Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 43 of 204
Found at i:12575732 original size:14 final size:14
Alignment explanation
Indices: 12575713--12575744 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12575703 ATAGTTTGCA
12575713 TATAAAGCAAACGG
1 TATAAAGCAAACGG
*
12575727 TATAAAGCAAATGG
1 TATAAAGCAAACGG
12575741 TATA
1 TATA
12575745 GGCAAACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.22
Consensus pattern (14 bp):
TATAAAGCAAACGG
Found at i:12588684 original size:28 final size:28
Alignment explanation
Indices: 12588638--12588763 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
12588628 TGACTTTCGA
*
12588638 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
12588666 CACTAAGTGTACGAGTTTAATTGTAAAT
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
12588694 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
12588722 CACTAAGTGTGCGAGTTTGATTATTGAA-
1 CACTAAGTGTGCGAGTTTAATT-GTAAAG
12588750 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
12588764 ACTTATGAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 83 0.98
29 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:12589470 original size:23 final size:23
Alignment explanation
Indices: 12589444--12590116 Score: 584
Period size: 23 Copynumber: 29.0 Consensus size: 23
12589434 TCTAAAATTG
* *
12589444 GTATATATATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
*
12589467 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
*
12589490 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* *
12589513 GTGTATA-AGTGCTGTCCAA-ATT
1 GTATATACA-TGCTGTCCAATTTT
* * *
12589535 GCTACATATATGCTGCCCAATTTT
1 G-TATATACATGCTGTCCAATTTT
*
12589559 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
12589583 GTATATACATGTTGTCCAATTTGT
1 GTATATACATGCTGTCCAATTT-T
* * *
12589607 GTATA-A-GTGCTGTCCAAATTG
1 GTATATACATGCTGTCCAATTTT
* *
12589628 GTATATATATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
*
12589651 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
* *
12589675 GTATATACATGATGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * *
12589698 GTGTATA-AGTGCTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
*
12589721 GTATATATATGCTGTCCAATTTT
1 GTATATACATGCTGTCCAATTTT
*
12589744 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
12589768 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * *
12589791 GTGTATA-AGTGCTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
* *
12589814 GTATATATATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
*
12589837 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
* *
12589861 GTATATACATGATGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * *
12589884 GTGTATA-AGTGCTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
*
12589907 GTATATATATGCTGTCCAATTTT
1 GTATATACATGCTGTCCAATTTT
* *
12589930 GGTGA-ATAAATGCTATCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
12589954 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * *
12589977 GTGTATA-AGTGCTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
* *
12590000 GTATATATATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
* *
12590023 GGTGAATAAAAATGCTGTCCAATTTT
1 -GT--ATATACATGCTGTCCAATTTT
*
12590049 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * *
12590072 GTGTATA-AGTGCTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
12590095 GTATATACATGCTG-CTCAATTT
1 GTATATACATGCTGTC-CAATTT
12590117 CTGATGTATA
Statistics
Matches: 530, Mismatches: 84, Indels: 72
0.77 0.12 0.10
Matches are distributed among these distances:
21 5 0.01
22 27 0.05
23 361 0.68
24 111 0.21
25 8 0.02
26 18 0.03
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (23 bp):
GTATATACATGCTGTCCAATTTT
Found at i:12589604 original size:93 final size:93
Alignment explanation
Indices: 12589438--12590138 Score: 1194
Period size: 93 Copynumber: 7.5 Consensus size: 93
12589428 TAATGGTCTA
* *
12589438 AAATTGGTATATATATGCTGCCCAATTTT-GT-ATATACATGCTGTCAAATTTTGTATATACATG
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGTATATACATG
12589501 CTGTCAAATTTTGTGTATAAGTGCTGTCC
65 CTGTCAAATTTTGTGTATAAGTGCTGTCC
* * *
12589530 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGT
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
*
12589595 TGTCCAA-TTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
*
12589622 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGA
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
12589687 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
*
12589715 AAATTGGTATATATATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
12589780 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
*
12589808 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGA
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
12589873 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* *
12589901 AAATTGGTATATATATGCTGTCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGC
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
12589966 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
12589994 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAAAATGCTGTCCAATTTTGTATATACAT
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAAT--AAATGCTGTCCAATTTTGTATATACAT
12590059 GCTGTCAAATTTTGTGTATAAGTGCTGTCC
64 GCTGTCAAATTTTGTGTATAAGTGCTGTCC
* * * *
12590089 AAATTGGTATATACATGCTGCTCAATTTCTGATGTATAAGA-GCTGTCCAA
1 AAATTGGTATATATATGCTGCCCAATTT-TGGTGAATAA-ATGCTGTCCAA
12590139 ACAGGGTAGA
Statistics
Matches: 579, Mismatches: 23, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
92 115 0.20
93 363 0.63
94 12 0.02
95 83 0.14
96 6 0.01
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (93 bp):
AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
TGTCAAATTTTGTGTATAAGTGCTGTCC
Found at i:12595283 original size:16 final size:15
Alignment explanation
Indices: 12595251--12595284 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
12595241 TACCAAGTAA
12595251 TATATTAATATACTT
1 TATATTAATATACTT
*
12595266 TATATTATATATATTT
1 TATATTA-ATATACTT
12595282 TAT
1 TAT
12595285 CACTACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTAATATACTT
Found at i:12599974 original size:9 final size:9
Alignment explanation
Indices: 12599957--12599993 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12599947 TGAGTTTTTG
12599957 AATTCGAAT
1 AATTCGAAT
*
12599966 AACTCGAAT
1 AATTCGAAT
12599975 AATTCGAAT
1 AATTCGAAT
12599984 AATTCGAAT
1 AATTCGAAT
12599993 A
1 A
12599994 TCAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12603537 original size:44 final size:44
Alignment explanation
Indices: 12603227--12603739 Score: 201
Period size: 44 Copynumber: 11.8 Consensus size: 44
12603217 ACTTGGTGCG
** * * * *
12603227 ATCTGCTATACTGCAACTTGAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGACTTCA
* * *** * *
12603271 ACCCGCTCCACTATTACTTTAGGGAGATAGGATTATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
* ** *
12603315 ATCTACTCCACTGCAAGC-TCAGGGAGATAAGATT-TGCTTCTTCG
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTAT-CGACTTCA
* * * ** * * ***
12603359 GTCTGCCCCATTGTGACTTCAGGGGGATAAGACTTGTTTTC-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCGACTTCA
* * * *
12603403 GTCTACTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGA--TCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTAT-CGACTTCA
* * * *
12603448 A-CTG-T--ACTGTAACTTCAGAGAGATAACATCTAT-TACTAT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGACT-TCA
* * *
12603488 TTCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
* * *
12603532 ATCTGCTCCACTGCAACCTT-AGGGGGATAAGATT-TGCCATCTTCG
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTAT-CGA-CTTCA
* * *
12603577 ATCTG-TCCCACTGCCACTTCAGGGGGATAAGACTTGCTC-AC-TCA
1 ATCTGCT-CCACTGCAACTTCAGGGAGATAAGA-TT-ATCGACTTCA
* * * *
12603621 GTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGA--TCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTAT-CGACTTCA
* * *
12603666 A-CTG-T--ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGACTTCA
* * *
12603706 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
12603740 TGTGGCTTAA
Statistics
Matches: 347, Mismatches: 85, Indels: 75
0.68 0.17 0.15
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 6 0.02
41 47 0.14
42 2 0.01
43 13 0.04
44 218 0.63
45 50 0.14
46 5 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
Found at i:12603756 original size:218 final size:217
Alignment explanation
Indices: 12603235--12603739 Score: 776
Period size: 218 Copynumber: 2.3 Consensus size: 217
12603225 CGATCTGCTA
* * ** *
12603235 TACTGCAACTTGAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTATTACTTTAGGGAGATA
1 TACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATA
* * * *
12603300 GGATTATCGACTTCAATCTACTCCACTGCAAGCTCAGGGAGATAAGATTTGCTTCTTCGGTCTGC
66 GGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCATCTTCGATCTGC
* ** * ** *
12603365 CCCATTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTACTCCACTGCAACTTCAGGGAGA
131 CCCACTGCCACTTCAGGGGGATAAGACTTGCTCACTCAGTCTACTCCACTGCAACCTCAGGGAGA
12603430 TAAGACCTGATGCGATCCACTG
196 TAAGACCTGATGCGATCCACTG
* * * * *
12603452 TACTGTAACTTCAGAGAGATAACATCTATTACTATATTCTGCTCCACTACAACTTCAGGGAGATA
1 TACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATA
* *
12603517 GGATTATCGACTTCAATCTGCTCCACTGCAACCTTAGGGGGATAAGATTTGCCATCTTCGATCTG
66 GGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG-CATCTTCGATCTG
* *
12603582 TCCCACTGCCACTTCAGGGGGATAAGACTTGCTCACTCAGTCTGCTCCACTGCAACCTCAGGGAG
130 CCCCACTGCCACTTCAGGGGGATAAGACTTGCTCACTCAGTCTACTCCACTGCAACCTCAGGGAG
12603647 ATAAGACCTGATGCGATCCACTG
195 ATAAGACCTGATGCGATCCACTG
12603670 TACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATA
1 TACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATA
12603735 GGATT
66 GGATT
12603740 TGTGGCTTAA
Statistics
Matches: 257, Mismatches: 30, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
217 102 0.40
218 155 0.60
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (217 bp):
TACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATA
GGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCATCTTCGATCTGC
CCCACTGCCACTTCAGGGGGATAAGACTTGCTCACTCAGTCTACTCCACTGCAACCTCAGGGAGA
TAAGACCTGATGCGATCCACTG
Found at i:12603875 original size:129 final size:129
Alignment explanation
Indices: 12603725--12604604 Score: 1418
Period size: 129 Copynumber: 6.8 Consensus size: 129
12603715 ACTACAACTT
* * *
12603725 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCTGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
12603790 GATCTGCTCCGCTACTGCTTATGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * *
12603854 CAGGGATATAGGACTTATGGCTTAAATCTGTTTCCTTACACTTAAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
12603919 GATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCCCAACCTATTCTACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * *
12603983 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCATTACTCTTGAAGATAAGATTCACCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
12604048 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTCCCCAACCCATTCCACTGCTGAT
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
12604112 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
12604177 GATCTGTTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * *
12604241 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCTTT
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
12604306 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
** * *
12604370 CAGGGATATAGGACTTGTGGCTTAAATCTATTTCCTTACACTTGAAGATAAGATTCACCGTCTTT
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
12604435 GATCTGCTCTGCTACTGCTACTGCTTAGGGAAACAAGATCTGCAATTTCCTAACCTATTCCACTG
66 GATCTG--CT-C--C-GCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTG
12604500 CTGAC
125 CTGAC
12604505 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
12604570 GATCTACTCCGTTACTGCTTAGGGAGACAAGATCT
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCT
12604605 ACTATATTCA
Statistics
Matches: 698, Mismatches: 47, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
129 572 0.82
130 1 0.00
131 2 0.00
132 2 0.00
133 2 0.00
134 1 0.00
135 118 0.17
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (129 bp):
CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
Found at i:12605874 original size:7 final size:7
Alignment explanation
Indices: 12605855--12605911 Score: 66
Period size: 7 Copynumber: 8.3 Consensus size: 7
12605845 TTAGCCTCTC
12605855 CATTTTT
1 CATTTTT
12605862 -ACTTTTT
1 CA-TTTTT
12605869 CATTTTT
1 CATTTTT
12605876 CATTCTTT
1 CATT-TTT
*
12605884 --GTTTT
1 CATTTTT
12605889 CATTTTT
1 CATTTTT
12605896 CATTTTT
1 CATTTTT
12605903 CATTTTT
1 CATTTTT
12605910 CA
1 CA
12605912 CATTTTTTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
5 3 0.07
6 2 0.05
7 34 0.79
8 4 0.09
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:12606756 original size:21 final size:20
Alignment explanation
Indices: 12606718--12606770 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
12606708 CGGCCTCTCC
* *
12606718 TTTTCGTTTTTTCTCTTTTCA
1 TTTTCATTTTTTCAC-TTTCA
* *
12606739 TTTTCATTTTTTGACTTTGA
1 TTTTCATTTTTTCACTTTCA
*
12606759 TTTTGATTTTTT
1 TTTTCATTTTTT
12606771 TTCTTTTTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.09, C:0.11, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTCATTTTTTCACTTTCA
Found at i:12606765 original size:6 final size:6
Alignment explanation
Indices: 12606747--12606802 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
12606737 CATTTTCATT
* ** *
12606747 TTTTGA CTTTGA TTTTGA TTTT-- TTTTCT TTTTGC TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
12606793 TTTTGA TTTT
1 TTTTGA TTTT
12606803 TCTTCCTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
4 4 0.09
6 39 0.91
ACGTcount: A:0.11, C:0.05, G:0.12, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:12606770 original size:22 final size:22
Alignment explanation
Indices: 12606745--12606790 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
12606735 TTCATTTTCA
*
12606745 TTTTTTGACTTTGATTTTGATT
1 TTTTTTCACTTTGATTTTGATT
** *
12606767 TTTTTTCTTTTTGCTTTTGATT
1 TTTTTTCACTTTGATTTTGATT
12606789 TT
1 TT
12606791 GATTTTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.07, G:0.11, T:0.74
Consensus pattern (22 bp):
TTTTTTCACTTTGATTTTGATT
Found at i:12606776 original size:20 final size:21
Alignment explanation
Indices: 12606724--12606790 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
12606714 CTCCTTTTCG
* *
12606724 TTTTTTCTCTTTTCATTTTCA
1 TTTTTTCTCTTTTGATTTTGA
**
12606745 TTTTTTGAC-TTTGATTTTGA
1 TTTTTTCTCTTTTGATTTTGA
* *
12606765 TTTTTTTTCTTTTTGCTTTTGA
1 TTTTTTCTC-TTTTGATTTTGA
12606787 TTTT
1 TTTT
12606791 GATTTTGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.43
21 7 0.19
22 14 0.38
ACGTcount: A:0.09, C:0.10, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTTCTCTTTTGATTTTGA
Found at i:12606785 original size:34 final size:35
Alignment explanation
Indices: 12606747--12606813 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
12606737 CATTTTCATT
*
12606747 TTTTGACTTTGATTTTGATTTTT-TTTCTTTTTGC
1 TTTTGACTTTGATTTTGATTTTTCTTCCTTTTTGC
*
12606781 TTTTGATTTTGATTTTGATTTTTCTTCCTTTTT
1 TTTTGACTTTGATTTTGATTTTTCTTCCTTTTT
12606814 TTTTGAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.09, C:0.09, G:0.10, T:0.72
Consensus pattern (35 bp):
TTTTGACTTTGATTTTGATTTTTCTTCCTTTTTGC
Found at i:12606811 original size:28 final size:28
Alignment explanation
Indices: 12606754--12606812 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
12606744 ATTTTTTGAC
* * *
12606754 TTTGATTTTGATTTTTTTTCTTTTTGCT
1 TTTGATTTTGATTTTATTTCTTCTTCCT
12606782 TTTGATTTTGATTTTGATTT-TTCTTCCT
1 TTTGATTTTGATTTT-ATTTCTTCTTCCT
12606810 TTT
1 TTT
12606813 TTTTTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.73
Consensus pattern (28 bp):
TTTGATTTTGATTTTATTTCTTCTTCCT
Found at i:12611484 original size:227 final size:229
Alignment explanation
Indices: 12611095--12611587 Score: 791
Period size: 227 Copynumber: 2.2 Consensus size: 229
12611085 GATTTTCAGA
* * *
12611095 AAAGCGCCGCAAAAAACCTAAGCCCAACGAC-TCGTTTTATGCGCTCTCGGGGATTTAGCGGCGT
1 AAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTCTCGGGGATTTAACGGCGT
* *
12611159 TTTTAAGAAAGCGCTGCTAATGCTCAGGTCTTTAGCGACGTTTTTTGGGAAAGCGCCGCAAAAAA
66 TTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGACGTTTTTAGGGAAAGCGCCGCAAAAAA
* *
12611224 ACCTAAGCCCAACGACGTCGCTTTTTGAGCTTTCGAGGATTTAGCGGCGTTTTTAAGAAAGCGTC
131 ACCTAAGCCCAACGACGCCGCTTTTTGAGCTTTCGAGGATTTAGCGGCGTTTTTAAGAAAGCGCC
*
12611289 GCTAATGCTCAGGTTTTTAGCGGCATTTTT-GGG
196 GCTAATGCTCAGGTCTTTAGCGGCATTTTTAGGG
* * *
12611322 AAAGCGCCGCAAAAAACCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAACGGCGT
1 AAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTCTCGGGGATTTAACGGCGT
*
12611387 TTTTAA-AACAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG-AAGCGCCGCAAAAA
66 TTTTAAGAA-AGCGCCGCTAATGCTCAGGTCTTTAGCGACGTTTTTAGGGAAAGCGCCGCAAAAA
*
12611450 AACCTAAGCCCAACGACGCCG-TTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCG
130 AACCTAAGCCCAACGACGCCGCTTTT-TGAGCTTTCGAGGATTTAGCGGCGTTTTTAAGAAAGCG
*
12611514 CCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
194 CCGCTAATGCTCAGGTCTTTAGCGGCATTTTTAGGG
12611550 -AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
1 AAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTT
12611588 AAGGGTACTT
Statistics
Matches: 246, Mismatches: 15, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
226 4 0.02
227 141 0.57
228 101 0.41
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (229 bp):
AAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTCTCGGGGATTTAACGGCGT
TTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGACGTTTTTAGGGAAAGCGCCGCAAAAAA
ACCTAAGCCCAACGACGCCGCTTTTTGAGCTTTCGAGGATTTAGCGGCGTTTTTAAGAAAGCGCC
GCTAATGCTCAGGTCTTTAGCGGCATTTTTAGGG
Found at i:12611499 original size:114 final size:115
Alignment explanation
Indices: 12611095--12611587 Score: 786
Period size: 114 Copynumber: 4.3 Consensus size: 115
12611085 GATTTTCAGA
* * * *
12611095 AAAGCGCCGC-AAAAAACCTAAGCCCAACGAC-TCGTTTTATGCGCTCTCGGGGATTTAGCGGCG
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
* * *
12611158 TTTTTAAGAAAGCGCTGCTAATGCTCAGGTCTTTAGCGACGTTTTTTGGG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
* *
12611208 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGCTTTT-TGAGCTTTCGAGGATTTAGCGGC
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCG-TTTTCTGAGCTTTCGGGGATTTAGCGGC
* * *
12611272 GTTTTTAAGAAAGCGTCGCTAATGCTCAGGTTTTTAGCGGCATTTTT-GGG
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
* *
12611322 AAAGCGCCGC-AAAAAACCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAACGGCG
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
12611386 TTTTTAA-AACAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
66 TTTTTAAGAA-AGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
12611436 -AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
12611500 TTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
12611550 -AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
12611588 AAGGGTACTT
Statistics
Matches: 355, Mismatches: 17, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
112 6 0.02
113 104 0.29
114 174 0.49
115 67 0.19
116 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (115 bp):
AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
TTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGGG
Found at i:12611853 original size:21 final size:22
Alignment explanation
Indices: 12611816--12611874 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
12611806 GAGTGTGGAT
*
12611816 TTAGGGA-TTATGGTTTAAGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
12611837 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
12611858 TTAGGGGTTTAGAGGTT
1 TTAGGGATTTA-AGGTT
12611875 AGACATTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 16 0.50
22 7 0.22
23 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
TTAGGGATTTAAGGTTTAAGGG
Found at i:12611876 original size:22 final size:22
Alignment explanation
Indices: 12611834--12611899 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
12611824 TATGGTTTAA
*
12611834 GGGTT-GGGATTTA-AGGTTTAG
1 GGGTTAGGGGTTTAGAGG-TTAG
12611855 GGGTTAGGGGTTTAGAGGTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
*** *
12611877 ACATTAGGGGTTAAGA-GTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
12611898 GG
1 GG
12611900 ATTTAAGGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 10 0.28
22 23 0.64
23 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.32
Consensus pattern (22 bp):
GGGTTAGGGGTTTAGAGGTTAG
Found at i:12612576 original size:101 final size:101
Alignment explanation
Indices: 12612448--12612681 Score: 400
Period size: 101 Copynumber: 2.3 Consensus size: 101
12612438 ATAAGCAATA
* *
12612448 GCGGCGTTT-T-TAAAAAATGCCGCAAAAAATAAATCAATTTATAAAAAAAAATTAGCATAATAA
1 GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAAATTAGCATAATAA
12612511 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
66 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
* * *
12612547 GCGGCGTTTCTATGAAAAACGCCGTAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
1 GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAAATTAGCATAATAA
12612612 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
66 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
*
12612648 GCGGCGTTTCTATGAAAAACGCCGCAAAAGATAA
1 GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAA
12612682 GCAATAGCGA
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
99 9 0.07
100 1 0.01
101 116 0.92
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (101 bp):
GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAAATTAGCATAATAA
AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
Found at i:12612709 original size:124 final size:120
Alignment explanation
Indices: 12612571--12612807 Score: 386
Period size: 124 Copynumber: 1.9 Consensus size: 120
12612561 AAAAACGCCG
12612571 TAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTG
1 TAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTG
*
12612636 AAATAATTTTTTGCGGCGTTTCT-ATGAAAAACGCCGCAAAAGATAAGCAATAGCGACGT
66 ----AATTTTTTGCAGCGTTTCTCAT-AAAAACGCCGCAAAAGATAAGCAATAGCGACGT
*
12612695 TAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAATGACGTCATTTTGTTCAAATTG
1 TAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTG
* *
12612760 AATTTTTTGCAGCGTTTTTCATAAAAACGCTGCAAAAGATAAGCAATA
66 AATTTTTTGCAGCGTTTCTCATAAAAACGCCGCAAAAGATAAGCAATA
12612808 ACAGCGTTTT
Statistics
Matches: 108, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
120 42 0.39
121 2 0.02
124 64 0.59
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (120 bp):
TAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTG
AATTTTTTGCAGCGTTTCTCATAAAAACGCCGCAAAAGATAAGCAATAGCGACGT
Found at i:12617072 original size:43 final size:42
Alignment explanation
Indices: 12616982--12617121 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 42
12616972 GAACGGTATT
* * ** **
12616982 TTTAGCTGCGTTTGTGATAAAAAGTGCCGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTGT--TAAAAAGCGCCGCTAAAGAACATGGCC
12617026 TTTAGCGGCGTTTGTTACAAAAGCGCCGCTAAAGAACATGGCC
1 TTTAGCGGCGTTTGTTA-AAAAGCGCCGCTAAAGAACATGGCC
* **
12617069 TTTAGCAGCGTTTG-TAAGAGAAGCATCGCTAAAGAACATGGCC
1 TTTAGCGGCGTTTGTTAA-A-AAGCGCCGCTAAAGAACATGGCC
12617112 TTTAGCGGCG
1 TTTAGCGGCG
12617122 CTTTTTAGCG
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 5 0.06
43 63 0.76
44 14 0.17
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTTAAAAAGCGCCGCTAAAGAACATGGCC
Found at i:12617467 original size:24 final size:24
Alignment explanation
Indices: 12617440--12617533 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 24
12617430 TAAAAAAATA
*
12617440 AAATAATAATGCATAACAAATTTG
1 AAATAATAATACATAACAAATTTG
* **
12617464 AAATGATAATACATAATGAATTTG
1 AAATAATAATACATAACAAATTTG
* *
12617488 AAA-ACA-AATACATAATAAATCT-
1 AAATA-ATAATACATAACAAATTTG
*
12617510 AAGCTAATAATACATGAA-AAATTT
1 AA-ATAATAATACAT-AACAAATTT
12617534 ATGATGCTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
22 2 0.04
23 15 0.27
24 37 0.66
25 2 0.04
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (24 bp):
AAATAATAATACATAACAAATTTG
Found at i:12620061 original size:63 final size:64
Alignment explanation
Indices: 12619971--12620154 Score: 203
Period size: 63 Copynumber: 2.9 Consensus size: 64
12619961 ATCCCTAAAA
** * * * *
12619971 AAGGTGTTGATGCAGGGAATTA-TTGTGTGTGTTATGGTGCTTGTGTAAAATAAACTGGTGTTG
1 AAGGTGTTGATGCAAAGAATGAGTTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGGAGCTG
** * * *
12620034 AATTTGTTGATGTAAAGAATG-GTTGTGTGTGCTGTGGTACTTGTGTAAAATAAACTGGAGCTG
1 AAGGTGTTGATGCAAAGAATGAGTTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGGAGCTG
* * * * *
12620097 AAGGTGTTGATGCGAGGAATGAG-TGTGCGTGTTGTGATGCTTGTGTCAAATAAACTGG
1 AAGGTGTTGATGCAAAGAATGAGTTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGG
12620155 GTTAGAGCCA
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
63 97 0.99
64 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.33, T:0.35
Consensus pattern (64 bp):
AAGGTGTTGATGCAAAGAATGAGTTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGGAGCTG
Found at i:12622078 original size:40 final size:40
Alignment explanation
Indices: 12622031--12622176 Score: 143
Period size: 40 Copynumber: 3.7 Consensus size: 40
12622021 GTTAATACTT
*
12622031 TGAAATGGCTATATGAATTGGTTATATAGAAATAGATATA
1 TGAAATGGTTATATGAATTGGTTATATAGAAATAGATATA
* ** * * *
12622071 TGGAATGGTTATATGAATCAGTTATACAGAAACAGATAAA
1 TGAAATGGTTATATGAATTGGTTATATAGAAATAGATATA
* ** *
12622111 CGAAATAATTATATGAATTGGTTATATGGAAATA-ATTATA
1 TGAAATGGTTATATGAATTGGTTATATAGAAATAGA-TATA
* * *
12622151 TGAAGTGGTT-TATGAAATGTTTATAT
1 TGAAATGGTTATATGAATTGGTTATAT
12622177 GGATAGATAT
Statistics
Matches: 82, Mismatches: 23, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
39 15 0.18
40 67 0.82
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (40 bp):
TGAAATGGTTATATGAATTGGTTATATAGAAATAGATATA
Found at i:12622174 original size:25 final size:27
Alignment explanation
Indices: 12622112--12622177 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
12622102 ACAGATAAAC
*
12622112 GAAATAATTATATGAATTGGTTATATG
1 GAAATAATTATATGAAGTGGTTATATG
12622139 GAAATAATTATATGAAGTGGTT-TAT-
1 GAAATAATTATATGAAGTGGTTATATG
**
12622164 GAAATGTTTATATG
1 GAAATAATTATATG
12622178 GATAGATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 12 0.33
26 3 0.08
27 21 0.58
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (27 bp):
GAAATAATTATATGAAGTGGTTATATG
Found at i:12623522 original size:7 final size:7
Alignment explanation
Indices: 12623512--12623549 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
12623502 AGGATTGAGG
12623512 ATTGAAA
1 ATTGAAA
12623519 ATTGAAA
1 ATTGAAA
12623526 ATTGAAA
1 ATTGAAA
12623533 ATTGAAA
1 ATTGAAA
12623540 ATTGAAA
1 ATTGAAA
12623547 ATT
1 ATT
12623550 TAGGATAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (7 bp):
ATTGAAA
Found at i:12624570 original size:104 final size:105
Alignment explanation
Indices: 12624385--12624592 Score: 328
Period size: 104 Copynumber: 2.0 Consensus size: 105
12624375 TTCCACTCAT
12624385 ATTTATATTTTTTATTTCATGTTGTTTTAAGCTGCTTCTTTTTTTAATGAATGTTTTTAACATAT
1 ATTTATATTTTTTATTTCATGTTGTTTTAAGCTGCTTCTTTTTTTAATGAATGTTTTTAACATAT
* *
12624450 CACCTTCCTTAGTTAAATGATTAAATAATAATTATTTTAC
66 CACCTTCCTTAATTAAATGATTAAATAATAATAATTTTAC
* * * *
12624490 ATTTATATTTTTTATTTCATGTTGTTTTAAGTTTCTT-TTTTTTTTATGAATGTTTTTAGCATAT
1 ATTTATATTTTTTATTTCATGTTGTTTTAAGCTGCTTCTTTTTTTAATGAATGTTTTTAACATAT
* * *
12624554 TAGCTTCCTTAATTAAATTATTAAATAATAATAATTTTA
66 CACCTTCCTTAATTAAATGATTAAATAATAATAATTTTA
12624593 TCCCAATTTC
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
104 59 0.63
105 35 0.37
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (105 bp):
ATTTATATTTTTTATTTCATGTTGTTTTAAGCTGCTTCTTTTTTTAATGAATGTTTTTAACATAT
CACCTTCCTTAATTAAATGATTAAATAATAATAATTTTAC
Found at i:12624977 original size:18 final size:18
Alignment explanation
Indices: 12624946--12624980 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12624936 TAAAATTATA
12624946 AAATAAAATAATTATTTC
1 AAATAAAATAATTATTTC
* *
12624964 AAATATAATTATTATTT
1 AAATAAAATAATTATTT
12624981 TTATATGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATAATTATTTC
Found at i:12627406 original size:52 final size:52
Alignment explanation
Indices: 12627345--12627448 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
12627335 GGCATCCATT
12627345 TTCTTGTACCTAGCAAACATCACAAGAGAAGTTGATTCAAATGAAATTTGAG
1 TTCTTGTACCTAGCAAACATCACAAGAGAAGTTGATTCAAATGAAATTTGAG
12627397 TTCTTGTACCTAGCAAACATCACAAGAGAAGTTGATTCAAATGAAATTTGAG
1 TTCTTGTACCTAGCAAACATCACAAGAGAAGTTGATTCAAATGAAATTTGAG
12627449 CTCTAAAAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (52 bp):
TTCTTGTACCTAGCAAACATCACAAGAGAAGTTGATTCAAATGAAATTTGAG
Found at i:12631647 original size:30 final size:31
Alignment explanation
Indices: 12631593--12631673 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
12631583 ATTTCTTTAA
* * *
12631593 ATGTGTATAATTAAATCAAAATCAAAGTTTT
1 ATGTGTATGATTGAATCAAAATCAAAGTTTC
*
12631624 ATGTGTATGATTGCATC-AAATCAAAGTTTC
1 ATGTGTATGATTGAATCAAAATCAAAGTTTC
* *
12631654 ATGTATATGATTGAACCAAA
1 ATGTGTATGATTGAATCAAA
12631674 TTAGAGTTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 26 0.62
31 16 0.38
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
ATGTGTATGATTGAATCAAAATCAAAGTTTC
Found at i:12633328 original size:15 final size:15
Alignment explanation
Indices: 12633308--12633338 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12633298 AATGTCACAA
12633308 ATACAACAATGGCAT
1 ATACAACAATGGCAT
*
12633323 ATACAATAATGGCAT
1 ATACAACAATGGCAT
12633338 A
1 A
12633339 GAAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (15 bp):
ATACAACAATGGCAT
Found at i:12633459 original size:12 final size:12
Alignment explanation
Indices: 12633452--12633482 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12633442 ATAAATGAAA
12633452 AAACAAATAAAT
1 AAACAAATAAAT
12633464 AAACAAATAAAT
1 AAACAAATAAAT
*
12633476 AAGCAAA
1 AAACAAA
12633483 AAGAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.10, G:0.03, T:0.13
Consensus pattern (12 bp):
AAACAAATAAAT
Found at i:12633461 original size:16 final size:15
Alignment explanation
Indices: 12633430--12633477 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
12633420 AACGAGCAAG
12633430 ATAAAAAATAATATAA
1 ATAAAAAATAA-ATAA
*
12633446 ATGAAAAAACAAATAA
1 AT-AAAAAATAAATAA
12633462 ATAAACAAATAAATAA
1 ATAAA-AAATAAATAA
12633478 GCAAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.11
16 17 0.61
17 8 0.29
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (15 bp):
ATAAAAAATAAATAA
Found at i:12635555 original size:24 final size:24
Alignment explanation
Indices: 12635518--12635568 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
12635508 AGGAGATAAG
12635518 ACTAGATGCAATCTGCTCTCTGCA
1 ACTAGATGCAATCTGCTCTCTGCA
**
12635542 ACTAGATGTGATCTGCTCTCTGCA
1 ACTAGATGCAATCTGCTCTCTGCA
12635566 ACT
1 ACT
12635569 TCAGAGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (24 bp):
ACTAGATGCAATCTGCTCTCTGCA
Found at i:12635639 original size:44 final size:42
Alignment explanation
Indices: 12635552--12635890 Score: 242
Period size: 44 Copynumber: 7.8 Consensus size: 42
12635542 ACTAGATGTG
* * * *
12635552 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-ATGCTTTA
* *
12635595 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--GCTTTA
12635639 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATG-C-T-TT-A
* *
12635684 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACT-TGCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGC-T--TTA
* * * * ***
12635728 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTA-GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGCTTTA
* ** * *
12635769 ATCTGCT-CTCTGCAACTTCAAAGAGATAATATCTAATGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-ATGCTTTA
* * * *
12635812 ATCCGCTCAACTGCAACTTCAGGGAGATAGGATTATCAGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--GCTTTA
* *
12635856 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA
12635891 GATGAGATCT
Statistics
Matches: 239, Mismatches: 38, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
40 19 0.08
41 8 0.03
42 5 0.02
43 19 0.08
44 152 0.64
45 36 0.15
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGCTTTA
Found at i:12635923 original size:24 final size:24
Alignment explanation
Indices: 12635889--12635937 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12635879 GAGATAAGAT
12635889 TAGATGAGATCTGCTCTCTGCAAC
1 TAGATGAGATCTGCTCTCTGCAAC
* *
12635913 TAGATGCGATCTGCTCTCTGTAAC
1 TAGATGAGATCTGCTCTCTGCAAC
12635937 T
1 T
12635938 TCAGAGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
TAGATGAGATCTGCTCTCTGCAAC
Found at i:12636008 original size:44 final size:43
Alignment explanation
Indices: 12635921--12636827 Score: 380
Period size: 44 Copynumber: 20.8 Consensus size: 43
12635911 ACTAGATGCG
* * * ** *
12635921 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTA
* *
12635964 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTA
* * * *
12636008 ATCTGCTCTACTGCAACTTCAGGGCGATAAGATT-TGCCATGTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-A
* * *
12636053 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAAACT-T-GCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTA
* * * * ***
12636097 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTA--GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTA
* * * * *
12636138 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTA
* ** * *
12636181 ATCCGCTCCACTATAACTTCAGGGAGATAGGATTATCAGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTA
* *
12636225 ATATGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-A
* * * **
12636270 ATCTGC-CTCACTGTAACTTC-TGAAGGATAAGA-CGT-GCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTA
* * * * * *
12636314 GTCTGCTCCACTACAACTTTAGGGAGATAAGACCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATGGCTTTA
* * * * *
12636358 ATCCGCTCTATTGCAACTTCAGAGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTA
* * * *
12636402 ATCTGCTCTACTGCAACTTTAGGGAGATAAAATT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-A
* * *
12636447 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAAACT-T-GCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTA
* * * * ***
12636491 GTCTGCTCCAATGCAACTTCAGGGAGATAAGA--ATAGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTA
* * * * *
12636532 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTA
* *
12636575 ATCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTA
* *
12636619 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-A
* * *
12636664 ATCTGC-CTCATTGCAACTTCA-GGAGGATAAAACT-T-GCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTA
* * * * * ***
12636708 GTCTGTTCCATTGCAACTTCAGGGAGATAAGACTA--GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTA
* * * * * * * *
12636749 ATATACT-CTCTGCAACTTTAGAGAGATAAGATCCAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTA
* * *
12636792 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
12636828 TGGCCAACGA
Statistics
Matches: 648, Mismatches: 159, Indels: 114
0.70 0.17 0.12
Matches are distributed among these distances:
40 61 0.09
41 18 0.03
42 7 0.01
43 50 0.08
44 382 0.59
45 128 0.20
46 1 0.00
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTA
Found at i:12636037 original size:152 final size:152
Alignment explanation
Indices: 12635759--12636041 Score: 467
Period size: 152 Copynumber: 1.9 Consensus size: 152
12635749 GGGAGATAAG
* *
12635759 ACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAATATCTAATGTTTTAATCCGCTCAACT
1 ACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAAGTTTTAATCCGCTCAACT
* *
12635824 GCAACTTCAGGGAGATAGGATTATCAGTTTTAATCTGCTCCACTGTAACTTCAGAGAGATAAGAT
66 GCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
12635889 TAGATGAGATCTGCTCTCTGCA
131 TAGATGAGATCTGCTCTCTGCA
* * *
12635911 ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACT
1 ACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAAGTTTTAATCCGCTCAACT
* * * *
12635976 GCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCTACTGCAACTTCAGGGCGATAAGAT
66 GCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
12636041 T
131 T
12636042 TGCCATGTTC
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
152 120 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (152 bp):
ACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAAGTTTTAATCCGCTCAACT
GCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
TAGATGAGATCTGCTCTCTGCA
Found at i:12636181 original size:369 final size:369
Alignment explanation
Indices: 12635492--12636258 Score: 1304
Period size: 369 Copynumber: 2.1 Consensus size: 369
12635482 CTTGGGTCTA
* * *
12635492 CTCCACTGCGACTTCA-AGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTAGATGTGATCT
1 CTCCACTGCAACTTCAGA-GAGATAAGATTAGATGCAATCTGCTCTCTGCAACTAGATGCGATCT
*
12635556 GCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
*
12635621 ATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCTTCTTCAGT
130 ATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
*
12635686 CTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGG
195 CTGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGG
* *
12635751 GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAATATCTAATGTTTTAATCC
260 GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCC
* * *
12635816 GCTCAACTGCAACTTCAGGGAGATAGGATTATCAGTTTTAATCTG
325 GCTCAACTACAACTTCAGGGAGATAGGATTATCAGCTTTAATATG
*
12635861 CTCCACTGTAACTTCAGAGAGATAAGATTAGATG-AGATCTGCTCTCTGCAACTAGATGCGATCT
1 CTCCACTGCAACTTCAGAGAGATAAGATTAGATGCA-ATCTGCTCTCTGCAACTAGATGCGATCT
*
12635925 GCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * *
12635990 ATAGGATTATCGGCTTTAATCTGCTCTACTGCAACTTCAGGGCGATAAGATTTGCCATGTTCTGT
130 ATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
12636055 CTGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGG
195 CTGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGG
* *
12636120 GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCC
260 GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCC
* *
12636185 GCTCCACTATAACTTCAGGGAGATAGGATTATCAGCTTTAATATG
325 GCTCAACTACAACTTCAGGGAGATAGGATTATCAGCTTTAATATG
*
12636230 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGAGAGATAAGATT
12636259 TGCCATCTTC
Statistics
Matches: 373, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
368 1 0.00
369 371 0.99
370 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (369 bp):
CTCCACTGCAACTTCAGAGAGATAAGATTAGATGCAATCTGCTCTCTGCAACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
TAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
TGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGG
AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCG
CTCAACTACAACTTCAGGGAGATAGGATTATCAGCTTTAATATG
Found at i:12636299 original size:217 final size:217
Alignment explanation
Indices: 12635911--12636346 Score: 728
Period size: 217 Copynumber: 2.0 Consensus size: 217
12635901 GCTCTCTGCA
12635911 ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACT
1 ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACT
* * * * *
12635976 GCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCTACTGCAACTTCAGGGCGATAAGAT
66 ACAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGAT
* ** * *
12636041 TTGCCATGTTCTGTCTGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCC
131 TTGCCATCTTCAATCTGCCTCACTGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCC
*
12636106 ACTGCAACTTTAGGGAGATAAG
196 ACTACAACTTTAGGGAGATAAG
*
12636128 ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
1 ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACT
*
12636193 ATAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGAT
66 ACAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
12636258 TTGCCATCTTCAATCTGCCTCACTGTAACTTCTGAAGGATAAGACGTGCTTACTTAGTCTGCTCC
131 TTGCCATCTTCAATCTGCCTCACTGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCC
12636323 ACTACAACTTTAGGGAGATAAG
196 ACTACAACTTTAGGGAGATAAG
12636345 AC
1 AC
12636347 CTAAGGTTTT
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 203 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACT
ACAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGAT
TTGCCATCTTCAATCTGCCTCACTGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCC
ACTACAACTTTAGGGAGATAAG
Found at i:12636356 original size:177 final size:177
Alignment explanation
Indices: 12636151--12636522 Score: 555
Period size: 177 Copynumber: 2.1 Consensus size: 177
12636141 TGCTCTCTGT
* * * *
12636151 AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTA
1 AACTTCAGGGAGATAAGACCTAAGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTA
*
12636216 TCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCAC
66 TCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAATCTGCCTCAC
* * * *
12636281 TGTAACTTCTGAAGGATAAGACGTGCTTACTTAGTCTGCTCCACTAC
131 TGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCCAATAC
* * * *
12636328 AACTTTAGGGAGATAAGACCTAAGGTTTTAATCCGCTCTATTGCAACTTCAGAGAGATAGGATTA
1 AACTTCAGGGAGATAAGACCTAAGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTA
* * * * *
12636393 TCGGCTTTAATCTGCTCTACTGCAACTTTAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCAC
66 TCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAATCTGCCTCAC
* * *
12636458 TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGC
131 TGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCCAATAC
12636505 AACTTCAGGGAGATAAGA
1 AACTTCAGGGAGATAAGA
12636523 ATAGATGCGA
Statistics
Matches: 173, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
177 173 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (177 bp):
AACTTCAGGGAGATAAGACCTAAGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTA
TCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAATCTGCCTCAC
TGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCCAATAC
Found at i:12636605 original size:217 final size:217
Alignment explanation
Indices: 12636327--12636827 Score: 833
Period size: 217 Copynumber: 2.3 Consensus size: 217
12636317 TGCTCCACTA
* * * *
12636327 CAACTTTAGGGAGATAAGA-CCTAAGGTTTTAATCCGCTCTATTGCAACTTCAGAGAGATAGGAT
1 CAACTTTAGAGAGATAAGATCC-AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
* *
12636391 TATCGGCTTTAATCTGCTCTACTGCAACTTTAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTC
65 TATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTGCCATCTTCAATCTGCCTC
12636456 ACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAA
130 ACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAA
* *
12636521 GAATAGATGCGATCTGCTCTCTG
195 GAATAGATGCGATATACTCTCTG
* * *
12636544 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTTAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
*
12636609 ATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCA
66 ATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTGCCATCTTCAATCTGCCTCA
* * *
12636674 TTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGTTCCATTGCAACTTCAGGGAGATAAG
131 CTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAAG
*
12636739 ACTAGATGCGATATACTCTCTG
196 AATAGATGCGATATACTCTCTG
*
12636761 CAACTTTAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
1 CAACTTTAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
12636826 AT
66 AT
12636828 TGGCCAACGA
Statistics
Matches: 263, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 261 0.99
218 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (217 bp):
CAACTTTAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
ATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTGCCATCTTCAATCTGCCTCA
CTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAAG
AATAGATGCGATATACTCTCTG
Found at i:12636671 original size:394 final size:394
Alignment explanation
Indices: 12635934--12636740 Score: 1335
Period size: 394 Copynumber: 2.0 Consensus size: 394
12635924 TGCTCTCTGT
* * *
12635934 AACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA
1 AACTTCAGGGAGATAAGACCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTA
* * * *
12635999 TCGGCTTTAATCTGCTCTACTGCAACTTCAGGGCGATAAGATTTGCCATGTTCTGTCTGCCTCAC
66 TCGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCAC
* *
12636064 TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA
131 TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAAGA
* * *
12636129 CTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTA
196 ATAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTA
*
12636194 TAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATT
261 CAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATT
* * *
12636259 TGCCATCTTCAATCTGCCTCACTGTAACTTCTGAAGGATAAGACGTGCTTACTTAGTCTGCTCCA
326 TGCCATCTTCAATCTGCCTCACTGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCCA
12636324 CTAC
391 CTAC
* * * *
12636328 AACTTTAGGGAGATAAGACCTAAGGTTTTAATCCGCTCTATTGCAACTTCAGAGAGATAGGATTA
1 AACTTCAGGGAGATAAGACCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTA
*
12636393 TCGGCTTTAATCTGCTCTACTGCAACTTTAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCAC
66 TCGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCAC
12636458 TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAAGA
131 TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAAGA
*
12636523 ATAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTA
196 ATAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTA
* * *
12636588 CAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
261 CAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * *
12636653 TGCCATCTTCAATCTGCCTCATTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGTTCCA
326 TGCCATCTTCAATCTGCCTCACTGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCCA
* *
12636718 TTGC
391 CTAC
12636722 AACTTCAGGGAGATAAGAC
1 AACTTCAGGGAGATAAGAC
12636741 TAGATGCGAT
Statistics
Matches: 381, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
394 381 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (394 bp):
AACTTCAGGGAGATAAGACCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTA
TCGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCAC
TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCAATGCAACTTCAGGGAGATAAGA
ATAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTA
CAACTTCAGGGAGATAGGATTATCAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATT
TGCCATCTTCAATCTGCCTCACTGCAACTTCAGAAGGATAAAACGTGCTTACTTAGTCTGCTCCA
CTAC
Found at i:12648156 original size:22 final size:21
Alignment explanation
Indices: 12648131--12648187 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
12648121 GATAATTGAT
12648131 TTTTCCTTGTTAAAAATCTAGG
1 TTTTCCTT-TTAAAAATCTAGG
* *
12648153 TTTTTC-TATAAAAATCTAGG
1 TTTTCCTTTTAAAAATCTAGG
*
12648173 TAATTCCTTATTAAA
1 T-TTTCCTT-TTAAA
12648188 CTCTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 13 0.48
21 4 0.15
22 6 0.22
23 4 0.15
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (21 bp):
TTTTCCTTTTAAAAATCTAGG
Found at i:12648224 original size:23 final size:22
Alignment explanation
Indices: 12648203--12648246 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
12648193 ATTTTTTTAC
12648203 TAGAAAAAT-TAAAATTAA-TT
1 TAGAAAAATATAAAATTAATTT
12648223 TAGAAAAATAATAAAATTAATTT
1 TAGAAAAAT-ATAAAATTAATTT
12648246 T
1 T
12648247 TAAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
TAGAAAAATATAAAATTAATTT
Found at i:12648228 original size:20 final size:21
Alignment explanation
Indices: 12648203--12648245 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
12648193 ATTTTTTTAC
12648203 TAGAAAAAT-TAAAATTAATT
1 TAGAAAAATATAAAATTAATT
12648223 TAGAAAAATAATAAAATTAATT
1 TAGAAAAAT-ATAAAATTAATT
12648245 T
1 T
12648246 TTAAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TAGAAAAATATAAAATTAATT
Found at i:12648259 original size:21 final size:21
Alignment explanation
Indices: 12648213--12648277 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
12648203 TAGAAAAATT
**
12648213 AAAATTAATTTAGAAAAAT-AA
1 AAAATTAATTT-TTAAAATGAA
12648234 TAAAATTAATTTTTAAAATGAA
1 -AAAATTAATTTTTAAAATGAA
* *
12648256 AAAATAAATTATTAAAATGAA
1 AAAATTAATTTTTAAAATGAA
12648277 A
1 A
12648278 GCTTATTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 25 0.66
22 13 0.34
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAATTAATTTTTAAAATGAA
Found at i:12649722 original size:20 final size:21
Alignment explanation
Indices: 12649684--12649724 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
12649674 GGTATCAAAT
12649684 TAAAATAAAAAAATTTAAGTAC
1 TAAAATAAAAAAA-TTAAGTAC
*
12649706 TAAAATGAAAAAA-TAAGTA
1 TAAAATAAAAAAATTAAGTA
12649725 TACTTTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (21 bp):
TAAAATAAAAAAATTAAGTAC
Found at i:12651957 original size:29 final size:31
Alignment explanation
Indices: 12651915--12651991 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
12651905 TTTACCTCAG
*
12651915 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
12651944 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
12651975 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
12651992 GAGCTGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:12652194 original size:27 final size:25
Alignment explanation
Indices: 12652139--12652195 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
12652129 GTTTTTTTAA
*
12652139 CTTTTTTTTCCTTATTTTCCACTCT
1 CTTTTTTTTCCTTATTTTCCACTCC
*
12652164 CTTTTGTTTCTCCTTATATTTTC-CTCC
1 CTTTT-TTT-TCCTTAT-TTTCCACTCC
12652191 CTTTT
1 CTTTT
12652196 CTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 3 0.11
27 15 0.56
28 4 0.15
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.63
Consensus pattern (25 bp):
CTTTTTTTTCCTTATTTTCCACTCC
Found at i:12652361 original size:21 final size:21
Alignment explanation
Indices: 12652335--12652375 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
12652325 AAAAAAGATT
12652335 AAAAATCTTTATTCTGGGTTA
1 AAAAATCTTTATTCTGGGTTA
12652356 AAAAATCTTTATTCTGGGTT
1 AAAAATCTTTATTCTGGGTT
12652376 TTCGTTGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (21 bp):
AAAAATCTTTATTCTGGGTTA
Found at i:12653199 original size:10 final size:10
Alignment explanation
Indices: 12653186--12653230 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
12653176 GAAAAGAATG
12653186 GAAAATAAAA
1 GAAAATAAAA
12653196 GAAAA-AAAA
1 GAAAATAAAA
12653205 GAAAATTAAAA
1 GAAAA-TAAAA
*
12653216 GAACATAAAA
1 GAAAATAAAA
12653226 GAAAA
1 GAAAA
12653231 GAATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.29
10 14 0.45
11 8 0.26
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:12653200 original size:20 final size:20
Alignment explanation
Indices: 12653186--12653230 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
12653176 GAAAAGAATG
12653186 GAAAA-TAAAAGAAAAAAAA
1 GAAAATTAAAAGAAAAAAAA
*
12653205 GAAAATTAAAAGAACATAAAA
1 GAAAATTAAAAGAA-AAAAAA
12653226 GAAAA
1 GAAAA
12653231 GAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
GAAAATTAAAAGAAAAAAAA
Found at i:12653230 original size:15 final size:15
Alignment explanation
Indices: 12653186--12653233 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
12653176 GAAAAGAATG
12653186 GAAAATAAAAGAAAA
1 GAAAATAAAAGAAAA
* *
12653201 -AAAAGAAAATTAAAA
1 GAAAATAAAA-GAAAA
*
12653216 GAACATAAAAGAAAA
1 GAAAATAAAAGAAAA
12653231 GAA
1 GAA
12653234 TTAAATTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 8 0.31
15 11 0.42
16 7 0.27
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (15 bp):
GAAAATAAAAGAAAA
Found at i:12654507 original size:39 final size:40
Alignment explanation
Indices: 12654464--12654554 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
12654454 TTGAATTTTC
* *
12654464 ATAGGAATTTGAA-TTTTTGGTTACAAAATTAAGTTTCTA
1 ATAGGAATTTGAAGTATTTGGATACAAAATTAAGTTTCTA
* * * *
12654503 ATAGGAGTTTTAAGTATTTGGATATAAAATTAAGTTTTTA
1 ATAGGAATTTGAAGTATTTGGATACAAAATTAAGTTTCTA
*
12654543 ATAGAAATTTGA
1 ATAGGAATTTGA
12654555 GTAAAAGTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 11 0.26
40 31 0.74
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (40 bp):
ATAGGAATTTGAAGTATTTGGATACAAAATTAAGTTTCTA
Found at i:12654976 original size:21 final size:21
Alignment explanation
Indices: 12654952--12654992 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12654942 AAAATTAAAG
*
12654952 TTAACAATAATTGTAAAAAAA
1 TTAAAAATAATTGTAAAAAAA
12654973 TTAAAAATAATTGTAAAAAA
1 TTAAAAATAATTGTAAAAAA
12654993 TGTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
TTAAAAATAATTGTAAAAAAA
Found at i:12655026 original size:21 final size:21
Alignment explanation
Indices: 12654996--12655046 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
12654986 TAAAAAATGT
* *
12654996 TAATTAAAAATT-ATAAAAAT
1 TAATTTAAAATTCATAAAAAA
*
12655016 TAATTGTAAAATTCTTAAAAAA
1 TAATT-TAAAATTCATAAAAAA
12655038 TAATTTAAA
1 TAATTTAAA
12655047 TTAACAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTTAAAATTCATAAAAAA
Found at i:12655079 original size:23 final size:23
Alignment explanation
Indices: 12655052--12655097 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
12655042 TTAAATTAAC
12655052 AATTTTTACAA-TTTTTAATGAAT
1 AATTTTTACAACTTTTTAA-GAAT
12655075 AATTTTTACAACTTTTTAAGAAT
1 AATTTTTACAACTTTTTAAGAAT
12655098 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTTTTACAACTTTTTAAGAAT
Found at i:12656234 original size:99 final size:99
Alignment explanation
Indices: 12656063--12656261 Score: 326
Period size: 99 Copynumber: 2.0 Consensus size: 99
12656053 CAAGCCCTTT
*
12656063 TGCCTTTCCGAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACT
1 TGCCTTTCCAAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACT
* ** *
12656128 TTCAAGAGATAGGTTGACTTGGGCAGATTTGAAG
66 TTCAAGAGATAAGTTGACTTAAGCAGATTTAAAG
* *
12656162 TGCCTTTCCAAGTTACTTCCGTTTTATTTCGGTGGCTTAGAGAATTTCCCTTGAGAATTCTCACT
1 TGCCTTTCCAAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACT
*
12656227 TTCAAGAGATAAGTTGTCTTAAGCAGATTTAAAG
66 TTCAAGAGATAAGTTGACTTAAGCAGATTTAAAG
12656261 T
1 T
12656262 AAAGATATCT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (99 bp):
TGCCTTTCCAAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACT
TTCAAGAGATAAGTTGACTTAAGCAGATTTAAAG
Found at i:12656503 original size:26 final size:25
Alignment explanation
Indices: 12656458--12656507 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
12656448 TAACACTGGC
* *
12656458 TATGTTTTTAATGTAGTGTTTGTTAT
1 TATGATTTTAATGTAATG-TTGTTAT
*
12656484 TATGATTTTAATTTAATGTTGTTA
1 TATGATTTTAATGTAATGTTGTTA
12656508 GTGTTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (25 bp):
TATGATTTTAATGTAATGTTGTTAT
Found at i:12658705 original size:16 final size:16
Alignment explanation
Indices: 12658684--12658728 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
12658674 TTTTAAAACT
12658684 TATATTTAGATATAAA
1 TATATTTAGATATAAA
*
12658700 TATATTT--ATATGAA
1 TATATTTAGATATAAA
12658714 TATATCTTAGATATA
1 TATAT-TTAGATATA
12658729 TTTGCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 7 0.29
17 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (16 bp):
TATATTTAGATATAAA
Found at i:12658839 original size:65 final size:65
Alignment explanation
Indices: 12658768--12658895 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
12658758 AACCAAAATA
* *
12658768 ATATATAATTTATGAAGAAACTAAAAATTAGATTATAAATAT-ATATGTGAAAAATATTTAAATG
1 ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATAT-TGAAAAATATTTAAATG
12658832 T
65 T
12658833 ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATGCATATTGAAAAATATTTAAA
1 ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATAT-CATATTGAAAAATATTTAAA
12658896 AACAATGATA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
65 40 0.68
66 15 0.25
67 4 0.07
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (65 bp):
ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATATTGAAAAATATTTAAATGT
Found at i:12661109 original size:8 final size:8
Alignment explanation
Indices: 12661096--12661123 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12661086 AGAAGGGACA
12661096 AATTGAAG
1 AATTGAAG
12661104 AATTGAAG
1 AATTGAAG
12661112 AATTGAAG
1 AATTGAAG
12661120 AATT
1 AATT
12661124 AGTGGTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (8 bp):
AATTGAAG
Found at i:12662484 original size:17 final size:18
Alignment explanation
Indices: 12662462--12662498 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
12662452 CCAGAAAGAA
12662462 GGAAAAAGAA-AAAAAAG
1 GGAAAAAGAAGAAAAAAG
*
12662479 GGAAAAAGAAGAAGAAAG
1 GGAAAAAGAAGAAAAAAG
12662497 GG
1 GG
12662499 GCCCAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GGAAAAAGAAGAAAAAAG
Found at i:12674876 original size:10 final size:10
Alignment explanation
Indices: 12674859--12674904 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
12674849 AATTTAATTC
12674859 TTTTCTTTTA
1 TTTTCTTTTA
*
12674869 TGTTCTTTTAA
1 TTTTCTTTT-A
*
12674880 TTTTCTTTTT
1 TTTTCTTTTA
12674890 TTTTCTTTTA
1 TTTTCTTTTA
12674900 TTTTC
1 TTTTC
12674905 CATTCTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:12674885 original size:21 final size:20
Alignment explanation
Indices: 12674859--12674904 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
12674849 AATTTAATTC
12674859 TTTTCTTTTATGTTCTTTTAA
1 TTTTCTTTTATGTTCTTTT-A
* *
12674880 TTTTCTTTTTTTTTCTTTTA
1 TTTTCTTTTATGTTCTTTTA
12674900 TTTTC
1 TTTTC
12674905 CATTCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTATGTTCTTTTA
Found at i:12674913 original size:21 final size:21
Alignment explanation
Indices: 12674871--12674913 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
12674861 TTCTTTTATG
* *
12674871 TTCTTTTAATTTTCTTTTTTT
1 TTCTTTTAATTTTCATTCTTT
12674892 TTCTTTT-ATTTTCCATTCTTT
1 TTCTTTTAATTTT-CATTCTTT
12674913 T
1 T
12674914 CTACTTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (21 bp):
TTCTTTTAATTTTCATTCTTT
Found at i:12675737 original size:21 final size:21
Alignment explanation
Indices: 12675713--12675756 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
12675703 CTTCAACGAA
12675713 AACCCAGAATAAAGATTTTTT
1 AACCCAGAATAAAGATTTTTT
12675734 AACCCAGAATAAAGATTTTTT
1 AACCCAGAATAAAGATTTTTT
12675755 AA
1 AA
12675757 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (21 bp):
AACCCAGAATAAAGATTTTTT
Found at i:12676163 original size:29 final size:31
Alignment explanation
Indices: 12676092--12676168 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
12676082 TTAACAGCTC
* *
12676092 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* *
12676123 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTGACTAAAATGTAACAATACGATAACATA
12676152 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
12676169 CTGAGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:12681465 original size:40 final size:40
Alignment explanation
Indices: 12681421--12681627 Score: 245
Period size: 40 Copynumber: 5.2 Consensus size: 40
12681411 GCTCATGATC
* *
12681421 GTACTTCGGTACCCCTGAATGCAGATACGTGCCCCTTTTT
1 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
* *
12681461 GTACTTCGATACCCCTGAATGCACATACGTGCCCCTGCTT
1 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
* * * *
12681501 GTACTTCAGTA-CCCTAAATGCACATACGTGCCCTTATTT
1 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
* * * * *
12681540 ATACTTTGGTACCCTTGAATGCATATACGTGCCCCTGATT
1 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
* * * * *
12681580 GTACTTCAGTACCCTTGAATACATATACGTGCCCCTATTT
1 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
12681620 GTACTTCG
1 GTACTTCG
12681628 AAACTCCTTA
Statistics
Matches: 140, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 32 0.23
40 108 0.77
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (40 bp):
GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
Found at i:12681495 original size:20 final size:20
Alignment explanation
Indices: 12681432--12681497 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
12681422 TACTTCGGTA
*
12681432 CCCCTGAATGCAGATACGTG
1 CCCCTGAATGCACATACGTG
*** * * *
12681452 CCCCTTTTTGTAC-TTCGATA
1 CCCCTGAATGCACATACG-TG
12681472 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
12681492 CCCCTG
1 CCCCTG
12681498 CTTGTACTTC
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:12681553 original size:79 final size:79
Alignment explanation
Indices: 12681382--12681625 Score: 287
Period size: 79 Copynumber: 3.1 Consensus size: 79
12681372 TATATGAATT
* * * * *
12681382 TACTTTGGTA-CCCTGAATTGCATATTA-GTGCTCATGATCGTACTTCGGTACCCCTGAATGCAG
1 TACTTTGGTACCCCTGAA-TGCATA-TACGTGCCCCTGATTGTACTTCAGTA-CCCTGAATGCAC
12681445 ATACGTGCCCCTT-TTTG
63 ATACGTG-CCCTTATTTG
* * * * *
12681462 TACTTCGATACCCCTGAATGCACATACGTGCCCCTGCTTGTACTTCAGTACCCTAAATGCACATA
1 TACTTTGGTACCCCTGAATGCATATACGTGCCCCTGATTGTACTTCAGTACCCTGAATGCACATA
*
12681527 CGTGCCCTTATTTA
66 CGTGCCCTTATTTG
* * *
12681541 TACTTTGGTACCCTTGAATGCATATACGTGCCCCTGATTGTACTTCAGTACCCTTGAATACATAT
1 TACTTTGGTACCCCTGAATGCATATACGTGCCCCTGATTGTACTTCAGTACCC-TGAATGCACAT
*
12681606 ACGTGCCCCTATTTG
65 ACGTGCCCTTATTTG
12681621 TACTT
1 TACTT
12681626 CGAAACTCCT
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.04
79 70 0.50
80 57 0.41
81 7 0.05
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.34
Consensus pattern (79 bp):
TACTTTGGTACCCCTGAATGCATATACGTGCCCCTGATTGTACTTCAGTACCCTGAATGCACATA
CGTGCCCTTATTTG
Found at i:12696143 original size:17 final size:17
Alignment explanation
Indices: 12696121--12696157 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
12696111 TATAAGTATA
*
12696121 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
12696138 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
12696155 CAT
1 CAT
12696158 GATTAGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:12701896 original size:55 final size:55
Alignment explanation
Indices: 12701829--12701932 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
12701819 GATTTTTTGG
* * *
12701829 TGAAATTGTAGTTGGGGATTAAATTGTTAAAATTATAAATCCATGGGTTCTTTAA
1 TGAAATTGTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTCTTTAA
*
12701884 TGAAATTTTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTT
1 TGAAATTGTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTT
12701933 TTACTGTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (55 bp):
TGAAATTGTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTCTTTAA
Found at i:12708993 original size:32 final size:32
Alignment explanation
Indices: 12708957--12709019 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
12708947 TGAAAGCTTT
12708957 TGTTGTATGCCATTATGGTTGAGAGCTCTATA
1 TGTTGTATGCCATTATGGTTGAGAGCTCTATA
*
12708989 TGTTGTATGCCATTATGGTTGAGAGGTCTAT
1 TGTTGTATGCCATTATGGTTGAGAGCTCTAT
12709020 CAATGTTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (32 bp):
TGTTGTATGCCATTATGGTTGAGAGCTCTATA
Found at i:12710569 original size:12 final size:12
Alignment explanation
Indices: 12710548--12710578 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12710538 TATTTGATTC
*
12710548 AAGAAGAAGAAG
1 AAGAAAAAGAAG
12710560 AAGAAAAAGAAG
1 AAGAAAAAGAAG
12710572 AAGAAAA
1 AAGAAAA
12710579 TAAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:12717183 original size:37 final size:37
Alignment explanation
Indices: 12717067--12717183 Score: 100
Period size: 38 Copynumber: 3.1 Consensus size: 37
12717057 TAGATCTCCT
*
12717067 TAAATATGGTAACTTGATCACACATAAATTCTTCAAA
1 TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
* * *
12717104 TAAAATCAT-TGAA--TGAT-ACTCA-ACAATATCATGTCCATA
1 T-AAAT-ATGTTAACTTGATCACACATA-AAT-TC-T-T-CAAA
12717143 TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
1 TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
12717180 TAAA
1 TAAA
12717184 ATCATTGAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
34 1 0.02
35 7 0.11
36 6 0.10
37 11 0.18
38 15 0.25
39 7 0.11
40 6 0.10
41 7 0.11
42 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (37 bp):
TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
Found at i:12717193 original size:76 final size:76
Alignment explanation
Indices: 12717067--12717221 Score: 283
Period size: 76 Copynumber: 2.0 Consensus size: 76
12717057 TAGATCTCCT
12717067 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
1 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
*
12717132 TCATGTCCATA
66 TCATATCCATA
* *
12717143 TAAATATGTTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATATTCAACAATA
1 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
12717208 TCATATCCATA
66 TCATATCCATA
12717219 TAA
1 TAA
12717222 TTGTTCCTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (76 bp):
TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
TCATATCCATA
Found at i:12718617 original size:8 final size:8
Alignment explanation
Indices: 12718606--12718639 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
12718596 CTTAAAATAC
12718606 AAAAAAAG
1 AAAAAAAG
12718614 -AAAAAAG
1 AAAAAAAG
12718621 AAAAAAAG
1 AAAAAAAG
12718629 AAAAAGAAG
1 AAAAA-AAG
12718638 AA
1 AA
12718640 GATCCGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 12 0.50
9 5 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:12721060 original size:16 final size:16
Alignment explanation
Indices: 12721039--12721071 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
12721029 CCCAATGTAA
12721039 GTACGGGTTTGAATCC
1 GTACGGGTTTGAATCC
12721055 GTACGGGTTTGAATCC
1 GTACGGGTTTGAATCC
12721071 G
1 G
12721072 AAAGCTGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.30
Consensus pattern (16 bp):
GTACGGGTTTGAATCC
Found at i:12726416 original size:56 final size:56
Alignment explanation
Indices: 12726330--12726441 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
12726320 TATCACACAA
12726330 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
1 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
*
12726386 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGTAGTGATGTATCTACTTAACC
1 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
12726442 CTCAACACGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (56 bp):
ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
Found at i:12735909 original size:29 final size:29
Alignment explanation
Indices: 12735835--12736033 Score: 201
Period size: 29 Copynumber: 6.8 Consensus size: 29
12735825 GCGTGCTAAA
* * * *
12735835 CGATGGTTGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCGAATCCATCCCTTTTC-ATATT
*
12735865 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAATCCATCCCTTTTCATATT
*
12735894 CGATGGTCGAATCCATCCCTTTTCATTTT
1 CGATGGTCGAATCCATCCCTTTTCATATT
* *
12735923 CGATGGTTG-TTACCATCCCTTTTCATATT
1 CGATGGTCGAAT-CCATCCCTTTTCATATT
* * *
12735952 CGATGGTTGTCA-CCATCCCTTTTTATATT
1 CGATGGTCG-AATCCATCCCTTTTCATATT
12735981 CGATGGTC--ATCACCATCCCTTTTCATATT
1 CGATGGTCGAAT--CCATCCCTTTTCATATT
*
12736010 CGATGGTCGTCA-CCATCCCTTTTC
1 CGATGGTCG-AATCCATCCCTTTTC
12736034 TTTAATCGAT
Statistics
Matches: 148, Mismatches: 12, Indels: 19
0.83 0.07 0.11
Matches are distributed among these distances:
26 1 0.01
28 1 0.01
29 122 0.82
30 23 0.16
32 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (29 bp):
CGATGGTCGAATCCATCCCTTTTCATATT
Found at i:12735944 original size:58 final size:58
Alignment explanation
Indices: 12735835--12736033 Score: 249
Period size: 58 Copynumber: 3.4 Consensus size: 58
12735825 GCGTGCTAAA
* * *
12735835 CGATGGTTGAAACCATCCCTTTTC-TTTAATCGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATTT--TCGATGGTCGTAACCATCCCTTTTCATATT
* *
12735894 CGATGGTCG-AATCCATCCCTTTTCATTTTCGATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCGTAA-CCATCCCTTTTCATTTTCGATGGTCGTAACCATCCCTTTTCATATT
* * * * * *
12735952 CGATGGTTGTCACCATCCCTTTTTATATTCGATGGTCATCACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATTTTCGATGGTCGTAACCATCCCTTTTCATATT
*
12736010 CGATGGTCGTCACCATCCCTTTTC
1 CGATGGTCGTAACCATCCCTTTTC
12736034 TTTAATCGAT
Statistics
Matches: 124, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
58 100 0.81
59 21 0.17
60 3 0.02
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (58 bp):
CGATGGTCGTAACCATCCCTTTTCATTTTCGATGGTCGTAACCATCCCTTTTCATATT
Found at i:12735982 original size:87 final size:87
Alignment explanation
Indices: 12735835--12736045 Score: 273
Period size: 87 Copynumber: 2.4 Consensus size: 87
12735825 GCGTGCTAAA
* *
12735835 CGATGGTTGAAACCATCCCTTTTCTTTAATCGATGGTCGAAACCATCCCTTTTCATATTCGATGG
1 CGATGGTTGTAACCATCCCTTTTCTATAATCGATGGTCGAAACCATCCCTTTTCATATTCGATGG
*
12735900 TCGA-ATCCATCCCTTTTCATTTT
66 TC-ATA-CCATCCCTTTTCATATT
* * * ** *
12735923 CGATGGTTGTTACCATCCCTTTTC-ATATTCGATGGTTGTCACCATCCCTTTTTATATTCGATGG
1 CGATGGTTGTAACCATCCCTTTTCTATAATCGATGGTCGAAACCATCCCTTTTCATATTCGATGG
12735987 TCATCACCATCCCTTTTCATATT
66 TCAT-ACCATCCCTTTTCATATT
* * *
12736010 CGATGGTCGTCACCATCCCTTTTCTTTAATCGATGG
1 CGATGGTTGTAACCATCCCTTTTCTATAATCGATGG
12736046 GCGTCGATAC
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
86 1 0.01
87 74 0.69
88 32 0.30
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (87 bp):
CGATGGTTGTAACCATCCCTTTTCTATAATCGATGGTCGAAACCATCCCTTTTCATATTCGATGG
TCATACCATCCCTTTTCATATT
Found at i:12754123 original size:25 final size:25
Alignment explanation
Indices: 12754094--12754153 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
12754084 CTAGATTATG
12754094 CCACAAAGGCAACATACA-AAGTACA
1 CCACAAAGGCAACATACAGAA-TACA
* * *
12754119 CCACAAAGGTAACATACAGTATACG
1 CCACAAAGGCAACATACAGAATACA
12754144 CCACAAAGGC
1 CCACAAAGGC
12754154 CAAATAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.47, C:0.28, G:0.15, T:0.10
Consensus pattern (25 bp):
CCACAAAGGCAACATACAGAATACA
Found at i:12763765 original size:54 final size:54
Alignment explanation
Indices: 12763678--12763801 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
12763668 GTGTATATTT
* * * *
12763678 CACACGGCCTAAGACATGGCCATGTGCATCAAGTGAATGAGTTATACGGTCTAG
1 CACACGGCCTGAGACATGGCCATGTGCATCAAGTCAAAGAGTTACACGGTCTAG
* * * *
12763732 CACACGGCCTGCGACATGGTCGTGTGTCA-CAAGTCAAAGAGTTACACGGTCTGG
1 CACACGGCCTGAGACATGGCCATGTG-CATCAAGTCAAAGAGTTACACGGTCTAG
*
12763786 CACACGGCCTGTGACA
1 CACACGGCCTGAGACA
12763802 CAATCGTGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 58 0.97
55 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (54 bp):
CACACGGCCTGAGACATGGCCATGTGCATCAAGTCAAAGAGTTACACGGTCTAG
Found at i:12769280 original size:23 final size:23
Alignment explanation
Indices: 12769253--12769303 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
12769243 AACTTCAACC
*
12769253 TGAACTCGACTCGATCCAACCCA
1 TGAACTCGACTCGATCCAACCAA
*
12769276 TGAACTCGACTCGTTCCAACCAA
1 TGAACTCGACTCGATCCAACCAA
12769299 TGAAC
1 TGAAC
12769304 ACCTCTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (23 bp):
TGAACTCGACTCGATCCAACCAA
Found at i:12771354 original size:34 final size:34
Alignment explanation
Indices: 12771316--12771388 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
12771306 AGAACAAAAC
*
12771316 CAATGATGCAAAAAGAAACCAGATATGATGTCTA
1 CAATGATGCAAAAAGAAACCAAATATGATGTCTA
*** *
12771350 CAATGATGCAATCTGAAACCAAATATGATGTTTA
1 CAATGATGCAAAAAGAAACCAAATATGATGTCTA
12771384 CAATG
1 CAATG
12771389 TTGCTTCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (34 bp):
CAATGATGCAAAAAGAAACCAAATATGATGTCTA
Found at i:12774447 original size:34 final size:35
Alignment explanation
Indices: 12774403--12774469 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
12774393 CAGTAAAATA
*
12774403 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
12774437 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
12774470 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:12778540 original size:27 final size:24
Alignment explanation
Indices: 12778482--12778541 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
12778472 ATTTTAGACG
*
12778482 TATTTTAAATATAGATTTTTTTAT
1 TATTATAAATATAGATTTTTTTAT
12778506 T-TTAATAACATATAAGATTTTTTATAT
1 TATT-ATAA-ATAT-AGATTTTTT-TAT
12778533 TATTATAAA
1 TATTATAAA
12778542 AATATGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 2 0.07
24 4 0.13
25 4 0.13
26 10 0.33
27 8 0.27
28 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (24 bp):
TATTATAAATATAGATTTTTTTAT
Found at i:12778606 original size:31 final size:32
Alignment explanation
Indices: 12778571--12778634 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
12778561 GAAACTATAA
* *
12778571 TGAACTTGGACAATA-TTTGTCCAAATACATT
1 TGAACCTGGACAACATTTTGTCCAAATACATT
* *
12778602 TGAACCTGGACAACATTTTGTCCAGATTCATT
1 TGAACCTGGACAACATTTTGTCCAAATACATT
12778634 T
1 T
12778635 TAGACAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (32 bp):
TGAACCTGGACAACATTTTGTCCAAATACATT
Found at i:12780010 original size:24 final size:24
Alignment explanation
Indices: 12779983--12780029 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
12779973 CAGTGTAAAG
* *
12779983 TCACAGCCATGTGACAGTTCTTAA
1 TCACAGCCATGCGACAATTCTTAA
12780007 TCACAGCCATGCGACAATTCTTA
1 TCACAGCCATGCGACAATTCTTA
12780030 TCTGTAAATT
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:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (24 bp):
TCACAGCCATGCGACAATTCTTAA
Found at i:12780444 original size:24 final size:23
Alignment explanation
Indices: 12780413--12780458 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
12780403 AAAATTATGT
* *
12780413 TATGATATGTATGCGTGAATATA
1 TATGATATATATGCATGAATATA
*
12780436 TATGTATATATGTGCATGAATAT
1 TATG-ATATATATGCATGAATAT
12780459 GATTACTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (23 bp):
TATGATATATATGCATGAATATA
Found at i:12782211 original size:106 final size:106
Alignment explanation
Indices: 12782023--12782232 Score: 330
Period size: 106 Copynumber: 2.0 Consensus size: 106
12782013 GAAAGAAAAT
* * **
12782023 ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTGTTTTGTTCTTCACCGAACCTCTATG
1 ATTAAAAATATGAAAACATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACCGAACCTCTAAA
* **
12782088 GAAGTATATTCATGGTTCGGTTATGCCTAAATCCTTGCAAG
66 GAAGTATATTCAAGGTTCGACTATGCCTAAATCCTTGCAAG
* *
12782129 ATTAAAAATATGAAAGCATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACTGAACCTCTAAA
1 ATTAAAAATATGAAAACATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACCGAACCTCTAAA
*
12782194 GAAGTATATTCAAGGTTCGACTATGCTTAAATCCTTGCA
66 GAAGTATATTCAAGGTTCGACTATGCCTAAATCCTTGCA
12782233 TGGTAAGCTC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (106 bp):
ATTAAAAATATGAAAACATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACCGAACCTCTAAA
GAAGTATATTCAAGGTTCGACTATGCCTAAATCCTTGCAAG
Found at i:12783121 original size:35 final size:35
Alignment explanation
Indices: 12783073--12783141 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
12783063 TCTCTATTTA
**
12783073 GCGTGTTTTGGTTGGATTAGCTCTTATGAGCATTG
1 GCGTGTTACGGTTGGATTAGCTCTTATGAGCATTG
12783108 GCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
1 GCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
12783142 AACATGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.13, G:0.30, T:0.41
Consensus pattern (35 bp):
GCGTGTTACGGTTGGATTAGCTCTTATGAGCATTG
Found at i:12783150 original size:35 final size:35
Alignment explanation
Indices: 12783082--12783169 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
12783072 AGCGTGTTTT
** *
12783082 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
1 GGTTGGATTAGCTCTTATGAGCATTAACATGTTAC
*
12783117 GGTTGGATTAGCTCTTATGAGCATTAACATGTTAT
1 GGTTGGATTAGCTCTTATGAGCATTAACATGTTAC
** *
12783152 GGTCCGATTGGCTCTTAT
1 GGTTGGATTAGCTCTTAT
12783170 AAAAATCTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (35 bp):
GGTTGGATTAGCTCTTATGAGCATTAACATGTTAC
Found at i:12790648 original size:49 final size:49
Alignment explanation
Indices: 12790578--12790708 Score: 226
Period size: 49 Copynumber: 2.7 Consensus size: 49
12790568 GAGCCATAAT
12790578 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
1 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
*
12790627 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGCTACAAA
1 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
* * *
12790676 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATT
1 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATT
12790709 AAAGCTAAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (49 bp):
TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
Found at i:12792519 original size:30 final size:30
Alignment explanation
Indices: 12792475--12792553 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
12792465 TACACATACA
* * *
12792475 TATATATATCTATATCCATC-ATACATTTT
1 TATATATATATATATACATCTATAAATTTT
*
12792504 TATAATATATATATATACGTCTATAAATTTT
1 TAT-ATATATATATATACATCTATAAATTTT
*
12792535 TATATATATATATGTACAT
1 TATATATATATATATACAT
12792554 AATTACATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.07
30 28 0.67
31 11 0.26
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATATATATATATACATCTATAAATTTT
Found at i:12792808 original size:34 final size:32
Alignment explanation
Indices: 12792749--12792816 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 32
12792739 GTATCCCTTT
12792749 TATAAATATACATACACGTACATATTTTTATTTA
1 TATAAATATACATACAC-TACATATTTTT-TTTA
*
12792783 TATAAATATATATACA-TACTTATATTTTTTTTA
1 TATAAATATACATACACTAC--ATATTTTTTTTA
12792816 T
1 T
12792817 TTTATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 3 0.10
33 5 0.16
34 23 0.74
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (32 bp):
TATAAATATACATACACTACATATTTTTTTTA
Found at i:12792839 original size:27 final size:28
Alignment explanation
Indices: 12792803--12792863 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
12792793 TATACATACT
* *
12792803 TATATTTTTTTTATTTT-ATA-ATTTTCA
1 TATATATTTTTTATTTTCATATAATTT-A
12792830 TATATATTT-TTATTTTCATATAATTTA
1 TATATATTTTTTATTTTCATATAATTTA
12792857 TATATAT
1 TATATAT
12792864 ACCTACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.23
27 19 0.63
28 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (28 bp):
TATATATTTTTTATTTTCATATAATTTA
Found at i:12795302 original size:42 final size:43
Alignment explanation
Indices: 12795142--12795303 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
12795132 AAAAGCACCG
* * * * *
12795142 CTAAAGAACATGACCTTTAGCGGTGC-TTTACCCATAAACGCCG
1 CTAAAGATCATGACATTTAGCGGCGCTTTTA-TCATAAACGCCA
*
12795185 TTAAAGATCATGACATTTAGCGGCAG-TTTTATCATAAACGCCA
1 CTAAAGATCATGACATTTAGCGGC-GCTTTTATCATAAACGCCA
* * *
12795228 TTAAAGATCATGACATTTAGTGACGCTTTTATCATAAACGCCA
1 CTAAAGATCATGACATTTAGCGGCGCTTTTATCATAAACGCCA
* *
12795271 CTAAAGATC-TGACCTTTAGTGGCGCTTTTATCA
1 CTAAAGATCATGACATTTAGCGGCGCTTTTATCA
12795304 CAAATGCCGC
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 23 0.22
43 77 0.73
44 5 0.05
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
CTAAAGATCATGACATTTAGCGGCGCTTTTATCATAAACGCCA
Found at i:12799621 original size:69 final size:69
Alignment explanation
Indices: 12799519--12799653 Score: 270
Period size: 69 Copynumber: 2.0 Consensus size: 69
12799509 ATGACTGTAA
12799519 TTAATTATTAAGTTAGAATTATCCAATGTAAGCAATCAATCTCTCACATATCAAATTTCTATTAA
1 TTAATTATTAAGTTAGAATTATCCAATGTAAGCAATCAATCTCTCACATATCAAATTTCTATTAA
12799584 ATGT
66 ATGT
12799588 TTAATTATTAAGTTAGAATTATCCAATGTAAGCAATCAATCTCTCACATATCAAATTTCTATTAA
1 TTAATTATTAAGTTAGAATTATCCAATGTAAGCAATCAATCTCTCACATATCAAATTTCTATTAA
12799653 A
66 A
12799654 GGTTGAGACG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.39
Consensus pattern (69 bp):
TTAATTATTAAGTTAGAATTATCCAATGTAAGCAATCAATCTCTCACATATCAAATTTCTATTAA
ATGT
Found at i:12800161 original size:7 final size:7
Alignment explanation
Indices: 12800149--12800340 Score: 54
Period size: 7 Copynumber: 26.9 Consensus size: 7
12800139 ACTAATTAAT
12800149 CTAAACC
1 CTAAACC
12800156 CTAAACC
1 CTAAACC
* *
12800163 CTTATCC
1 CTAAACC
12800170 CTTAAACC
1 C-TAAACC
* *
12800178 CTGAATC
1 CTAAACC
* *
12800185 ATAAAAC
1 CTAAACC
* *
12800192 ATAAATC
1 CTAAACC
*
12800199 ATAAACCC
1 CTAAA-CC
12800207 CT-AACC
1 CTAAACC
*
12800213 TCTAATCC
1 -CTAAACC
*
12800221 CTAAACT
1 CTAAACC
*
12800228 TTAAACTC
1 CTAAAC-C
12800236 C--AACC
1 CTAAACC
12800241 CTTAAACC
1 C-TAAACC
*
12800249 ATAAACC
1 CTAAACC
*
12800256 AT-AACC
1 CTAAACC
*
12800262 CATAATCC
1 C-TAAACC
12800270 CTAAACC
1 CTAAACC
*
12800277 CATAATCC
1 C-TAAACC
*
12800285 ATAAACC
1 CTAAACC
*
12800292 TTAAA--
1 CTAAACC
*
12800297 ATAGTAACTC
1 CTA--AAC-C
12800307 CTAAACC
1 CTAAACC
*
12800314 TTAAACC
1 CTAAACC
*
12800321 TTAAACC
1 CTAAACC
*
12800328 ATAAACC
1 CTAAACC
12800335 CTAAAC
1 CTAAAC
12800341 TATAATGATA
Statistics
Matches: 138, Mismatches: 31, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
5 4 0.03
6 9 0.07
7 97 0.70
8 26 0.19
10 2 0.01
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:12800278 original size:15 final size:15
Alignment explanation
Indices: 12800243--12800291 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
12800233 CTCCAACCCT
*
12800243 TAAA-CCATAAACCA
1 TAAACCCATAATCCA
*
12800257 T-AACCCATAATCCC
1 TAAACCCATAATCCA
12800271 TAAACCCATAATCCA
1 TAAACCCATAATCCA
12800286 TAAACC
1 TAAACC
12800292 TTAAAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 18 0.60
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:12800296 original size:22 final size:21
Alignment explanation
Indices: 12800243--12800346 Score: 84
Period size: 22 Copynumber: 4.9 Consensus size: 21
12800233 CTCCAACCCT
* *
12800243 TAAACCATAAACCATAACCCA
1 TAAACCTTAAACCATAATCCA
* *
12800264 TAATCCCTAAACCCATAATCCA
1 TAAACCTTAAA-CCATAATCCA
**
12800286 TAAACCTTAAAATAGTAACTCC-
1 TAAACCTTAAACCA-TAA-TCCA
* *
12800308 TAAACCTTAAACCTTAAACCA
1 TAAACCTTAAACCATAATCCA
* *
12800329 TAAACCCTAAACTATAAT
1 TAAACCTTAAACCATAAT
12800347 GATAATTAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 27 0.42
22 32 0.50
23 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACCATAATCCA
Found at i:12800327 original size:14 final size:14
Alignment explanation
Indices: 12800149--12800345 Score: 71
Period size: 14 Copynumber: 13.8 Consensus size: 14
12800139 ACTAATTAAT
*
12800149 CTAAACCCTAAACC
1 CTAAACCATAAACC
** *
12800163 CTTATCCCTTAAACC
1 C-TAAACCATAAACC
* * *
12800178 CTGAATCATAAAAC
1 CTAAACCATAAACC
* *
12800192 ATAAATCATAAACCC
1 CTAAACCATAAA-CC
* *
12800207 CT-AACCTCTAATCC
1 CTAAACC-ATAAACC
**
12800221 CTAAACTTTAAACTC
1 CTAAACCATAAAC-C
* *
12800236 C-AACCCTTAAACC
1 CTAAACCATAAACC
*
12800249 ATAAACCAT-AACC
1 CTAAACCATAAACC
* *
12800262 CATAATCCCTAAACC
1 C-TAAACCATAAACC
*
12800277 CATAATCCATAAACC
1 C-TAAACCATAAACC
*
12800292 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
*
12800307 CTAAACCTTAAACC
1 CTAAACCATAAACC
*
12800321 TTAAACCATAAACC
1 CTAAACCATAAACC
*
12800335 CTAAACTATAA
1 CTAAACCATAA
12800346 TGATAATTAA
Statistics
Matches: 134, Mismatches: 36, Indels: 26
0.68 0.18 0.13
Matches are distributed among these distances:
12 3 0.02
13 5 0.04
14 77 0.57
15 47 0.35
17 2 0.01
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:12800824 original size:40 final size:40
Alignment explanation
Indices: 12800780--12800917 Score: 179
Period size: 40 Copynumber: 3.5 Consensus size: 40
12800770 TTTGGTCAAC
* *
12800780 CTATAGCGGGATTTTTTAAAAAGCGTCGCTAATGCTCGAT
1 CTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGAT
* * *
12800820 CTATAGCGGCATTTTTTGAAAAA-CGCCTCTACTGTTCGAT
1 CTATAGCGGCATTTTTT-AAAAAGCGCCGCTAATGCTCGAT
* * *
12800860 CTATAGCGGCATTTTTCAAAAAGTGCCGCTAATGCTCAAT
1 CTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGAT
*
12800900 CTATAGCGGCGTTTTTTA
1 CTATAGCGGCATTTTTTA
12800918 TCCAAACTCC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.06
40 73 0.88
41 5 0.06
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (40 bp):
CTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGAT
Found at i:12801076 original size:16 final size:16
Alignment explanation
Indices: 12801055--12801122 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
12801045 TTTGGTTCGC
12801055 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
12801071 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
12801086 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
12801103 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
12801119 TGTA
1 TGTA
12801123 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:12801094 original size:32 final size:32
Alignment explanation
Indices: 12801055--12801122 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
12801045 TTTGGTTCGC
12801055 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
12801087 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
12801119 TGTA
1 TGTA
12801123 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:12801459 original size:157 final size:157
Alignment explanation
Indices: 12801252--12801561 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
12801242 CCCTTAGCAT
*
12801252 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
12801317 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
12801382 TTTAATAAAATTCTTAATAATTACCAA
131 TTTAATAAAATTCTTAATAATTACCAA
* * * *
12801409 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
12801474 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
12801539 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
12801562 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAA
Found at i:12811507 original size:39 final size:40
Alignment explanation
Indices: 12811450--12811528 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
12811440 ATTTACATGG
* * * *
12811450 TAATCACATTCACTTTTAAGCATATATCACATTACACATA
1 TAATCACATTAACATTTAAACATATATCACAATACACATA
*
12811490 TAATCACA-TAACATTTAAACATATATCACAATACTCATA
1 TAATCACATTAACATTTAAACATATATCACAATACACATA
12811529 AACATATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 26 0.76
40 8 0.24
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (40 bp):
TAATCACATTAACATTTAAACATATATCACAATACACATA
Found at i:12812178 original size:85 final size:85
Alignment explanation
Indices: 12812014--12812275 Score: 438
Period size: 85 Copynumber: 3.1 Consensus size: 85
12812004 GAGAAAGCTT
* * * *
12812014 ACACTCAGAATTTAGAGTAGGGGTTTAAGCTACTACT-GATTACCAATTAACATATTAAATCGTG
1 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
* *
12812078 ACAACAAGCAGCTATTCTAA
66 TCCACAAGCAGCTATTCTAA
12812098 ACACTC-GAAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGT
1 ACACTCAG-AATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGT
12812162 GTCCACAAGCAGCTATTCTAA
65 GTCCACAAGCAGCTATTCTAA
12812183 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
1 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
*
12812248 TCCACAAGCAACTATTCTAA
66 TCCACAAGCAGCTATTCTAA
12812268 ACACTCAG
1 ACACTCAG
12812276 CAATACGCTT
Statistics
Matches: 168, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
83 1 0.01
84 34 0.20
85 132 0.79
86 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (85 bp):
ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
TCCACAAGCAGCTATTCTAA
Found at i:12818319 original size:16 final size:17
Alignment explanation
Indices: 12818298--12818331 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
12818288 ACATTCACTT
12818298 TTAAACATAT-ATCACA
1 TTAAACATATAATCACA
12818314 TTAAACATATAATCACA
1 TTAAACATATAATCACA
12818331 T
1 T
12818332 AACATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAACATATAATCACA
Found at i:12819710 original size:15 final size:16
Alignment explanation
Indices: 12819682--12819719 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
12819672 GTCTCACCTC
12819682 CTTCGTTCTATTTTCCT
1 CTTC-TTCTATTTTCCT
*
12819699 CTTCTTCT-TTTTCTT
1 CTTCTTCTATTTTCCT
12819714 CTTCTT
1 CTTCTT
12819720 TCTTCTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 4 0.20
17 4 0.20
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.66
Consensus pattern (16 bp):
CTTCTTCTATTTTCCT
Found at i:12819715 original size:12 final size:13
Alignment explanation
Indices: 12819693--12819726 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
12819683 TTCGTTCTAT
*
12819693 TTTCCTCTTCTTC
1 TTTCTTCTTCTTC
12819706 TTT-TTCTTCTTC
1 TTTCTTCTTCTTC
12819718 TTTCTTCTT
1 TTTCTTCTT
12819727 TCATCCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTCTTCTTC
Found at i:12822119 original size:30 final size:30
Alignment explanation
Indices: 12822085--12822148 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
12822075 GAGAAGGTAT
12822085 ATAGGCTTAGAAAGCCTTATACGATTTGAA
1 ATAGGCTTAGAAAGCCTTATACGATTTGAA
* *
12822115 ATAGGCTTCGCAAGCCTTATACGATTTGAA
1 ATAGGCTTAGAAAGCCTTATACGATTTGAA
12822145 ATAG
1 ATAG
12822149 ACTTCGCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (30 bp):
ATAGGCTTAGAAAGCCTTATACGATTTGAA
Found at i:12822154 original size:30 final size:30
Alignment explanation
Indices: 12822096--12822155 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
12822086 TAGGCTTAGA
*
12822096 AAGCCTTATACGATTTGAAATAGGCTTCGC
1 AAGCCTTATACGATTTGAAATAGACTTCGC
12822126 AAGCCTTATACGATTTGAAATAGACTTCGC
1 AAGCCTTATACGATTTGAAATAGACTTCGC
12822156 GAGCTTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (30 bp):
AAGCCTTATACGATTTGAAATAGACTTCGC
Found at i:12823847 original size:35 final size:35
Alignment explanation
Indices: 12823801--12823873 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
12823791 AAGAAACAAC
* * *
12823801 CAAATGATGCAAAAAGAAA-CCATATATGGTGTTTA
1 CAAATAATGCAAAAAGAAACCCA-ATATGATGTCTA
*
12823836 CAAATAATGCAATAAGAAACCCAATATGATGTCTA
1 CAAATAATGCAAAAAGAAACCCAATATGATGTCTA
12823871 CAA
1 CAA
12823874 TGTTGGAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.23
Consensus pattern (35 bp):
CAAATAATGCAAAAAGAAACCCAATATGATGTCTA
Done.