGAAGCTCACAAAGAGCCATATC
67783110 GGGAAGCTCACAAAGAGCCATAT
1 GGGAAGCTCACAAAGAGCCATAT
67783133 AATGGAAGCT
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
23 7 0.10
24 44 0.62
25 18 0.25
26 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCACAAAGAGCCATATC
Found at i:67784934 original size:9 final size:9
Alignment explanation
Indices: 67784920--67784949 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
67784910 CTTTAGTTCA
67784920 ATTTTAGTT
1 ATTTTAGTT
67784929 ATTTTAGTT
1 ATTTTAGTT
67784938 ATTTTAGTT
1 ATTTTAGTT
67784947 ATT
1 ATT
67784950 ATATTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (9 bp):
ATTTTAGTT
Found at i:67795410 original size:63 final size:65
Alignment explanation
Indices: 67795328--67795476 Score: 187
Period size: 66 Copynumber: 2.3 Consensus size: 65
67795318 ATACTATGTG
* * * *
67795328 GTAGCTAGGTCACATGTGT-GAT-ACG-GATGTATACCATGTAGACAAGAGAGCTACGGGATAAA
1 GTAGCTAGGTCACATGTGTGGATCACGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
* * *
67795390 TGTAGCTAGGTCGCATGTGTGGTTCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
1 -GTAGCTAGGTCACATGTGTGGATCACGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
67795455 A
65 A
* *
67795456 GTGGCTAGGTCACATGGGTGG
1 GTAGCTAGGTCACATGTGTGG
67795477 TACTAAGTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 18 0.25
64 2 0.03
65 20 0.27
66 33 0.45
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (65 bp):
GTAGCTAGGTCACATGTGTGGATCACGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
Found at i:67802757 original size:64 final size:67
Alignment explanation
Indices: 67802696--67802867 Score: 228
Period size: 66 Copynumber: 2.6 Consensus size: 67
67802686 CATCATGTGT
* * *
67802696 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGT
67802758 AG
66 AG
** * *
67802760 ACAAGAGAGCTACGGGATAAATGTAGCTAGGTC-CATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGT
67802824 AG
66 AG
* *
67802826 ACAAGAGAGCTACAAGATAAA-GTGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCACATGTGTGG
67802868 TACTAAGTGT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
63 7 0.08
64 34 0.37
65 12 0.13
66 40 0.43
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGT
AG
Found at i:67805755 original size:29 final size:29
Alignment explanation
Indices: 67805715--67805788 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
67805705 GTTGAGAGAT
* *
67805715 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
67805744 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
67805773 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67805789 CGGCTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:67813895 original size:24 final size:24
Alignment explanation
Indices: 67813863--67813947 Score: 118
Period size: 24 Copynumber: 3.5 Consensus size: 24
67813853 AATCTCAAAT
67813863 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
67813887 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
67813911 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
67813935 GCACTATGTGTGC
1 GCACTATGTGTGC
67813948 AACGTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 50 0.91
25 5 0.09
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:67822074 original size:40 final size:40
Alignment explanation
Indices: 67821850--67822046 Score: 296
Period size: 40 Copynumber: 5.0 Consensus size: 40
67821840 TCGAATGATG
* *
67821850 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
67821890 TCCGGACTAAGATCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67821929 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67821969 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
67822009 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
67822047 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 3, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
39 33 0.22
40 112 0.75
41 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67822088 original size:40 final size:40
Alignment explanation
Indices: 67821942--67822093 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
67821932 GGACTAAGAT
** *
67821942 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
67821982 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
67822022 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
67822062 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
67822094 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:67836688 original size:43 final size:42
Alignment explanation
Indices: 67836622--67836779 Score: 167
Period size: 42 Copynumber: 3.7 Consensus size: 42
67836612 AACTCGTACA
* * *
67836622 ATGCCAACGTCCCAGACGTGGTCTTACATGTAA-TCAAATGACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAGTCAAAT-ACG
* *
67836665 ATGCCATTGTCCCAGACAAGGTCTTACACGAAGTCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAGTCAAATACG
* *
67836707 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACAC--GAA-GTCAAATACG
* * *
67836751 ATGCCAACGTCCCAAACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
67836780 AATAACTCAT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 32 0.32
43 31 0.31
44 30 0.30
45 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAGTCAAATACG
Found at i:67836773 original size:44 final size:42
Alignment explanation
Indices: 67836622--67836780 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
67836612 AACTCGTACA
* **
67836622 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATGACG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAATCAAAT-ACG
** * *
67836665 ATGCCATTGTCCCAGACAAGGTCTTACACGA-AGTCAAATACG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-ATAATCAAATACG
*
67836707 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACAT-AA--TCAAATACG
* *
67836751 ATGCCAACGTCCCAAACGTGGTCTTACACA
1 ATGCCAACGTCCCAGACATGGTCTTACACA
67836781 ATAACTCATA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 32 0.33
44 29 0.30
45 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAATCAAATACG
Found at i:67842776 original size:40 final size:40
Alignment explanation
Indices: 67842730--67842869 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
67842720 CGGATATAAC
* *
67842730 GACTCGCTCAAATGCCTTCGGGACGAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACGAAACCCGGGTT-TAGT
* *
67842770 GACTCGCACGAATGCCTTCGGGACTAAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACGAAACCCGGGTTTAGT
* * ** * * *
67842810 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACGAAACCCGGGTTTAGT
* *
67842849 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
67842870 ATCCTAGTCC
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 32 0.37
40 50 0.58
41 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACGAAACCCGGGTTTAGT
Found at i:67842906 original size:79 final size:80
Alignment explanation
Indices: 67842738--67842918 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
67842728 ACGACTCGCT
** * *
67842738 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGACTAAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGGACTAAACCCG
* *
67842802 GGTTTAGTAACTTGCA
65 GATATAGTAACTTGCA
**
67842818 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTC-GGATCCT-AGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGGA--CTAAACCC
*
67842880 GGATATAGTCACTTAGCA
64 GGATATAGTAACTT-GCA
67842898 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
67842919 TGGACATCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.60
80 32 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGGACTAAACCCGG
ATATAGTAACTTGCA
Found at i:67850866 original size:79 final size:82
Alignment explanation
Indices: 67850748--67850932 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
67850738 ACGACTCGCT
** * *
67850748 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
67850811 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
67850828 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
67850891 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
67850908 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
67850933 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:67850932 original size:40 final size:39
Alignment explanation
Indices: 67850741--67850932 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
67850731 CGATATAACG
* ** * *
67850741 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
67850781 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
67850821 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
67850860 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
67850900 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
67850933 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:67857383 original size:25 final size:25
Alignment explanation
Indices: 67857349--67857402 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
67857339 ATATGAGTCT
67857349 GTTGGATATTGATCCCACAAGGATG
1 GTTGGATATTGATCCCACAAGGATG
*
67857374 GTTGGATATTGATCCCACGAGGATG
1 GTTGGATATTGATCCCACAAGGATG
67857399 GTTG
1 GTTG
67857403 TATTTTGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (25 bp):
GTTGGATATTGATCCCACAAGGATG
Found at i:67862436 original size:25 final size:25
Alignment explanation
Indices: 67862407--67862458 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
67862397 AAGAATAATT
**
67862407 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
67862432 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
67862457 TG
1 TG
67862459 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:67869667 original size:40 final size:40
Alignment explanation
Indices: 67869623--67869846 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
67869613 GCTACTCGTT
* * *
67869623 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
67869663 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
67869703 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
67869743 CAAATGCCTTC-GGATCTTAGACCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
67869783 CAATTGCCTTC-GGATCTTAGTCCGGA-TTAGT-ACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
67869822 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
67869847 CATCATTCGA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 18 0.11
39 17 0.10
40 129 0.78
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:67876374 original size:29 final size:29
Alignment explanation
Indices: 67876340--67876433 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
67876330 TGACGAGATT
** *
67876340 GGCACTAAGTGTGTGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
67876369 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
67876398 GACACTATGTGTGCAAGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAA
67876428 GGCACT
1 GGCACT
67876434 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
29 43 0.78
30 12 0.22
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:67876440 original size:30 final size:29
Alignment explanation
Indices: 67876356--67876446 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
67876346 AAGTGTGTGT
* * * * *
67876356 GCTGGAAATATAAGGCACTAAGTGTGCAT
1 GCTGGAAAAATACGACACTAGGTGTGCAA
* *
67876385 GCTGGAAAAATATGACACTATGTGTGCAA
1 GCTGGAAAAATACGACACTAGGTGTGCAA
* * *
67876414 GCTGGAAAAAATACGGCACTGGGTGTGCGA
1 GCTGG-AAAAATACGACACTAGGTGTGCAA
67876444 GCT
1 GCT
67876447 CGAAGGGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 29 0.57
30 22 0.43
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (29 bp):
GCTGGAAAAATACGACACTAGGTGTGCAA
Found at i:67884159 original size:29 final size:29
Alignment explanation
Indices: 67884126--67884237 Score: 161
Period size: 29 Copynumber: 3.9 Consensus size: 29
67884116 GTGACGAGAT
*
67884126 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
67884155 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
67884184 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * *
67884213 TGACACTATGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
67884238 AAATACGGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:67884256 original size:30 final size:29
Alignment explanation
Indices: 67884129--67884262 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 29
67884119 ACGAGATTGG
* ** * * *
67884129 CACTAAGTGTGCGTGCTGGAAATATATGG
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* ** * * *
67884158 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* * *
67884187 CACTAAGTGTGCATGCTGGAAAAATATGA
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* *
67884216 CACTATGTGTGCAAGCTGGAAAAAATACGG
1 CACTAGGTGTGCAAGCTGG-AAAAATACGA
* *
67884246 CACTGGGTGTGCGAGCT
1 CACTAGGTGTGCAAGCT
67884263 CGAAGGGTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
29 70 0.76
30 22 0.24
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
CACTAGGTGTGCAAGCTGGAAAAATACGA
Found at i:67890557 original size:42 final size:42
Alignment explanation
Indices: 67890496--67890616 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
67890486 GTTGATATTA
*
67890496 CGTGTAAGACCATATCTGGGATATGGCATTGATATGAAA-CTT
1 CGTGTAAGACCATATCTGGGATATGGCATTGATATGAAATC-C
* * * *
67890538 CGTGTAAGACCATACCTGGGCTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATTGATATGAAATCC
* *
67890581 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
1 CGTGTAAGACCATATCTGGGATATGGCATTGATATG
67890617 GTACTATGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.48
43 34 0.51
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATTGATATGAAATCC
Found at i:67890720 original size:20 final size:20
Alignment explanation
Indices: 67890695--67890733 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
67890685 CAATGTTTAA
67890695 GTTGTGAAAGACTATGGTAT
1 GTTGTGAAAGACTATGGTAT
*
67890715 GTTGTGAAAGATTATGGTA
1 GTTGTGAAAGACTATGGTA
67890734 AGTTTCCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.36
Consensus pattern (20 bp):
GTTGTGAAAGACTATGGTAT
Found at i:67893189 original size:16 final size:17
Alignment explanation
Indices: 67893168--67893201 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
67893158 AAATATCATG
67893168 AAATAAAAA-CAAACAA
1 AAATAAAAATCAAACAA
67893184 AAATAAAAATCAAACAA
1 AAATAAAAATCAAACAA
67893201 A
1 A
67893202 CGCCATCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:67894511 original size:19 final size:21
Alignment explanation
Indices: 67894487--67894533 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
67894477 AAATCAAATA
*
67894487 TTGCAACATCGG-TT-GGATG
1 TTGCAACATCGGATTCGAATG
*
67894506 TTGCAACATTGGATTCGAATG
1 TTGCAACATCGGATTCGAATG
67894527 TTGCAAC
1 TTGCAAC
67894534 TTTGCTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 2 0.08
21 11 0.46
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (21 bp):
TTGCAACATCGGATTCGAATG
Found at i:67896128 original size:24 final size:24
Alignment explanation
Indices: 67896096--67896142 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
67896086 TCATCAGAAC
*
67896096 AGGGTTACGGAGCATTACCAAAAT
1 AGGGTTACGGAACATTACCAAAAT
67896120 AGGGTTACGGAACATTACCAAAA
1 AGGGTTACGGAACATTACCAAAA
67896143 CATTTAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
AGGGTTACGGAACATTACCAAAAT
Found at i:67897705 original size:40 final size:40
Alignment explanation
Indices: 67897661--67897886 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
67897651 GCTACTCGTT
* * *
67897661 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
67897701 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
67897741 CAAATTCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
67897781 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
67897821 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
67897862 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
67897887 CATCATTCGA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.92
41 11 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:67908218 original size:25 final size:25
Alignment explanation
Indices: 67908189--67908238 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
67908179 AAAATGAAAC
*
67908189 ATTAAGT-ACACAATATAGTGAAAGT
1 ATTAAGTGA-ACAAAATAGTGAAAGT
67908214 ATTAAGTGAACAAAATAGTGAAAGT
1 ATTAAGTGAACAAAATAGTGAAAGT
67908239 GAAAAGTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (25 bp):
ATTAAGTGAACAAAATAGTGAAAGT
Found at i:67908245 original size:25 final size:25
Alignment explanation
Indices: 67908198--67908246 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
67908188 CATTAAGTAC
* *
67908198 ACAATATAGTGAAAGTATTAAGTGA
1 ACAAAATAGTGAAAGTATAAAGTGA
67908223 ACAAAATAGTGAAAGTGA-AAAGTG
1 ACAAAATAGTGAAAGT-ATAAAGTG
67908247 GTATGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.22
Consensus pattern (25 bp):
ACAAAATAGTGAAAGTATAAAGTGA
Found at i:67915596 original size:18 final size:18
Alignment explanation
Indices: 67915573--67915627 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
67915563 AGTGCAAGCC
* *
67915573 AATGTGGCGGACAGTCCA
1 AATGTGGCGAACAATCCA
67915591 AATGTGGCGAACAATCCA
1 AATGTGGCGAACAATCCA
* *
67915609 AATGTGGTGAACAAGCCA
1 AATGTGGCGAACAATCCA
67915627 A
1 A
67915628 TGTCACGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (18 bp):
AATGTGGCGAACAATCCA
Found at i:67922104 original size:39 final size:39
Alignment explanation
Indices: 67922061--67922200 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 39
67922051 TAGTGGCTAC
* * **
67922061 ATCCGGGCTAAGGA-CCG-AGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAA-GACCCGAAGGCATTTGTGC-AATCATGAT
*
67922100 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCATGAT
*
67922139 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCATGAT
* * *
67922179 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
67922201 CTTGGTGCGG
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 49 0.54
40 39 0.43
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCATGAT
Found at i:67922185 original size:40 final size:39
Alignment explanation
Indices: 67922099--67922200 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
67922089 CGAGTCATTC
67922099 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCGTGA
67922138 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCGTGA
* * *
67922178 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
67922201 CTTGGTGCGG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 31 0.53
40 28 0.47
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCGTGA
Found at i:67930310 original size:40 final size:40
Alignment explanation
Indices: 67930114--67930339 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
67930104 AGAAATTGAA
* * *
67930114 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCG
* * * * * *
67930155 T-ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * * * *
67930194 CT-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
**
67930234 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
67930274 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * *
67930314 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
67930340 CTTGGTGCGG
Statistics
Matches: 154, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 3 0.02
40 144 0.94
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
Found at i:67930348 original size:120 final size:120
Alignment explanation
Indices: 67930117--67930348 Score: 265
Period size: 120 Copynumber: 1.9 Consensus size: 120
67930107 AATTGAATGA
* * *
67930117 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATAACCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGACAATTATGCTGCAAATTATAACCGGGCTAAGACCCGAAGGCAA
* * *
67930182 TTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
66 TTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
* *
67930237 TATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGTGATATCCGGGCTAAGACCCGAAGG
1 TATCCGGGCTAAGACCCGAAGACAATTATGCTGCAAAT--T-ATAACCGGGCTAAGACCCGAAGG
* * * * * * *
67930299 CATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCG
63 CAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCG
67930349 GGTTACCATA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
117 6 0.06
118 2 0.02
119 5 0.05
120 80 0.86
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (120 bp):
TATCCGGGCTAAGACCCGAAGACAATTATGCTGCAAATTATAACCGGGCTAAGACCCGAAGGCAA
TTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
Found at i:67936156 original size:24 final size:22
Alignment explanation
Indices: 67936104--67936157 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
67936094 TTACATTATA
*
67936104 CAATTCAGTTCATATATCATTT
1 CAATTCAATTCATATATCATTT
* *
67936126 CGCATTCAATATCATAGTCTCATTT
1 C-AATTCAAT-TCATA-TATCATTT
67936151 CAATTCA
1 CAATTCA
67936158 TCTTCAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 6 0.24
24 10 0.40
25 8 0.32
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (22 bp):
CAATTCAATTCATATATCATTT
Found at i:67939285 original size:49 final size:49
Alignment explanation
Indices: 67939205--67939586 Score: 559
Period size: 49 Copynumber: 8.0 Consensus size: 49
67939195 CCCTTCGGGA
* * * * * * *
67939205 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
67939252 CCTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67939301 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
67939350 CTTATCACATATATACACACTTTCACATTCATCACATCGGCC---A---
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
67939393 --TATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
67939440 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
67939489 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
67939538 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
67939587 ACACTTTCAC
Statistics
Matches: 306, Mismatches: 19, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
41 39 0.13
44 1 0.00
46 1 0.00
47 9 0.03
48 1 0.00
49 255 0.83
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67939377 original size:18 final size:18
Alignment explanation
Indices: 67939354--67939418 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
67939344 TTAGGCCTTA
67939354 TCACATATATACACACTT
1 TCACATATATACACACTT
* *
67939372 TCACAT-TCATCACATCGGCCATA
1 TCACATAT-AT-ACA-C--AC-TT
67939395 TCACATATATACACACTT
1 TCACATATATACACACTT
67939413 TCACAT
1 TCACAT
67939419 TCATCACGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 1 0.03
18 15 0.42
19 4 0.11
20 1 0.03
21 1 0.03
22 4 0.11
23 9 0.25
24 1 0.03
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (18 bp):
TCACATATATACACACTT
Found at i:67939411 original size:90 final size:90
Alignment explanation
Indices: 67939298--67939663 Score: 550
Period size: 90 Copynumber: 4.1 Consensus size: 90
67939288 TCGGCCATTA
* * *
67939298 GGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA
1 GGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
67939363 TACACACTTTCACATTCATCACATC
66 TACACACTTTCACATTCATCACATC
*
67939388 GGCCATATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA
1 GGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
67939453 TACACACTTTCACATTCATCACATC
66 TACACACTTTCACATTCATCACATC
67939478 GGCCATTAGGTCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 GGCC---A-----TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
67939543 CACATATATACACACTTTCACATTCATCACATC
58 CACATATATACACACTTTCACATTCATCACATC
**
67939576 GG------C-CAT-TAGGCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
67939633 TACACACTTTCACATTCATCACATC
66 TACACACTTTCACATTCATCACATC
67939658 GGCCAT
1 GGCCAT
67939664 TAGGCCTTAT
Statistics
Matches: 259, Mismatches: 5, Indels: 28
0.89 0.02 0.10
Matches are distributed among these distances:
82 76 0.29
83 3 0.01
84 1 0.00
90 92 0.36
93 1 0.00
98 86 0.33
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (90 bp):
GGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
TACACACTTTCACATTCATCACATC
Found at i:67939480 original size:139 final size:139
Alignment explanation
Indices: 67939247--67939586 Score: 536
Period size: 139 Copynumber: 2.4 Consensus size: 139
67939237 CTTTGGCCAC
* * * *
67939247 TCGGCCCTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TCGGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* *
67939312 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
66 TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
67939377 TTCATCACA
131 TTCATCACA
*
67939386 TCGGCCATATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TCGGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
67939451 TATACACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACACTTTCACA
66 TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
67939516 TTCATCACA
131 TTCATCACA
67939525 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 TCGGCC---A-----TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
67939587 ACACTTTCAC
Statistics
Matches: 184, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
139 137 0.74
142 1 0.01
147 46 0.25
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (139 bp):
TCGGCCATATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
TTCATCACA
Found at i:67939522 original size:188 final size:184
Alignment explanation
Indices: 67939207--67939682 Score: 728
Period size: 188 Copynumber: 2.6 Consensus size: 184
67939197 CTTCGGGACT
* * * * * * * * *
67939207 TATCACATT-TATACACTTCCACATCCATCACTTTGGCCACTCGGCCCTATCACATATATATACA
1 TATCACATTATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACA
* * *
67939271 CCTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
*
67939336 GTCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
131 ATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
*
67939390 CCATATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATA
1 ---TATCACAT-TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
67939455 CACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACACTTTCACATTCA
62 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
67939520 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
127 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
**
67939578 ---C-CATTAGGCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACA
1 TATCACATTATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACA
67939639 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
67939683 TAGGCCTTAT
Statistics
Matches: 270, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
180 97 0.36
181 3 0.01
182 1 0.00
186 8 0.03
187 1 0.00
188 160 0.59
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (184 bp):
TATCACATTATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
Found at i:67939595 original size:33 final size:33
Alignment explanation
Indices: 67939553--67939619 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
67939543 CACATATATA
67939553 CACACTTTCACATTCATCACATCGGCCATTAGG
1 CACACTTTCACATTCATCACATCGGCCATTAGG
67939586 CACACTTTCACATTCATCACATCGGCCATTAGG
1 CACACTTTCACATTCATCACATCGGCCATTAGG
67939619 C
1 C
67939620 CTTATCACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (33 bp):
CACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:67939599 original size:82 final size:82
Alignment explanation
Indices: 67939504--67939736 Score: 359
Period size: 82 Copynumber: 3.0 Consensus size: 82
67939494 CACATATATA
67939504 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
67939569 TCACATCGGCCATTAGG
66 TCACATCGGCCATTAGG
67939586 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
67939651 TCACATCGGCCATTAGG
66 TCACATCGGCCATTAGG
*
67939668 --C-C-TT---A-TCA-CATAT-----ATTAGGCCTTATCACATATATACACACTTTCACATTCA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
67939719 TCACATCGGCCATTAGG
66 TCACATCGGCCATTAGG
67939736 C
1 C
67939737 CTTATCACAT
Statistics
Matches: 149, Mismatches: 1, Indels: 15
0.90 0.01 0.09
Matches are distributed among these distances:
68 55 0.37
73 4 0.03
74 3 0.02
75 1 0.01
78 2 0.01
79 1 0.01
80 1 0.01
82 82 0.55
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (82 bp):
CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
TCACATCGGCCATTAGG
Found at i:67939630 original size:131 final size:133
Alignment explanation
Indices: 67939316--67939682 Score: 511
Period size: 131 Copynumber: 2.7 Consensus size: 133
67939306 CACATATATA
*
67939316 TACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
*
67939381 TCACATCGGCC---A-----TATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAG
67939438 GCCTTATCAC
131 G------C-C
*
67939448 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACACTTTC
1 -----T--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTC
67939513 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
59 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGG
67939578 CCATTAGG-C
124 CCATTAGGCC
67939587 -ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
67939651 TCACATCGGCCATTAGGCCTTATCACATATAT
66 TCACATCGGCCATTAGGCCTTATCACATATAT
67939683 TAGGCCTTAT
Statistics
Matches: 216, Mismatches: 4, Indels: 26
0.88 0.02 0.11
Matches are distributed among these distances:
131 95 0.44
137 1 0.00
139 74 0.34
142 1 0.00
147 45 0.21
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (133 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAG
GCC
Found at i:67939642 original size:49 final size:49
Alignment explanation
Indices: 67939586--67939682 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
67939576 GGCCATTAGG
67939586 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
67939635 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
67939683 TAGGCCTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:67939686 original size:19 final size:19
Alignment explanation
Indices: 67939662--67939701 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
67939652 CACATCGGCC
67939662 ATTAGGCCTTATCACATAT
1 ATTAGGCCTTATCACATAT
67939681 ATTAGGCCTTATCACATAT
1 ATTAGGCCTTATCACATAT
67939700 AT
1 AT
67939702 ACACACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTAGGCCTTATCACATAT
Found at i:67939690 original size:68 final size:68
Alignment explanation
Indices: 67939613--67939750 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
67939603 CACATCGGCC
67939613 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
67939678 TAT
66 TAT
67939681 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
67939746 TAT
66 TAT
67939749 AT
1 AT
67939751 ATATCTCATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (68 bp):
ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
TAT
Found at i:67947491 original size:24 final size:25
Alignment explanation
Indices: 67947459--67947505 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67947449 GGAGATATCA
67947459 AAAAGCTC-TATGAGCTTCTTGAGT
1 AAAAGCTCTTATGAGCTTCTTGAGT
* *
67947483 AAAATCTCTTATGAGTTTCTTGA
1 AAAAGCTCTTATGAGCTTCTTGA
67947506 TTAGCTCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (25 bp):
AAAAGCTCTTATGAGCTTCTTGAGT
Found at i:67947746 original size:15 final size:15
Alignment explanation
Indices: 67947726--67947755 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67947716 AAATGTTTTT
*
67947726 GAATTATTTGATGAG
1 GAATTATATGATGAG
67947741 GAATTATATGATGAG
1 GAATTATATGATGAG
67947756 CTCATCTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (15 bp):
GAATTATATGATGAG
Found at i:67948792 original size:21 final size:21
Alignment explanation
Indices: 67948766--67948814 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
67948756 CTACATCTAG
67948766 GAAAATTTTAGAAATTTTGCT
1 GAAAATTTTAGAAATTTTGCT
67948787 GAAAATTTTAGAAATTTTGCT
1 GAAAATTTTAGAAATTTTGCT
*
67948808 TAAAATT
1 GAAAATT
67948815 CTCTTAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (21 bp):
GAAAATTTTAGAAATTTTGCT
Done.