Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 105 of 185
Found at i:33079906 original size:17 final size:17
Alignment explanation
Indices: 33079880--33079913 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33079870 TCTTTTTTTT
*
33079880 TAGGCCTTATGAATAGA
1 TAGGCATTATGAATAGA
*
33079897 TAGGCATTATGAGTAGA
1 TAGGCATTATGAATAGA
33079914 ATAATTGTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (17 bp):
TAGGCATTATGAATAGA
Found at i:33084074 original size:97 final size:96
Alignment explanation
Indices: 33083941--33084140 Score: 321
Period size: 97 Copynumber: 2.1 Consensus size: 96
33083931 AACAACTAGT
* * *
33083941 TTTATTTGATTTTTTTCTTAAAACCCTAAATACTAAACCCCAATCTAATTTTTT-TAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAACCCTAAACACTAAACCCCAATCT-ATTTTTTAAAAAATTTAT
*
33084005 AATTAATTTACTCAAGTAACCCTAGACCCTAA
65 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
33084037 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACTCTAATCTATTTTTTAAAAAATTTAT
1 TTTATTTGATTTTTTCCTT-AAAACCCTAAACACTAAACCCCAATCTATTTTTTAAAAAATTTAT
33084102 AATTAATTTACTCAAGTAACCCTAAACCCTAA
65 AATTAATTTACTCAAGTAACCCTAAACCCTAA
33084134 TTTATTT
1 TTTATTT
33084141 ANATATGATG
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
96 25 0.26
97 71 0.74
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (96 bp):
TTTATTTGATTTTTTCCTTAAAACCCTAAACACTAAACCCCAATCTATTTTTTAAAAAATTTATA
ATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:33092125 original size:22 final size:23
Alignment explanation
Indices: 33092098--33092142 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33092088 AGGTATCTAC
33092098 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
33092120 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
33092143 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:33092147 original size:22 final size:22
Alignment explanation
Indices: 33092095--33092152 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
33092085 AAAAGGTATC
*
33092095 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
33092116 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
33092139 TACATATCATATCT
1 TACAAATCATATCT
33092153 ACGGTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33100103 original size:12 final size:12
Alignment explanation
Indices: 33100076--33100117 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
33100066 ATTTATTTAG
33100076 AAAATTAATAATA
1 AAAATTAA-AATA
*
33100089 AAAATTAAAA-G
1 AAAATTAAAATA
*
33100100 AAAATGAAAATA
1 AAAATTAAAATA
33100112 AAAATT
1 AAAATT
33100118 TAATGGTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 9 0.38
12 7 0.29
13 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:33101012 original size:24 final size:24
Alignment explanation
Indices: 33100985--33101038 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
33100975 TTTGGATATA
33100985 AAAATAATAATCAAAATTTT-G-TTT
1 AAAATAA-AAT-AAAATTTTGGTTTT
33101009 AAAATAAAATAAAATTTTGGTTTT
1 AAAATAAAATAAAATTTTGGTTTT
33101033 AAAATA
1 AAAATA
33101039 TAAAAAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAATAAAATAAAATTTTGGTTTT
Found at i:33101866 original size:19 final size:19
Alignment explanation
Indices: 33101842--33101915 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
33101832 ATCTTCAAGA
33101842 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
33101861 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
33101880 ATATATGCAATCTTGGATATG
1 --ATATGCAATCTTAGATATG
*
33101901 ATATGCAATATTAGA
1 ATATGCAATCTTAGA
33101916 AGATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:33101887 original size:21 final size:21
Alignment explanation
Indices: 33101842--33101904 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
33101832 ATCTTCAAGA
33101842 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
33101861 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
33101882 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
33101903 AT
1 AT
33101905 GCAATATTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.46
21 22 0.54
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:33103846 original size:19 final size:19
Alignment explanation
Indices: 33103822--33103873 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
33103812 ATATCTTCCG
33103822 AGATTGTATATCATATCCA
1 AGATTGTATATCATATCCA
*
33103841 AGATTGCATATATCATATCTA
1 AGATTG--TATATCATATCCA
*
33103862 AGATTGCATATC
1 AGATTGTATATC
33103874 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
21 18 0.62
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
AGATTGTATATCATATCCA
Found at i:33103854 original size:21 final size:21
Alignment explanation
Indices: 33103828--33103872 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
33103818 TCCGAGATTG
33103828 TATATCATATCCAAGATTGCA
1 TATATCATATCCAAGATTGCA
*
33103849 TATATCATATCTAAGATTGCA
1 TATATCATATCCAAGATTGCA
33103870 TAT
1 TAT
33103873 CCTTGAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TATATCATATCCAAGATTGCA
Found at i:33104342 original size:42 final size:42
Alignment explanation
Indices: 33104283--33104362 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
33104273 TTTCATGTCG
*
33104283 ATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTA
1 ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCTA
* *
33104325 ATACATGAAGACAAGATCTACTTTCTTCGATCTGCTTC
1 ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTC
33104363 ACTGTCGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (42 bp):
ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCTA
Found at i:33104456 original size:88 final size:88
Alignment explanation
Indices: 33104348--33104783 Score: 622
Period size: 88 Copynumber: 5.0 Consensus size: 88
33104338 AGATCTACTT
* * *
33104348 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
33104413 GACCCAGGGAGGCAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* * *
33104436 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGACAATATCTGTTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
* *
33104501 AACCCAGGGAGGCAAGGTTAGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* *
33104524 TCTTCGATCTGCTTCGTTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
33104589 AACCCATGGAGGCAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
*
33104612 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
33104677 AACCCAGGGAGGTAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* * ** * * * * *
33104700 TCTTCGATCTGCTTCGCCGTC-AGTTCAGGAAGATAAGATCTGTTATTTTCAGCCTGCTCCGCTG
1 TCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
* * *
33104764 CAAACCAGGAAGGTAAGGCT
65 CAACCCAGGGAGGCAAGGCT
33104784 TTGTGATTTC
Statistics
Matches: 313, Mismatches: 34, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 312 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
AACCCAGGGAGGCAAGGCTGGTA
Found at i:33104602 original size:44 final size:43
Alignment explanation
Indices: 33104373--33104684 Score: 143
Period size: 44 Copynumber: 7.1 Consensus size: 43
33104363 ACTGTCGGTA
*
33104373 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * * * * **
33104417 CAGGGAGGCAAG-GCTGGTATCTTCGA-TCTGCTTCGCTGTCGATG
1 CA-GGAGGCAAGATCTGCTATCTTCAACT-TGCTCCACT-ACGACC
* * * * *
33104461 CAGGAAGACAATATCTGTTATCTTCAACCTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * ** * **
33104505 CAGGGAGGCAAGGT-TAG-TATCTTCGA-TCTGCTTCGTTGTCGATG
1 CA-GGAGGCAAGATCT-GCTATCTTCAACT-TGCTCCACT-ACGACC
*
33104549 CAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * * * * **
33104593 CATGGAGGCAAG-GCTGGTATCTTCGA-TCTGCTTCGCTGTCGATG
1 CA-GGAGGCAAGATCTGCTATCTTCAACT-TGCTCCACT-ACGACC
* * *
33104637 CAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
33104681 CAGG
1 CAGG
33104685 GAGGTAAGGC
Statistics
Matches: 186, Mismatches: 62, Indels: 40
0.65 0.22 0.14
Matches are distributed among these distances:
42 1 0.01
43 57 0.31
44 71 0.38
45 56 0.30
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
CAGGAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
Found at i:33106207 original size:52 final size:52
Alignment explanation
Indices: 33106151--33106311 Score: 129
Period size: 52 Copynumber: 3.2 Consensus size: 52
33106141 GAATTATATG
33106151 TATATATTACCCTTTTTAAAAAATTATAATGTATCATTATTTTGAAATTCAA
1 TATATATTACCCTTTTTAAAAAATTATAATGTATCATTATTTTGAAATTCAA
* ** ***** * * *
33106203 TATATATTGCTATTATTT--TTGGCTATAA-GT-TTATTGA-ATT-ATATAT-ATA
1 TATATATTACCCTT-TTTAAAAAATTATAATGTATCATT-ATTTTGAAAT-TCA-A
*
33106252 TATATATTATCCTTTTTAAAAAATTATAATGTATCATTATTTTGAAATTCAA
1 TATATATTACCCTTTTTAAAAAATTATAATGTATCATTATTTTGAAATTCAA
33106304 TATATATT
1 TATATATT
33106312 GCTATTATTT
Statistics
Matches: 75, Mismatches: 23, Indels: 22
0.62 0.19 0.18
Matches are distributed among these distances:
48 7 0.09
49 18 0.24
50 8 0.11
51 8 0.11
52 27 0.36
53 7 0.09
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.50
Consensus pattern (52 bp):
TATATATTACCCTTTTTAAAAAATTATAATGTATCATTATTTTGAAATTCAA
Found at i:33106233 original size:97 final size:100
Alignment explanation
Indices: 33106125--33106321 Score: 346
Period size: 101 Copynumber: 2.0 Consensus size: 100
33106115 ATATGTATTA
*
33106125 TGGCTATAAGTTTATTG-A-AT-TATATGTATATATTACCCTTTTTAAAAAATTATAATGTATCA
1 TGGCTATAAGTTTATTGAATATATATATATATATATTACCCTTTTTAAAAAATTATAATGTATCA
33106187 TTATTTTGAAATTCAATATATATTGCTATTATTTT
66 TTATTTTGAAATTCAATATATATTGCTATTATTTT
*
33106222 TGGCTATAAGTTTATTGAATTATATATATATATATATTATCCTTTTTAAAAAATTATAATGTATC
1 TGGCTATAAGTTTATTGAA-TATATATATATATATATTACCCTTTTTAAAAAATTATAATGTATC
33106287 ATTATTTTGAAATTCAATATATATTGCTATTATTT
65 ATTATTTTGAAATTCAATATATATTGCTATTATTT
33106322 CGATTTATCA
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
97 17 0.18
98 1 0.01
100 2 0.02
101 74 0.79
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (100 bp):
TGGCTATAAGTTTATTGAATATATATATATATATATTACCCTTTTTAAAAAATTATAATGTATCA
TTATTTTGAAATTCAATATATATTGCTATTATTTT
Found at i:33110063 original size:11 final size:10
Alignment explanation
Indices: 33110034--33110067 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
33110024 TTAAAATCTT
33110034 AAATTAAAAC
1 AAATTAAAAC
*
33110044 ATATTAAAAC
1 AAATTAAAAC
33110054 AAATTTAAAAC
1 AAA-TTAAAAC
33110065 AAA
1 AAA
33110068 AACGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATTAAAAC
Found at i:33111369 original size:34 final size:34
Alignment explanation
Indices: 33111323--33111387 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
33111313 TGAAAATAAA
* *
33111323 ATAAAGATAAAAAAATGTATATGTGTATATATTT
1 ATAAAGATAAAAAAATGTATAAGTATATATATTT
33111357 ATAAA-ATAAAAAAAATGTATAAGTATATATA
1 ATAAAGAT-AAAAAAATGTATAAGTATATATA
33111388 AAATATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (34 bp):
ATAAAGATAAAAAAATGTATAAGTATATATATTT
Found at i:33111500 original size:17 final size:18
Alignment explanation
Indices: 33111478--33111512 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33111468 ATAAAAGCTT
33111478 AAAAAT-ATATATATTAA
1 AAAAATCATATATATTAA
33111495 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
33111513 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATCATATATATTAA
Found at i:33111510 original size:25 final size:25
Alignment explanation
Indices: 33111482--33111567 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
33111472 AAGCTTAAAA
33111482 ATATATATATTAAAAAAATGCATAT
1 ATATATATATTAAAAAAATGCATAT
* *
33111507 ATAT-TATATATAAAAATATGCGTAT
1 ATATATATAT-TAAAAAAATGCATAT
* * *
33111532 GTA-CTATATGAAAAAAATGCATAT
1 ATATATATATTAAAAAAATGCATAT
*
33111556 ATGTATATATTA
1 ATATATATATTA
33111568 TGTAAAAAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 18 0.38
25 30 0.62
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (25 bp):
ATATATATATTAAAAAAATGCATAT
Found at i:33111563 original size:23 final size:23
Alignment explanation
Indices: 33111482--33111557 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 23
33111472 AAGCTTAAAA
33111482 ATATAT-ATAT-TAAAAAAATGC
1 ATATATAATATATAAAAAAATGC
*
33111503 ATATATATTATATATAAAAATATGC
1 ATATATA--ATATATAAAAAAATGC
* * *
33111528 GTATGTACTATATGAAAAAAATGC
1 ATATATAATATAT-AAAAAAATGC
33111552 ATATAT
1 ATATAT
33111558 GTATATATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 6 0.14
23 5 0.12
24 17 0.40
25 15 0.35
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATATAATATATAAAAAAATGC
Found at i:33111621 original size:18 final size:15
Alignment explanation
Indices: 33111607--33111642 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
33111597 AAATAATGAT
33111607 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
33111623 AATAATATAATAATA
1 AATAACATAATAATA
33111638 AATAA
1 AATAA
33111643 GGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:33111632 original size:15 final size:15
Alignment explanation
Indices: 33111614--33111642 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33111604 GATAATAACC
33111614 ATAATAATAAATAAT
1 ATAATAATAAATAAT
33111629 ATAATAATAAATAA
1 ATAATAATAAATAA
33111643 GGATATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:33111648 original size:18 final size:16
Alignment explanation
Indices: 33111614--33111659 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
33111604 GATAATAACC
33111614 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
33111629 ATAATAATAAATAAGGAT
1 ATAATAATAAATAA--AT
*
33111647 ATAATGATAAATA
1 ATAATAATAAATA
33111660 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:33112430 original size:10 final size:10
Alignment explanation
Indices: 33112407--33112444 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
33112397 TGGAAAAGAA
33112407 AAAT-AAAT-
1 AAATAAAATC
33112415 AAATAAAATC
1 AAATAAAATC
33112425 AAATAAAATC
1 AAATAAAATC
*
33112435 AAACAAAATC
1 AAATAAAATC
33112445 TATACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 19 0.70
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAATC
Found at i:33112635 original size:16 final size:17
Alignment explanation
Indices: 33112614--33112649 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33112604 TTTTTAGTTT
*
33112614 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
33112630 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
33112647 TTT
1 TTT
33112650 ATTGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:33113172 original size:44 final size:44
Alignment explanation
Indices: 33113088--33113341 Score: 194
Period size: 44 Copynumber: 5.8 Consensus size: 44
33113078 ATAGGATTGG
* * * * *
33113088 CTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGTCAT
1 CTTCAATATACTCCACTGCT-GCCT-AGGGAGATAAGATCTGTAAT
* * *
33113133 CTTCGATTTACTCCACTACTGCCTAGGGAGATAAGATCTGTAAT
1 CTTCAATATACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
* * * * *
33113177 CTTCAATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACT
1 CTTCAATATACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
* ** * * *
33113218 GGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGTCAT
1 --CTTCAATATACTCCACTGCTGCCT-AGGGAGATAAGATCTGTAAT
* * * * *
33113265 CTTCGATCTGA-TCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATAT-ACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
*
33113309 CTTCAATATATTCCACTGCTGCCTAGGGAGATA
1 CTTCAATATACTCCACTGCTGCCTAGGGAGATA
33113342 GAATTACTGG
Statistics
Matches: 160, Mismatches: 40, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 22 0.14
44 94 0.59
45 35 0.22
46 3 0.02
47 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAATATACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
Found at i:33113322 original size:132 final size:132
Alignment explanation
Indices: 33113085--33114464 Score: 1860
Period size: 132 Copynumber: 10.5 Consensus size: 132
33113075 GATATAGGAT
* * *
33113085 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATCTTCGATTTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * *
33113150 ACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
33113215 AC
131 AC
* * * * *
33113217 TGGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGTCATCTTCGATCTGATCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * *
33113282 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATATATTCCACTGCTGCCTAGGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
33113347 AC
131 AC
* * * * *
33113349 TGGCCTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGTCATCTTCGACCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* ** *
33113414 ACTGCTTAGGGAGACAACATCCAAAATCTTCAATCTATTACACTGCTGCCCAGGGA-AGTAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
*
33113478 TAT
130 TAC
* * ** * *
33113481 TGGCTTCAATATACTCCACTGCAATTTCAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* *
33113546 ACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGA-AGTAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
*
33113610 TTC
130 TAC
* * * * * * * * *
33113613 TAGTTTCAATGTACTCCACTGCAACCACGGGGAGGTAAAATCTGTCGTCTTCGA-CTTGCTTCGC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATC-TGCTCCAC
* * * * * *
33113677 TATCT-ATGTAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATGGA
65 TA-CTGCT-TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
*
33113741 ATTAT
128 ATTAC
* * * *
33113746 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCTC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* *
33113810 TACTGCTTGGGGAGACAAGATCTGAAATCTTTAATCTATTCCAC-GCTGCCCAGGGA-AGTAGAA
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAA
33113873 TTAC
129 TTAC
* * * *
33113877 TAGCTTCAATGTACTCCACTGTAACCTCTGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCAC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* * * *
33113941 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGAGAGATAGAAT
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
33114006 TAC
130 TAC
* **
33114009 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTATTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * * *
33114074 ACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
33114139 AC
131 AC
* *
33114141 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* ** *
33114206 ACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTGTCCAGGGA-AGTAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
33114270 TAC
130 TAC
* * *
33114273 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* *
33114338 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
33114403 AC
131 AC
* * *
33114405 TGGCTTCAATGTACTCTACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
33114465 TCGCTGTCTA
Statistics
Matches: 1096, Mismatches: 138, Indels: 28
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.00
131 122 0.11
132 864 0.79
133 107 0.10
134 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
AC
Found at i:33114000 original size:44 final size:44
Alignment explanation
Indices: 33113936--33114397 Score: 194
Period size: 44 Copynumber: 10.5 Consensus size: 44
33113926 TTTGATCTGC
**
33113936 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
* * * * *
33113980 TCCACTACTGCCCAGAGAGAT-AGA-AT-TACTGGCTTCAATGTAC
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAAT--CTTCAATCTAT
* * * * * ** *
33114023 TCCACT-GTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTAT
1 TCCACTACT-GCC-CAGGGAGATAAGATCTGTAATCTTCAATCTAT
** *
33114068 TCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
* * * * * *
33114112 TCCACTGCTGCCCAAGGAGAT-AGA-AT-TACTGGCTTCAATGTAC
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAAT--CTTCAATCTAT
* * * * ** ** **
33114155 TCCACT-GTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC
1 TCCACTACT-GCC-CAGGGAGATAAGATCTGTAATCTTCAATCTAT
*** * *
33114200 TCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
** * * * * * *
33114244 TCTGCTGCTGTCCAGGGA-AGT-AGA-AT-TACTGGCTTCAATGTAC
1 TCCACTACTGCCCAGGGAGA-TAAGATCTGTAAT--CTTCAATCTAT
* * * * * * * *
33114287 TCCACT-GTAACCTCAGGGAGGTAAAATCCGTCATCTTCGATCTAC
1 TCCACTACT-GCC-CAGGGAGATAAGATCTGTAATCTTCAATCTAT
**
33114332 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
*
33114376 TCCACTGCTGCCCAGGGAGATA
1 TCCACTACTGCCCAGGGAGATA
33114398 GAATTACTGG
Statistics
Matches: 289, Mismatches: 103, Indels: 52
0.65 0.23 0.12
Matches are distributed among these distances:
41 8 0.03
42 6 0.02
43 58 0.20
44 159 0.55
45 50 0.17
46 4 0.01
47 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
Found at i:33115743 original size:14 final size:15
Alignment explanation
Indices: 33115726--33115758 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
33115716 CCATTCTTAC
33115726 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
33115740 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
33115754 TTTTT
1 TTTTT
33115759 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:33115761 original size:8 final size:7
Alignment explanation
Indices: 33115726--33115758 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
33115716 CCATTCTTAC
33115726 TTTTTCA
1 TTTTTCA
33115733 TTTTTCA
1 TTTTTCA
33115740 -TTTTCA
1 TTTTTCA
33115746 TCTTTTCA
1 T-TTTTCA
33115754 TTTTT
1 TTTTT
33115759 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:33120305 original size:211 final size:210
Alignment explanation
Indices: 33119941--33120364 Score: 785
Period size: 211 Copynumber: 2.0 Consensus size: 210
33119931 AAACGAATTA
*
33119941 AAATAATAAGACATTCTTATTTCAAAGAAATAAAACACCACACCCAGTGAGTTAGGGCACAATGT
1 AAATAATAAGACATTCTTATTTCAAAGAAATAAAACACCACACCCAGTGAGTTACGGCACAATGT
*
33120006 TTTTAAATCTTCAAAATACTCGAATACTGCCTTTTGCTTTTGAAAATTCTTATTTCGAGAAGAAA
66 TTTTAAATCTTCAAAATACCCGAATACTGCCTTTTGCTTTTGAAAATTCTTATTTCGAGAAGAAA
*
33120071 ATGTCATGACCAGTAAGTTAGGACCCAACATTTTGAATTCTCGAGAATAAGCTTTTATTTAAAAT
131 ATGTCATGACCAGTAAGTTAGGACCCAACATTTTGAATTCCCGAGAATAAGCTTTTATTTAAAA-
33120136 TTTGCGAATTTATTGC
195 TTTGCGAATTTATTGC
*
33120152 AAATAATAAGACATTCTTATTTCAAAGAAATAAAACACCACACCCAGTGAGTTACGGCCCAATGT
1 AAATAATAAGACATTCTTATTTCAAAGAAATAAAACACCACACCCAGTGAGTTACGGCACAATGT
* *
33120217 TTTTAAATCTTCAAAATACCCGAATACTGTCTTTTGCTTTTGAAAATTTTTATTTCGAGAAGAAA
66 TTTTAAATCTTCAAAATACCCGAATACTGCCTTTTGCTTTTGAAAATTCTTATTTCGAGAAGAAA
33120282 ATGTCATGACCAGTAAGTTAGGACCCAACATTTTGAATTCCCGAGAATAAGCTTTTATTTAAAAT
131 ATGTCATGACCAGTAAGTTAGGACCCAACATTTTGAATTCCCGAGAATAAGCTTTTATTTAAAAT
33120347 TTGCGAATTTATTGC
196 TTGCGAATTTATTGC
33120362 AAA
1 AAA
33120365 ACAAATACTT
Statistics
Matches: 207, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
210 19 0.09
211 188 0.91
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (210 bp):
AAATAATAAGACATTCTTATTTCAAAGAAATAAAACACCACACCCAGTGAGTTACGGCACAATGT
TTTTAAATCTTCAAAATACCCGAATACTGCCTTTTGCTTTTGAAAATTCTTATTTCGAGAAGAAA
ATGTCATGACCAGTAAGTTAGGACCCAACATTTTGAATTCCCGAGAATAAGCTTTTATTTAAAAT
TTGCGAATTTATTGC
Found at i:33120764 original size:34 final size:34
Alignment explanation
Indices: 33120718--33120782 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
33120708 TGAAAATAAA
* *
33120718 ATAAAGATAAAAAAATGTATATGTGTATATATTT
1 ATAAAGATAAAAAAATGTATAAGTATATATATTT
33120752 ATAAA-ATAAAAAAAATGTATAAGTATATATA
1 ATAAAGAT-AAAAAAATGTATAAGTATATATA
33120783 AAATATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (34 bp):
ATAAAGATAAAAAAATGTATAAGTATATATATTT
Found at i:33120895 original size:17 final size:18
Alignment explanation
Indices: 33120873--33120907 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33120863 ATAAAAGCTT
33120873 AAAAAT-ATATATATTAA
1 AAAAATCATATATATTAA
33120890 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
33120908 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATCATATATATTAA
Found at i:33120905 original size:25 final size:25
Alignment explanation
Indices: 33120877--33120962 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
33120867 AAGCTTAAAA
33120877 ATATATATATTAAAAAAATGCATAT
1 ATATATATATTAAAAAAATGCATAT
* *
33120902 ATAT-TATATATAAAAATATGCGTAT
1 ATATATATAT-TAAAAAAATGCATAT
* * *
33120927 GTA-CTATATGAAAAAAATGCATAT
1 ATATATATATTAAAAAAATGCATAT
*
33120951 ATGTATATATTA
1 ATATATATATTA
33120963 TGTAAAAAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 18 0.38
25 30 0.62
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (25 bp):
ATATATATATTAAAAAAATGCATAT
Found at i:33120958 original size:23 final size:23
Alignment explanation
Indices: 33120877--33120952 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 23
33120867 AAGCTTAAAA
33120877 ATATAT-ATAT-TAAAAAAATGC
1 ATATATAATATATAAAAAAATGC
*
33120898 ATATATATTATATATAAAAATATGC
1 ATATATA--ATATATAAAAAAATGC
* * *
33120923 GTATGTACTATATGAAAAAAATGC
1 ATATATAATATAT-AAAAAAATGC
33120947 ATATAT
1 ATATAT
33120953 GTATATATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 6 0.14
23 5 0.12
24 17 0.40
25 15 0.35
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATATAATATATAAAAAAATGC
Found at i:33121016 original size:18 final size:15
Alignment explanation
Indices: 33121002--33121037 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
33120992 AAATAATGAT
33121002 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
33121018 AATAATATAATAATA
1 AATAACATAATAATA
33121033 AATAA
1 AATAA
33121038 GGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:33121027 original size:15 final size:15
Alignment explanation
Indices: 33121009--33121037 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33120999 GATAATAACC
33121009 ATAATAATAAATAAT
1 ATAATAATAAATAAT
33121024 ATAATAATAAATAA
1 ATAATAATAAATAA
33121038 GGATATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:33121043 original size:18 final size:16
Alignment explanation
Indices: 33121009--33121054 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
33120999 GATAATAACC
33121009 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
33121024 ATAATAATAAATAAGGAT
1 ATAATAATAAATAA--AT
*
33121042 ATAATGATAAATA
1 ATAATAATAAATA
33121055 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:33121824 original size:10 final size:10
Alignment explanation
Indices: 33121801--33121838 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
33121791 TGGAAAAGAA
33121801 AAAT-AAAT-
1 AAATAAAATC
33121809 AAATAAAATC
1 AAATAAAATC
33121819 AAATAAAATC
1 AAATAAAATC
*
33121829 AAACAAAATC
1 AAATAAAATC
33121839 TATACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 19 0.70
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAATC
Found at i:33122029 original size:16 final size:17
Alignment explanation
Indices: 33122008--33122043 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33121998 TTTTTAGTTT
*
33122008 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
33122024 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
33122041 TTT
1 TTT
33122044 ATAGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:33122250 original size:10 final size:10
Alignment explanation
Indices: 33122235--33122265 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33122225 TATTTGATTC
33122235 TTAAATTAAT
1 TTAAATTAAT
*
33122245 TTAAATTAAA
1 TTAAATTAAT
33122255 TTAAATTAAT
1 TTAAATTAAT
33122265 T
1 T
33122266 AGTATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:33122322 original size:36 final size:35
Alignment explanation
Indices: 33122245--33122329 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 35
33122235 TTAAATTAAT
*
33122245 TTAAATTAAATTAAATTAATTAGTATATAATGTGA
1 TTAAATTAAATTAAATTAAATAGTATATAATGTGA
* * *
33122280 TAAAATTAAATTAAATTAAAATATTATATAATGTTA
1 TTAAATTAAATTAAATT-AAATAGTATATAATGTGA
*
33122316 TTAAATTAAGTTAA
1 TTAAATTAAATTAA
33122330 TAATGGGTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 16 0.37
36 27 0.63
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (35 bp):
TTAAATTAAATTAAATTAAATAGTATATAATGTGA
Found at i:33122519 original size:3 final size:3
Alignment explanation
Indices: 33122511--33122672 Score: 324
Period size: 3 Copynumber: 54.0 Consensus size: 3
33122501 ATGTTCAAAG
33122511 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33122559 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33122607 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33122655 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
33122673 ATGGCAAGGA
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 159 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33127218 original size:30 final size:30
Alignment explanation
Indices: 33127157--33127219 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
33127147 TCCTCACCTA
*** *
33127157 TGTAACTCTCTGAGTAGGGTCACACGGCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCG
* *
33127187 TGTAACTCTCTGAGTTGCCCCACATGCCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCG
33127217 TGT
1 TGT
33127220 GCCAGACCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.27
Consensus pattern (30 bp):
TGTAACTCTCTGAGTAGCCCCACACGCCCG
Found at i:33136131 original size:24 final size:24
Alignment explanation
Indices: 33136080--33136131 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
33136070 TTCGTAGGTC
*
33136080 AAATAAATTACACTAATAAATGCA
1 AAATAAATTACACTAATAAATACA
* * * *
33136104 AAATATATTATACTACTAAATACT
1 AAATAAATTACACTAATAAATACA
33136128 AAAT
1 AAAT
33136132 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAATTACACTAATAAATACA
Found at i:33140037 original size:9 final size:9
Alignment explanation
Indices: 33140023--33140061 Score: 55
Period size: 8 Copynumber: 4.6 Consensus size: 9
33140013 TATGAGTTTA
33140023 AAAAAAATT
1 AAAAAAATT
33140032 -AAAAAATT
1 AAAAAAATT
33140040 AAAAAAA-T
1 AAAAAAATT
*
33140048 AAAAAAAAT
1 AAAAAAATT
33140057 AAAAA
1 AAAAA
33140062 TGAAAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAAATT
Found at i:33140045 original size:17 final size:17
Alignment explanation
Indices: 33140023--33140061 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
33140013 TATGAGTTTA
* *
33140023 AAAAAAATTAAAAAATT
1 AAAAAAATAAAAAAAAT
33140040 AAAAAAATAAAAAAAAT
1 AAAAAAATAAAAAAAAT
33140057 AAAAA
1 AAAAA
33140062 TGAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAATAAAAAAAAT
Found at i:33140054 original size:8 final size:8
Alignment explanation
Indices: 33140023--33140061 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
33140013 TATGAGTTTA
33140023 AAAAAAATT
1 AAAAAAA-T
*
33140032 AAAAAATT
1 AAAAAAAT
33140040 AAAAAAAT
1 AAAAAAAT
33140048 AAAAAAAAT
1 -AAAAAAAT
33140057 AAAAA
1 AAAAA
33140062 TGAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:33140073 original size:18 final size:18
Alignment explanation
Indices: 33140048--33140130 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 18
33140038 TTAAAAAAAT
33140048 AAAA-AAAATAAAAATGA
1 AAAAGAAAATAAAAATGA
*
33140065 AAATGAAAATGAAAATGATGGA
1 AAAAGAAAAT-AAAA--AT-GA
*
33140087 AAAAGAAAAGAAAAA-GA
1 AAAAGAAAATAAAAATGA
*
33140104 AAAAGAAAA-AGAAAAGGA
1 AAAAGAAAATA-AAAATGA
*
33140122 AAAGGAAAA
1 AAAAGAAAA
33140131 GGAGAGGCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.02
17 18 0.33
18 15 0.27
19 5 0.09
21 6 0.11
22 10 0.18
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAAGAAAATAAAAATGA
Found at i:33140081 original size:6 final size:6
Alignment explanation
Indices: 33140052--33140130 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
33140042 AAAAATAAAA
* *
33140052 AAAATA AAAATG AAAATG AAAATG AAAATG ---ATGG AAAAAG AAAA-G
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G AAAATG AAAATG
* * * * *
33140097 AAAAAG AAAAAG AAAAAG AAAAGG AAAAGG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
33140131 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 5 0.08
6 56 0.86
7 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (6 bp):
AAAATG
Found at i:33140081 original size:12 final size:12
Alignment explanation
Indices: 33140048--33140130 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
33140038 TTAAAAAAAT
33140048 AAAA-AAAAT-A
1 AAAAGAAAATGA
33140058 AAAATGAAAATGA
1 AAAA-GAAAATGA
*
33140071 AAATGAAAATGATGGA
1 AAAAG-AAA--AT-GA
33140087 AAAAGAAAA-GA
1 AAAAGAAAATGA
*
33140098 AAAAGAAAAAGA
1 AAAAGAAAATGA
*
33140110 AAAAGAAAAGGA
1 AAAAGAAAATGA
*
33140122 AAAGGAAAA
1 AAAAGAAAA
33140131 GGAGAGGCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.07
11 11 0.18
12 27 0.44
13 8 0.13
15 5 0.08
16 6 0.10
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:33140131 original size:12 final size:12
Alignment explanation
Indices: 33140084--33140133 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
33140074 TGAAAATGAT
33140084 GGAAAAAGAAAA
1 GGAAAAAGAAAA
33140096 -GAAAAAGAAAA
1 GGAAAAAGAAAA
*
33140107 AGAAAAAGAAAA
1 GGAAAAAGAAAA
*
33140119 GGAAAAGGAAAA
1 GGAAAAAGAAAA
33140131 GGA
1 GGA
33140134 GAGGCCAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 11 0.31
12 24 0.69
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GGAAAAAGAAAA
Found at i:33140133 original size:6 final size:6
Alignment explanation
Indices: 33140085--33140130 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
33140075 GAAAATGATG
* *
33140085 GAAAAA G-AAAA GAAAAA GAAAAA GAAAAA GAAAAG GAAAAG GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
33140131 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:33144448 original size:32 final size:31
Alignment explanation
Indices: 33144411--33144472 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
33144401 TCTGTAATTC
*
33144411 TATAAC-TTTTAATATATTTTGTATATTTTATT
1 TATAACATTTTAAT-TATTTTATAT-TTTTATT
33144443 TATAACATTTTAATTATTTTATATTTTTAT
1 TATAACATTTTAATTATTTTATATTTTTAT
33144473 GCCTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 6 0.21
32 15 0.54
33 7 0.25
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TATAACATTTTAATTATTTTATATTTTTATT
Found at i:33144741 original size:39 final size:39
Alignment explanation
Indices: 33144666--33144741 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
33144656 ATGAAAAATG
* * * * *
33144666 TTAGATATTTTGGTATTTGGTGACAAATTTGGGTATCCT
1 TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATCCT
* *
33144705 TTAGAAATTTTAGTATTTGATTAAAAATTTTAGTATC
1 TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATC
33144742 ATCTATTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (39 bp):
TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATCCT
Found at i:33144853 original size:19 final size:19
Alignment explanation
Indices: 33144826--33144949 Score: 67
Period size: 19 Copynumber: 6.4 Consensus size: 19
33144816 AATTTTAGTG
*
33144826 TTTTGGTATTCGTTAGAAA
1 TTTTAGTATTCGTTAGAAA
*
33144845 TTTTAGTA-TCTATTAGAAA
1 TTTTAGTATTC-GTTAGAAA
** *
33144864 TTTTAGTACGCG-TACTAAA
1 TTTTAGTATTCGTTA-GAAA
* * *
33144883 TTTTGGTATCCGTTAAAAA
1 TTTTAGTATTCGTTAGAAA
* *
33144902 CTTTT-GATATTTGGTTACAAA
1 -TTTTAG-TA-TTCGTTAGAAA
*
33144923 TTTTTGTA-TCTGTTAGAAA
1 TTTTAGTATTC-GTTAGAAA
33144942 TTTTAGTA
1 TTTTAGTA
33144950 CAATCCATTA
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.06
19 52 0.64
20 15 0.19
21 9 0.11
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (19 bp):
TTTTAGTATTCGTTAGAAA
Found at i:33150540 original size:31 final size:31
Alignment explanation
Indices: 33150505--33150568 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
33150495 CTCATTTCAT
33150505 AAATTTAACATTG-AATTTTACTAATTTTATA
1 AAATTTAACA-TGCAATTTTACTAATTTTATA
*
33150536 AAATTTAACATGCAATTTTACTACTTTTATA
1 AAATTTAACATGCAATTTTACTAATTTTATA
33150567 AA
1 AA
33150569 TAAGTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATTTAACATGCAATTTTACTAATTTTATA
Found at i:33158057 original size:23 final size:23
Alignment explanation
Indices: 33158031--33158088 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
33158021 TTGGTGGGAG
*
33158031 CATTTTGACACTTTGATGCATAT
1 CATTTTGGCACTTTGATGCATAT
*
33158054 CATTTTGGCACTTTGGTGCATAT
1 CATTTTGGCACTTTGATGCATAT
33158077 CATTTTGGCACT
1 CATTTTGGCACT
33158089 ACGGTGCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (23 bp):
CATTTTGGCACTTTGATGCATAT
Found at i:33158094 original size:23 final size:23
Alignment explanation
Indices: 33158047--33158099 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
33158037 GACACTTTGA
**
33158047 TGCATATCATTTTGGCACTTTGG
1 TGCATATCATTTTGGCACTACGG
33158070 TGCATATCATTTTGGCACTACGG
1 TGCATATCATTTTGGCACTACGG
33158093 TGCATAT
1 TGCATAT
33158100 TATACTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (23 bp):
TGCATATCATTTTGGCACTACGG
Found at i:33181729 original size:21 final size:21
Alignment explanation
Indices: 33181703--33181755 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
33181693 TTATTTTTTT
33181703 AAAATT-TTAAAAATAATTAAA
1 AAAATTATTAAAAA-AATTAAA
**
33181724 AAAATTATTTTAAAAATT--A
1 AAAATTATTAAAAAAATTAAA
33181743 AAAATTATTAAAA
1 AAAATTATTAAAA
33181756 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 12 0.44
21 10 0.37
22 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTATTAAAAAAATTAAA
Found at i:33183138 original size:11 final size:11
Alignment explanation
Indices: 33183122--33183147 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33183112 AGTTTATGTA
33183122 TTTTCTTATTG
1 TTTTCTTATTG
33183133 TTTTCTTATTG
1 TTTTCTTATTG
33183144 TTTT
1 TTTT
33183148 GGTTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTCTTATTG
Found at i:33184176 original size:37 final size:35
Alignment explanation
Indices: 33184118--33184194 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 35
33184108 TATTGTTACT
*
33184118 ATTGAATGCATGAAAATCATGCCACCAATACTGATAA
1 ATTGAATGCATGAAAAGCATGCCACCAATACT-A-AA
** * *
33184155 ATTGAATGCATGTTAAGCATGCCATCATTACTAAA
1 ATTGAATGCATGAAAAGCATGCCACCAATACTAAA
33184190 ATTGA
1 ATTGA
33184195 TATTGATAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 7 0.20
36 1 0.03
37 27 0.77
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (35 bp):
ATTGAATGCATGAAAAGCATGCCACCAATACTAAA
Found at i:33185819 original size:20 final size:20
Alignment explanation
Indices: 33185794--33185839 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
33185784 TTAAGTTTTC
*
33185794 TTAAAAGAAATCAATACTTG
1 TTAAAAGAAATCAATACTTA
**
33185814 TTAAAAAGGTATCAATACTTA
1 TT-AAAAGAAATCAATACTTA
33185835 TTAAA
1 TTAAA
33185840 GTATCGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (20 bp):
TTAAAAGAAATCAATACTTA
Found at i:33188795 original size:46 final size:46
Alignment explanation
Indices: 33188728--33188846 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
33188718 ATTTTTACCT
**
33188728 AGGTTCCTAGCTCCTGCATATGTTGTGGACTAGAGAATACAG-ATTC
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTAGAGAATA-AGAATTC
* * * *
33188774 AGGTTCCTAGCTCCTACATATGTTGCAGACTGGAGAATAGGAATTT
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTAGAGAATAAGAATTC
* *
33188820 AGGTTCCCAGCTCATGCATATGTTGCA
1 AGGTTCCTAGCTCCTGCATATGTTGCA
33188847 AACTGCAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
AGGTTCCTAGCTCCTGCATATGTTGCAGACTAGAGAATAAGAATTC
Found at i:33196452 original size:20 final size:20
Alignment explanation
Indices: 33196414--33196466 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
33196404 ATGCAATATA
* *
33196414 TTCTTC-TCTTCTTCTTCCTT
1 TTCTTCTTCTTTTTC-TCCTC
*
33196434 TTCTTTTTCTTTTTCTCCTC
1 TTCTTCTTCTTTTTCTCCTC
33196454 TTCTTCTTCTTTT
1 TTCTTCTTCTTTT
33196467 ACTATTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCTTCTTCTTTTTCTCCTC
Found at i:33197348 original size:13 final size:13
Alignment explanation
Indices: 33197330--33197380 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
33197320 GTCCACATAT
33197330 AATTCATAAAAAA
1 AATTCATAAAAAA
*
33197343 AATTCAAAATAAAA
1 AATTCATAA-AAAA
*
33197357 AATT-TTAAAAAA
1 AATTCATAAAAAA
* *
33197369 TATACATAAAAA
1 AATTCATAAAAA
33197381 CTTTTAGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 6 0.20
13 16 0.53
14 8 0.27
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AATTCATAAAAAA
Found at i:33197777 original size:20 final size:21
Alignment explanation
Indices: 33197740--33197779 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
33197730 TCTCCCCTGC
33197740 ATTTACACTAAAAGAAAATAA
1 ATTTACACTAAAAGAAAATAA
* *
33197761 ATTTAC-CTAATATAAAATA
1 ATTTACACTAAAAGAAAATA
33197780 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
ATTTACACTAAAAGAAAATAA
Found at i:33198420 original size:19 final size:19
Alignment explanation
Indices: 33198382--33198420 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33198372 AATAACAATA
* *
33198382 AAATAGTAGCAACATGGTG
1 AAATAGTAGCAAAATAGTG
33198401 AAATAGTAGCAAAATAGTG
1 AAATAGTAGCAAAATAGTG
33198420 A
1 A
33198421 TAAAATAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.21
Consensus pattern (19 bp):
AAATAGTAGCAAAATAGTG
Found at i:33205128 original size:21 final size:21
Alignment explanation
Indices: 33205102--33205142 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33205092 ATCTGCTCAA
* *
33205102 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
33205123 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
33205143 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:33220503 original size:22 final size:22
Alignment explanation
Indices: 33220478--33220520 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
33220468 TTATTTGGCG
*
33220478 TTTGAGATAGACGTTGTTATAA
1 TTTGAGATAGACATTGTTATAA
33220500 TTTGAGATAGACATTGTTATA
1 TTTGAGATAGACATTGTTATA
33220521 GTTTTAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (22 bp):
TTTGAGATAGACATTGTTATAA
Found at i:33223825 original size:18 final size:17
Alignment explanation
Indices: 33223783--33223825 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
33223773 TTTTTAAGTT
*
33223783 TGTAATATTTTATATTA
1 TGTAATTTTTTATATTA
* *
33223800 TGTTATTTTTATATATTG
1 TGTAATTTTT-TATATTA
33223818 TGTAATTT
1 TGTAATTT
33223826 ATAGCACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:33224934 original size:15 final size:15
Alignment explanation
Indices: 33224914--33224946 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33224904 ACTCATTTTA
33224914 TTTTTTAAAATTAAT
1 TTTTTTAAAATTAAT
*
33224929 TTTTTTAGAATTAAT
1 TTTTTTAAAATTAAT
33224944 TTT
1 TTT
33224947 AGTTTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTTTAAAATTAAT
Found at i:33225271 original size:20 final size:20
Alignment explanation
Indices: 33225248--33225297 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
33225238 TTTGGGGCTC
*
33225248 AAGGTTTAGG-TTCGAGGTTG
1 AAGGTTTAGGCTTAGA-GTTG
* *
33225268 AAGGTTTGGGCTTAGAGTTT
1 AAGGTTTAGGCTTAGAGTTG
33225288 AAGGTTTAGG
1 AAGGTTTAGG
33225298 GTTTTGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.22, C:0.04, G:0.38, T:0.36
Consensus pattern (20 bp):
AAGGTTTAGGCTTAGAGTTG
Found at i:33225323 original size:14 final size:14
Alignment explanation
Indices: 33225306--33225337 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33225296 GGGTTTTGGG
*
33225306 TTCAAGGTTTAAGA
1 TTCAAGATTTAAGA
33225320 TTCAAGATTTAAGA
1 TTCAAGATTTAAGA
33225334 TTCA
1 TTCA
33225338 GAGCTGGGGG
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:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (14 bp):
TTCAAGATTTAAGA
Found at i:33225985 original size:22 final size:21
Alignment explanation
Indices: 33225946--33225987 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33225936 GATTATACAT
*
33225946 TAAAAATCCATAAAAATAATG
1 TAAAAATCAATAAAAATAATG
*
33225967 TAAAAATCAAGTAAGAATAAT
1 TAAAAATCAA-TAAAAATAAT
33225988 CCAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
TAAAAATCAATAAAAATAATG
Found at i:33229285 original size:18 final size:17
Alignment explanation
Indices: 33229264--33229306 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
33229254 ACAATTTTCA
33229264 AAAATTCAAAATTATCAT
1 AAAATTCAAAATTAT-AT
* *
33229282 AAAATATAAAAATTCTAT
1 AAAAT-TCAAAATTATAT
33229300 AAAATTC
1 AAAATTC
33229307 TATAAAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 12 0.57
19 8 0.38
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTCAAAATTATAT
Found at i:33229305 original size:10 final size:10
Alignment explanation
Indices: 33229290--33229314 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33229280 ATAAAATATA
33229290 AAAATTCTAT
1 AAAATTCTAT
33229300 AAAATTCTAT
1 AAAATTCTAT
33229310 AAAAT
1 AAAAT
33229315 GTTCAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTCTAT
Found at i:33232187 original size:33 final size:33
Alignment explanation
Indices: 33232150--33232228 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
33232140 TAGTTCGCCA
* *
33232150 GGACAGTAAACACAAAACAAAGATAGTCTGTTG
1 GGACAGTAAACACAAAACAAAGATAATCTGTCG
* *
33232183 GGACATTAAACACAAAACAGAGATAATCTGTCG
1 GGACAGTAAACACAAAACAAAGATAATCTGTCG
33232216 GGACAGTAAACAC
1 GGACAGTAAACAC
33232229 GAGGTAAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (33 bp):
GGACAGTAAACACAAAACAAAGATAATCTGTCG
Found at i:33243405 original size:18 final size:17
Alignment explanation
Indices: 33243378--33243411 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33243368 CTTCTGAATC
33243378 AAATATTTAAAATAAAT
1 AAATATTTAAAATAAAT
*
33243395 AAATAATTTAAAGTAAA
1 AAAT-ATTTAAAATAAA
33243412 CACCAAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATATTTAAAATAAAT
Found at i:33244957 original size:26 final size:26
Alignment explanation
Indices: 33244921--33244975 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
33244911 TGTGTTCAAT
*
33244921 CTAGATACCATGGGAAAATGTATGAA
1 CTAGATACCATGGGAAAATGCATGAA
33244947 CTAGATACCATGGGAAAATGCATGAA
1 CTAGATACCATGGGAAAATGCATGAA
33244973 CTA
1 CTA
33244976 TACGATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (26 bp):
CTAGATACCATGGGAAAATGCATGAA
Found at i:33248410 original size:8 final size:8
Alignment explanation
Indices: 33248399--33248454 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
33248389 ATTTATGAAT
33248399 TTTTTTAA
1 TTTTTTAA
33248407 TTTTTTAA
1 TTTTTTAA
33248415 TTTTTTAA
1 TTTTTTAA
*
33248423 TTTTTGAGTA
1 TTTTTTA--A
33248433 TTTTTTAA
1 TTTTTTAA
33248441 -TTTTTAA
1 TTTTTTAA
*
33248448 TTATTTA
1 TTTTTTA
33248455 TTGATGTAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.17
8 28 0.67
10 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:33248424 original size:25 final size:25
Alignment explanation
Indices: 33248396--33248449 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
33248386 AAAATTTATG
*
33248396 AATTTTTTTA-ATTTTTTAATTTTTT
1 AATTTTTTGAGATTTTTTAA-TTTTT
33248421 AA-TTTTTGAGTATTTTTTAATTTTT
1 AATTTTTTGAG-ATTTTTTAATTTTT
33248446 AATT
1 AATT
33248450 ATTTATTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 6 0.24
25 9 0.36
26 10 0.40
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (25 bp):
AATTTTTTGAGATTTTTTAATTTTT
Found at i:33248435 original size:18 final size:16
Alignment explanation
Indices: 33248388--33248454 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
33248378 TTTTTAAAAA
*
33248388 AATTTATGAATTTTTTT
1 AATTTTTGAA-TTTTTT
*
33248405 AATTTTTTAATTTTTT
1 AATTTTTGAATTTTTT
33248421 AATTTTTGAGTATTTTTT
1 AATTTTTGA--ATTTTTT
*
33248439 AATTTTT-AATTATTT
1 AATTTTTGAATTTTTT
33248454 A
1 A
33248455 TTGATGTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.16
16 14 0.32
17 9 0.20
18 14 0.32
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
AATTTTTGAATTTTTT
Found at i:33260059 original size:12 final size:12
Alignment explanation
Indices: 33260038--33260090 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
33260028 GTTGGGCAGT
33260038 AGAAGAAAGAAG
1 AGAAGAAAGAAG
*
33260050 AGAAGGAAGAAG
1 AGAAGAAAGAAG
*
33260062 AGAAGAAGGAA-
1 AGAAGAAAGAAG
* *
33260073 A-AAAAAAGAGG
1 AGAAGAAAGAAG
33260084 AGAAGAA
1 AGAAGAA
33260091 GAAACCTTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 6 0.19
11 2 0.06
12 24 0.75
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AGAAGAAAGAAG
Found at i:33263770 original size:20 final size:20
Alignment explanation
Indices: 33263747--33263799 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
33263737 TTTGGTATTT
33263747 AATTAAAAATTGAAATA-GAA
1 AATTAAAAATTGAAA-AGGAA
33263767 AATTAAAAA-TGAAAAGGGAA
1 AATTAAAAATTGAAAA-GGAA
33263787 AATGTAAAAATTG
1 AAT-TAAAAATTG
33263800 GCTGCCTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 5 0.17
20 15 0.52
21 6 0.21
22 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
AATTAAAAATTGAAAAGGAA
Found at i:33269606 original size:29 final size:29
Alignment explanation
Indices: 33269564--33269624 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
33269554 ATTTTTTTTA
*
33269564 AAAGTTTAATTTTCGATAAAAATACATAC
1 AAAGTTCAATTTTCGATAAAAATACATAC
33269593 AAAGTTCAATTTTCGATAAAAATACATAC
1 AAAGTTCAATTTTCGATAAAAATACATAC
33269622 AAA
1 AAA
33269625 ATTATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAGTTCAATTTTCGATAAAAATACATAC
Found at i:33274506 original size:15 final size:14
Alignment explanation
Indices: 33274486--33274527 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
33274476 CCCAATAATT
33274486 TAATATCTCCAAATA
1 TAATAT-TCCAAATA
* *
33274501 TAATATTTCATATA
1 TAATATTCCAAATA
33274515 T-ATATTCCAAATA
1 TAATATTCCAAATA
33274528 AAATGACCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 7 0.30
15 6 0.26
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATTCCAAATA
Found at i:33284737 original size:14 final size:14
Alignment explanation
Indices: 33284718--33284748 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33284708 ATTATTGTTT
*
33284718 TAATCTAAATTTAC
1 TAATCTAAATTAAC
33284732 TAATCTAAATTAAC
1 TAATCTAAATTAAC
33284746 TAA
1 TAA
33284749 GAACACGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:33289185 original size:23 final size:22
Alignment explanation
Indices: 33289155--33289203 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
33289145 AATAAGAATC
*
33289155 ATAAAAAAATAACAAGTAAAAAA
1 ATAAAAAAAAAACAAG-AAAAAA
*
33289178 ATAAAAAAAAAACAAGAAAACA
1 ATAAAAAAAAAACAAGAAAAAA
33289200 ATAA
1 ATAA
33289204 GAATAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
ATAAAAAAAAAACAAGAAAAAA
Found at i:33289186 original size:26 final size:27
Alignment explanation
Indices: 33289120--33289189 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
33289110 TAAGAATAAG
33289120 AAAATAAAATAAAACAATTAACAATAATA
1 AAAATAAAA-AAAA-AATTAACAATAATA
* * *
33289149 AGAATCATAAAAAAA-TAACAAGTAA-A
1 AAAATAAAAAAAAAATTAACAA-TAATA
33289175 AAAATAAAAAAAAAA
1 AAAATAAAAAAAAAA
33289190 CAAGAAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 19 0.56
27 5 0.15
28 4 0.12
29 6 0.18
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.16
Consensus pattern (27 bp):
AAAATAAAAAAAAAATTAACAATAATA
Found at i:33289229 original size:26 final size:26
Alignment explanation
Indices: 33289199--33289259 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
33289189 ACAAGAAAAC
33289199 AATAAGAATAACAATGAAAAATAAC-A
1 AATAAGAATAACAA-GAAAAATAACTA
* * *
33289225 AATAAGGATAATAAGAATAATAACTA
1 AATAAGAATAACAAGAAAAATAACTA
33289251 AATAA-AATA
1 AATAAGAATA
33289260 TAGGGGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.20
Consensus pattern (26 bp):
AATAAGAATAACAAGAAAAATAACTA
Found at i:33299440 original size:19 final size:19
Alignment explanation
Indices: 33299418--33299464 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
33299408 ATTAAATAAT
33299418 TATAAAAAAAC-TAAAGAAG
1 TATAAAAAAACTTAAA-AAG
* *
33299437 TAT-AATAAACTTAAAAAT
1 TATAAAAAAACTTAAAAAG
33299455 TATAAAAAAA
1 TATAAAAAAA
33299465 AACTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
TATAAAAAAACTTAAAAAG
Found at i:33299458 original size:18 final size:19
Alignment explanation
Indices: 33299409--33299463 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
33299399 AAATATCAAA
*
33299409 TTAAATAATTATAAAAAAAC
1 TTAAAGAATTAT-AAAAAAC
* *
33299429 -TAAAGAAGTATAATAAAC
1 TTAAAGAATTATAAAAAAC
33299447 TTAAA-AATTATAAAAAA
1 TTAAAGAATTATAAAAAA
33299464 AAACTCAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (19 bp):
TTAAAGAATTATAAAAAAC
Found at i:33299468 original size:21 final size:22
Alignment explanation
Indices: 33299443--33299483 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33299433 GAAGTATAAT
*
33299443 AAACTTAAAAAT-TATAAAAAA
1 AAACTCAAAAATCTATAAAAAA
*
33299464 AAACTCAAAATTCTATAAAA
1 AAACTCAAAAATCTATAAAA
33299484 CCCTAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACTCAAAAATCTATAAAAAA
Found at i:33314920 original size:18 final size:19
Alignment explanation
Indices: 33314885--33314926 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
33314875 GCATGGTTGA
33314885 TTTTCTTTTGCTGCCTATT-
1 TTTTCTTTTGCT-CCTATTC
33314904 TTTTCTTTTGCAT-CTATTC
1 TTTTCTTTTGC-TCCTATTC
33314923 TTTT
1 TTTT
33314927 TTTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTCTTTTGCTCCTATTC
Found at i:33316799 original size:12 final size:12
Alignment explanation
Indices: 33316778--33316807 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33316768 TCTATTCACA
*
33316778 AATTTTTAATTT
1 AATTTATAATTT
33316790 AATTTATAATTT
1 AATTTATAATTT
33316802 AATTTA
1 AATTTA
33316808 ATTTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTATAATTT
Found at i:33318832 original size:30 final size:30
Alignment explanation
Indices: 33318792--33318852 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33318782 ACGGCCTAGC
* *
33318792 ACACGGCCGTGTGTGGAAAATTAGTGAGTT
1 ACACGACCGTGTGTGGAAAATCAGTGAGTT
* *
33318822 ACACGACCGTGTGTGGTAACTCAGTGAGTT
1 ACACGACCGTGTGTGGAAAATCAGTGAGTT
33318852 A
1 A
33318853 TATGGCCTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
ACACGACCGTGTGTGGAAAATCAGTGAGTT
Found at i:33323087 original size:24 final size:24
Alignment explanation
Indices: 33323039--33323087 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
33323029 GTCCATTAGA
**
33323039 ATAAGAAGTTTGATATGTATCATG
1 ATAAGAAGTTTGATATACATCATG
*
33323063 ATAAGAAGTTTGATATACATTATG
1 ATAAGAAGTTTGATATACATCATG
33323087 A
1 A
33323088 CTCTAATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (24 bp):
ATAAGAAGTTTGATATACATCATG
Found at i:33329467 original size:64 final size:64
Alignment explanation
Indices: 33329389--33329736 Score: 205
Period size: 64 Copynumber: 5.3 Consensus size: 64
33329379 GATATCATTA
*
33329389 AAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
1 AAGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
* * * ** * *
33329453 GAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTC-GTTGATTTAATAT--TG--CAAT-TGA
1 AAGTTAGTTGATTTAAGATCGC-AA-CC-TA-AGTTCATTTGATTTAAGATCATGAACAATCT--
33329512 TATCATT
60 TAT--TT
* * * *
33329519 AAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTTCATTTAAGATCATGAACAATCTTATTT
1 AA-GTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
** * * * * * * * *
33329584 AAGTTAACTAATTTAATATCGCTACTCT-AG-GCAACTCGTTGATTTAAGA-C-CGCAGCTGATA
1 AAGTTAGTTGATTTAAGATCGCAAC-CTAAGTTC-A-T--TTGATTTAAGATCATG-AAC-AATC
*
33329645 TCA-TT
59 TTATTT
* * * *
33329650 AAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATTCGATTTAAGATCATGAACAATCTTATTT
1 AAG-TTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
* *
33329715 GAGTTAGCTGATTTAAGATCGC
1 AAGTTAGTTGATTTAAGATCGC
33329737 TACTCCAGAC
Statistics
Matches: 204, Mismatches: 52, Indels: 56
0.65 0.17 0.18
Matches are distributed among these distances:
62 1 0.00
63 8 0.04
64 82 0.40
65 21 0.10
66 21 0.10
67 62 0.30
68 8 0.04
69 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (64 bp):
AAGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
Found at i:33329531 original size:131 final size:131
Alignment explanation
Indices: 33329297--33329835 Score: 625
Period size: 131 Copynumber: 4.1 Consensus size: 131
33329287 TATCAGTTAC
* * * *** ** *
33329297 TTTAATATCATGAACAA-CTTTATTTGAGTTAACTGATTTAAGATCGCTACTCCACTTAGTTTGC
1 TTTAAGATCATGAACAATC-TTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCG-
* * * *
33329361 TT-ATTTAAGATCACAGTTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATT
64 TTGATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATT
*
33329425 TGA
129 CGA
* * * *
33329428 TTTAAGATCATGAACAATCTTATTTGAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * ** * *
33329493 GATTTAATATTGCAATTGATATCATTAAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTTC
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCA-TTC
33329558 -A
130 GA
* * * * *
33329559 TTTAAGATCATGAACAATCTTATTTAAGTTAACTAATTTAATATCGCTACTCTAGGCAACTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * * ** *
33329624 GATTTAAGACCGCAGCTGATATCATTAAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATTCG
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
33329689 A
131 A
* *
33329690 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAGACAGCTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * * ** * *
33329755 GATTTAAGATCGTAGCTAATATCATTAATGTTCACTGATTTAAGATCACAACATAAGTTTATTCG
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
33329820 A
131 A
*
33329821 TTTAATATCATGAAC
1 TTTAAGATCATGAAC
33329836 TAGCTTTTCT
Statistics
Matches: 344, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
130 5 0.01
131 336 0.98
132 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (131 bp):
TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
A
Found at i:33329779 original size:262 final size:261
Alignment explanation
Indices: 33329297--33329859 Score: 693
Period size: 262 Copynumber: 2.1 Consensus size: 261
33329287 TATCAGTTAC
* * ** ** *
33329297 TTTAATATCATGAACAACTTTATTTGAGTTAACTGATTTAAGATCGCTACTCCACTTAGTTTGCT
1 TTTAATATCATGAACAAC-TTATTTAAGTTAACTAATTTAAGATCGCTACTCCACGCAACTCGCT
* * *
33329362 TATTTAAGATCACAGTTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTTG
65 TATTTAAGACCACAGCTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTCG
* *
33329427 ATTTAAGATCATGAACAATCTTATTTGAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTCGT
130 ATTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTAATCCAAACAACTCGT
* * * * *** *
33329492 TGATTTAATATTGCAATTGATATCATTAAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTT
195 TGATTTAAGATCGCAACTAATATCATTAAGGTTCACTGATTTAAAATCACAACATAAGTTCA-TT
33329557 C-A
259 CGA
* * * *
33329559 TTTAAGATCATGAACAATCTTATTTAAGTTAACTAATTTAATATCGCTACTCTAGGCAACTCG-T
1 TTTAATATCATGAACAA-CTTATTTAAGTTAACTAATTTAAGATCGCTACTCCACGCAACTCGCT
* * * *
33329623 TGATTTAAGACCGCAGCTGATATCATT-AAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATT
65 T-ATTTAAGACCACAGCTGATATCATTAAAG-TTCGTTGATTTAAGATCGCAACCTAAGTTCATT
* * *
33329687 CGATTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAGACAGCTC
128 CGATTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTAATCCAAACAACTC
* * * * *
33329752 GTTGATTTAAGATCGTAGCTAATATCATTAATGTTCACTGATTTAAGATCACAACATAAGTTTAT
193 GTTGATTTAAGATCGCAACTAATATCATTAAGGTTCACTGATTTAAAATCACAACATAAGTTCAT
33329817 TCGA
258 TCGA
* *
33329821 TTTAATATCATGAACTAGCTT-TTCTATGTTAACTAATTT
1 TTTAATATCATGAAC-AACTTATT-TAAGTTAACTAATTT
33329860 CCTAATCTTT
Statistics
Matches: 256, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
261 10 0.04
262 244 0.95
263 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (261 bp):
TTTAATATCATGAACAACTTATTTAAGTTAACTAATTTAAGATCGCTACTCCACGCAACTCGCTT
ATTTAAGACCACAGCTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTCGA
TTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTAATCCAAACAACTCGTT
GATTTAAGATCGCAACTAATATCATTAAGGTTCACTGATTTAAAATCACAACATAAGTTCATTCG
A
Found at i:33330317 original size:41 final size:41
Alignment explanation
Indices: 33330254--33330335 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
33330244 GACTAAAAGC
*
33330254 ATCAAAGTTTACCCTACGAGCATTGAAAGGACCGCCAACTA
1 ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
*
33330295 ATCAAAGTTTACCCTGCAAGCATTGAAAGGACCGCCAACTA
1 ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
33330336 CTTGAGTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
Found at i:33340043 original size:3 final size:3
Alignment explanation
Indices: 33340035--33340099 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
33340025 ATTAACCCAG
33340035 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33340083 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
33340100 TGTCAAAACC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33342629 original size:17 final size:17
Alignment explanation
Indices: 33342607--33342639 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33342597 TTTGGCGCGG
*
33342607 AGGCGCTACACGTGCAC
1 AGGCGCAACACGTGCAC
33342624 AGGCGCAACACGTGCA
1 AGGCGCAACACGTGCA
33342640 AGGAGGAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.09
Consensus pattern (17 bp):
AGGCGCAACACGTGCAC
Found at i:33344005 original size:13 final size:13
Alignment explanation
Indices: 33343987--33344012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33343977 TTTTTTTTAA
33343987 CCTTATAGAATTT
1 CCTTATAGAATTT
33344000 CCTTATAGAATTT
1 CCTTATAGAATTT
33344013 AGAACTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CCTTATAGAATTT
Found at i:33356160 original size:38 final size:41
Alignment explanation
Indices: 33356106--33356194 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 41
33356096 AAAAATTATA
* * * *
33356106 TTTAATACAATTAAATATTTATTATA-TTAT-TTA-TGTTT
1 TTTAATATAATAAAATATTTATGATATTTATAGTAGTGTTT
33356144 TTTAATATAATAAAATATTTATGATATTTATAGTAGTGTTT
1 TTTAATATAATAAAATATTTATGATATTTATAGTAGTGTTT
33356185 TTTAATATAA
1 TTTAATATAA
33356195 ATATTATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 23 0.52
39 4 0.09
40 2 0.05
41 15 0.34
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATGATATTTATAGTAGTGTTT
Found at i:33358743 original size:39 final size:39
Alignment explanation
Indices: 33358700--33358778 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
33358690 AAACAGATTC
*
33358700 CTAATGAATAGATTAAATGCTCAAATTCTCAATACAAAT
1 CTAATGAATAGATTAAATGCTAAAATTCTCAATACAAAT
*
33358739 CTAATGAATAGTTTAAATGCTAAAATTCTCAATACAAAT
1 CTAATGAATAGATTAAATGCTAAAATTCTCAATACAAAT
33358778 C
1 C
33358779 ACCTATGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.32
Consensus pattern (39 bp):
CTAATGAATAGATTAAATGCTAAAATTCTCAATACAAAT
Found at i:33359566 original size:23 final size:23
Alignment explanation
Indices: 33359539--33359586 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
33359529 TTTAATATGA
33359539 TAAACTTGAATCATTAATTAACT
1 TAAACTTGAATCATTAATTAACT
33359562 TAAACTTGAATCATTAATTAACT
1 TAAACTTGAATCATTAATTAACT
33359585 TA
1 TA
33359587 TTTAGGTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAACTTGAATCATTAATTAACT
Found at i:33362378 original size:2 final size:2
Alignment explanation
Indices: 33362373--33362412 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
33362363 TAGTATATAA
* * *
33362373 GT GT GT GT GT AT GT AT GT GT GT AT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
33362413 TGAATAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.07, C:0.00, G:0.42, T:0.50
Consensus pattern (2 bp):
GT
Found at i:33366017 original size:27 final size:26
Alignment explanation
Indices: 33365951--33366023 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
33365941 TATTTTCTCG
* *
33365951 AAATTTTAC-CAGGGTTAAAATCGTTA
1 AAATTTTACTAAGGG-TAAAATCGTCA
*
33365977 AAATTTTACTAAGGGTAAAATTGTCA
1 AAATTTTACTAAGGGTAAAATCGTCA
* *
33366003 AAATTTTGCTAAAGGTAAAAT
1 AAATTTTACTAAGGGTAAAAT
33366024 AGGGATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 37 0.90
27 4 0.10
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAAAATCGTCA
Found at i:33369635 original size:21 final size:22
Alignment explanation
Indices: 33369606--33369646 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33369596 AATATTATTA
*
33369606 GAACTCTTACGTCTATAAATAC
1 GAACTCTTAAGTCTATAAATAC
*
33369628 GAAC-CTTAATTCTATAAAT
1 GAACTCTTAAGTCTATAAAT
33369647 TCTTCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (22 bp):
GAACTCTTAAGTCTATAAATAC
Found at i:33379034 original size:42 final size:41
Alignment explanation
Indices: 33378987--33379177 Score: 184
Period size: 42 Copynumber: 4.6 Consensus size: 41
33378977 ACGGTTTTAC
** *
33378987 AAGTTGTGTATCAGTAAAGCTCCTAACGTGAGCTTAAGTGAG
1 AAGTTGTGTATCAGCGAAGCTCCT-ACGTGAGCTTAAGTGAT
*
33379029 AAGTTGTGTATCAGGGAAGCTCTCTACGTGAGCTTAAGTGAT
1 AAGTTGTGTATCAGCGAAGCTC-CTACGTGAGCTTAAGTGAT
* * * * *
33379071 AGGTTGTGTATCAACGACGCTCCCTATGTGAGTTTAAGTGAT
1 AAGTTGTGTATCAGCGAAGCT-CCTACGTGAGCTTAAGTGAT
* * * * * *
33379113 AACTTGTATGTCAACGAAGCTCCCCACGTGAGCTTAAGTGAC
1 AAGTTGTGTATCAGCGAAGCT-CCTACGTGAGCTTAAGTGAT
* * *
33379155 AAGCTATGTATCAGTGAAGCTCC
1 AAGTTGTGTATCAGCGAAGCTCC
33379178 CCATGCGAGC
Statistics
Matches: 122, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 117 0.96
43 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (41 bp):
AAGTTGTGTATCAGCGAAGCTCCTACGTGAGCTTAAGTGAT
Found at i:33379177 original size:84 final size:84
Alignment explanation
Indices: 33378993--33379192 Score: 204
Period size: 84 Copynumber: 2.4 Consensus size: 84
33378983 TTACAAGTTG
* * * * ** * *
33378993 TGTATCAGTAAAGCT-CCTAACGTGAGCTTAAGTGAGAAGTTGTGTATCAGGGAAGCTCTCTACG
1 TGTATCAGTGAAGCTCCCT-ATGTGAGCTTAAGTGAGAACTTGTATATCAACGAAGCTCCCCACG
* * * *
33379057 TGAGCTTAAGTGATAGGTTG
65 TGAGCTTAAGTGACAAGCTA
** * * * *
33379077 TGTATCAACGACGCTCCCTATGTGAGTTTAAGTGATAACTTGTATGTCAACGAAGCTCCCCACGT
1 TGTATCAGTGAAGCTCCCTATGTGAGCTTAAGTGAGAACTTGTATATCAACGAAGCTCCCCACGT
33379142 GAGCTTAAGTGACAAGCTA
66 GAGCTTAAGTGACAAGCTA
* *
33379161 TGTATCAGTGAAGCTCCCCATGCGAGCTTAAG
1 TGTATCAGTGAAGCTCCCTATGTGAGCTTAAG
33379193 GGATGATGCT
Statistics
Matches: 91, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
84 88 0.97
85 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (84 bp):
TGTATCAGTGAAGCTCCCTATGTGAGCTTAAGTGAGAACTTGTATATCAACGAAGCTCCCCACGT
GAGCTTAAGTGACAAGCTA
Found at i:33381239 original size:240 final size:237
Alignment explanation
Indices: 33380775--33381279 Score: 715
Period size: 240 Copynumber: 2.1 Consensus size: 237
33380765 TTACAACCAT
* * * *
33380775 ATTATTAAAACTAGAAATTTTATTACACATGTGGAAAACACAAATTTAGAACACAAATGTATGTT
1 ATTATTAATACTAGAAATTCTATCACACATATGGAAAACACAAATTTAGAACACAAATGTATGTT
* * *
33380840 TAAAAATAACATCAAATAAATAATGAAACTATGGTTTGAAACTAATTAATAATAACACATGAAAT
66 TAAAAATAACATAAAATAAATAATGAAAATATGGTTTGAAACTAATAAATAATAACACATGAAAT
** * * * ** *
33380905 ATGTATGATATTAAAATAAAAAAAATTAATTTAATTGTTTATCATGGTGTTGTCATTAATCTTGA
131 ATGTAAAATATTAAAATAAAAAAAATTAATTAAACTGTTTATCATAGTACTGTCATCAATCTTGA
*
33380970 GTCGGTGCTGAGTTAACTTGTGACACCAACTCAATCAAATAC
196 GTCGGTGCCGAGTTAACTTGTGACACCAACTCAATCAAATAC
* * * * * *
33381012 ATTGTTAATTCTAGAAATTCTATCACATGCATATGGAAACCACAAATTTGGAACGCAAATGTGTG
1 ATTATTAATACTAGAAATTCTATCACA--CATATGGAAAACACAAATTTAGAACACAAATGTATG
33381077 TTTAAAAATAACATAAAATAAATAATGAAATATATGGTTTGAAACTAATAAATAATAACACATGA
64 TTTAAAAATAACATAAAATAAATAATGAAA-ATATGGTTTGAAACTAATAAATAATAACACATGA
* ** * *
33381142 AATATGTAAAATATTAAAATGAAAAATTTTGATTAAACTGTTTATCATAGTACTGTCGTCAATCT
128 AATATGTAAAATATTAAAATAAAAAAAATTAATTAAACTGTTTATCATAGTACTGTCATCAATCT
*
33381207 TGAG-CTGGTGCCGAGTTAACTTGTGGCACCAACTCAATCAAATAC
193 TGAGTC-GGTGCCGAGTTAACTTGTGACACCAACTCAATCAAATAC
33381252 ATTATTAATACTAGAAATTCTATCACAC
1 ATTATTAATACTAGAAATTCTATCACAC
33381280 GCGTATGCAT
Statistics
Matches: 234, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
237 22 0.09
238 1 0.00
239 61 0.26
240 150 0.64
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (237 bp):
ATTATTAATACTAGAAATTCTATCACACATATGGAAAACACAAATTTAGAACACAAATGTATGTT
TAAAAATAACATAAAATAAATAATGAAAATATGGTTTGAAACTAATAAATAATAACACATGAAAT
ATGTAAAATATTAAAATAAAAAAAATTAATTAAACTGTTTATCATAGTACTGTCATCAATCTTGA
GTCGGTGCCGAGTTAACTTGTGACACCAACTCAATCAAATAC
Found at i:33381992 original size:107 final size:108
Alignment explanation
Indices: 33381709--33382027 Score: 484
Period size: 107 Copynumber: 3.0 Consensus size: 108
33381699 AAAATTCAAG
* * * * * *
33381709 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCAAAACCCAGCACCTTAGGGCACG-TTCCTT
1 AGGATATTTAGC-ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
*
33381771 GAATTTCCAAACGCCAAACATTGCCTTATTTTGAAATTTTTGAA
65 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
33381815 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGC-ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
*
33381880 GAATTTCCAAACGCAAAACATTGTCTTATTTTGAAATTTTTGAA
65 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
* *
33381924 AGGATATTTAGC-TTTGGTTGAACGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTCG
1 AGGATATTTAGCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCG
* *
33381988 AATTTCTAAACGCAAAATATTGCCTTATTTTGAAATTTTT
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTT
33382028 TTAGAAAAAA
Statistics
Matches: 196, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 25 0.13
107 87 0.44
108 26 0.13
109 58 0.30
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (108 bp):
AGGATATTTAGCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
Found at i:33382441 original size:4 final size:4
Alignment explanation
Indices: 33382432--33382472 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
33382422 AACGGATATG
33382432 TAAA TAAA TAAA TAAA TAAA TAAA TGAAGA -AAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AA-A TAAA TAAA TAAA
33382473 AGATATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 30 0.88
5 2 0.06
6 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:33382950 original size:3 final size:3
Alignment explanation
Indices: 33382915--33383001 Score: 70
Period size: 3 Copynumber: 28.3 Consensus size: 3
33382905 ATAAGAAAAC
* * * * *
33382915 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
33382960 A-A GATA ATA ATG ATA ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
33383002 AAAATTGCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
2 2 0.03
3 59 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:33384297 original size:12 final size:12
Alignment explanation
Indices: 33384280--33384306 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33384270 AATATTTACG
33384280 AAACTAAAATAA
1 AAACTAAAATAA
33384292 AAACTAAAATAA
1 AAACTAAAATAA
33384304 AAA
1 AAA
33384307 ATAGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAACTAAAATAA
Found at i:33385651 original size:13 final size:13
Alignment explanation
Indices: 33385633--33385658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33385623 GGTTTTTTCC
33385633 AAAATGAAAATGA
1 AAAATGAAAATGA
33385646 AAAATGAAAATGA
1 AAAATGAAAATGA
33385659 CCTAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:33388428 original size:31 final size:32
Alignment explanation
Indices: 33388356--33388429 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
33388346 AAAACTTAAC
*
33388356 ATTCTAGTTACTTAAATAAAAAACTTTCAAGTA
1 ATTC-AGTGACTTAAATAAAAAACTTTCAAGTA
* * *
33388389 ATTTAGTGACTTAAAT-GAAAATTTTCGAA-TA
1 ATTCAGTGACTTAAATAAAAAACTTTC-AAGTA
33388420 ATTCAGTGAC
1 ATTCAGTGAC
33388430 GCTTTTATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 19 0.54
32 13 0.37
33 3 0.09
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (32 bp):
ATTCAGTGACTTAAATAAAAAACTTTCAAGTA
Done.