Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 91 of 126
Found at i:27745778 original size:109 final size:107
Alignment explanation
Indices: 27745135--27745795 Score: 431
Period size: 109 Copynumber: 6.1 Consensus size: 107
27745125 TTGAGTTATT
** * * *
27745135 ACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTA
1 ACTTAAAAACCCTAAACTAATT-TAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAAC--
** * ** * *
27745199 ATTTAACTAAAAACCCTAAATCCTTAAAATTAAAAACCATAAACCCTTA
63 CCTTAATTAAAAACTTTAAA--C-TAAACTTAAAAACC-TTAACCCTTA
* * * * *
27745248 ACTTAAAAA-CCTTAACT--CTTAACTTAAAAACCCT-AACCCTTAAATTAAAAACCCTAAACCC
1 ACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAACCC
** * * *
27745309 TTAACTTAAAAACCCTAAACT-AATTTAAAAACCCTAAACCCTAA
65 TTAA-TTAAAAACTTTAAACTAAACTTAAAAA-CCTTAACCCTTA
** * ** *
27745353 ACCTT--AAACCCT-AAC--CCTTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAA
1 A-CTTAAAAACCCTAAACTAATTTAA-TTAAAAACCTTAAAC--CCTTAACTTAAAAACCCTTAA
* * ** * *
27745412 CCTTTAAACCTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTA
62 CCCTT-AA-TTAAAAACTTTAAACTAA---ACTTAAAAA-CCTTAACCCTTA
* *
27745464 ACTTATAAACCCT-AACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCC-TAACCCT
1 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAACCCT
* * * *
27745527 CAACTTAAAAACTTTAACCCTTAACTTAAAAACAC-CAACCCTTA
66 TAA-TTAAAAACTTTAA-ACTAAACTTAAAAAC-CTTAACCCTTA
* ** * * * *
27745571 AATTAAAAACCCTAAAC-CCTTAAAATTAAAAATCTTAAACCCTTAACTTAAAAACTCTAAACTA
1 ACTTAAAAACCCTAAACTAATT-TAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAAC--
** * * *
27745635 ATTTAATTAAAAACTCTAAACCCTAACCCT--AAACCTTAACCCTTA
63 CCTTAATTAAAAACTTTAAA--CTAAACTTAAAAACCTTAACCCTTA
*
27745680 ACTTAAAAACCTTAAACTAATTTAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAACCCT
1 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAACCCT
* *
27745745 TAATTTTAAAACTTTAAACTAGAACTTAAAAACCGTAACCCTTA
66 TAA-TTAAAAACTTTAAACTA-AACTTAAAAACCTTAACCCTTA
27745789 ACTTAAA
1 ACTTAAA
27745796 TTTATTTGAT
Statistics
Matches: 451, Mismatches: 62, Indels: 74
0.77 0.11 0.13
Matches are distributed among these distances:
104 23 0.05
105 25 0.06
106 27 0.06
107 52 0.12
108 61 0.14
109 100 0.22
110 56 0.12
111 53 0.12
112 26 0.06
113 24 0.05
114 4 0.01
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (107 bp):
ACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTTAACCCT
TAATTAAAAACTTTAAACTAAACTTAAAAACCTTAACCCTTA
Found at i:27749348 original size:125 final size:125
Alignment explanation
Indices: 27748972--27749349 Score: 630
Period size: 125 Copynumber: 3.0 Consensus size: 125
27748962 CCCAAACATG
*
27748972 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGCTTTCACAAATTCTTCTCAAACAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATTCTGC
* * * *
27749037 TAGAAGCAATTTTATACTATTTGCTTAGAAACATCAACTCGAAATTATTTCTTCCATGAG
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
* *
27749097 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATTCTGC
* *
27749162 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTTTTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
* * *
27749222 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATTCTGC
* *
27749287 TAGAAGCGATTTTATACTATTTGATCAGAAACGTTAACTCGAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
27749347 CTA
1 CTA
27749350 AAATCCCTAA
Statistics
Matches: 235, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 235 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATTCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
Found at i:27754465 original size:50 final size:51
Alignment explanation
Indices: 27754377--27754516 Score: 203
Period size: 50 Copynumber: 2.8 Consensus size: 51
27754367 GTGAAAGTTA
*
27754377 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * *
27754427 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* *
27754478 AGTGATGGTCACATGTGTATTACTACGTGCAGGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
27754517 TGTGAACTGG
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
49 4 0.05
50 41 0.51
51 31 0.39
52 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
Found at i:27754765 original size:16 final size:16
Alignment explanation
Indices: 27754744--27754775 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27754734 TGATTGAAAG
*
27754744 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
27754760 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
27754776 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:27760843 original size:20 final size:21
Alignment explanation
Indices: 27760815--27760853 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
27760805 TATTAATTAA
*
27760815 AAATAAATTAAATTAAAAGGT
1 AAATAAATTAAAGTAAAAGGT
27760836 AAAT-AATTAAAGTAAAAG
1 AAATAAATTAAAGTAAAAG
27760854 ATATCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (21 bp):
AAATAAATTAAAGTAAAAGGT
Found at i:27763041 original size:15 final size:16
Alignment explanation
Indices: 27763021--27763050 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27763011 TGGTGCCTTG
27763021 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
27763036 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
27763051 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:27771995 original size:21 final size:22
Alignment explanation
Indices: 27771953--27772019 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 22
27771943 TAGTGTTTAC
* * *
27771953 TTTCTGTTTAGC-CATCACGAG
1 TTTCTGTTTAACTCATAATGAG
27771974 TTTCTGTTTAACTCAT-ATGAG
1 TTTCTGTTTAACTCATAATGAG
* *
27771995 TTT-TCGTTCAACTC-TAATGGG
1 TTTCT-GTTTAACTCATAATGAG
27772016 TTTC
1 TTTC
27772020 CGTTAAGCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.05
21 33 0.87
22 3 0.08
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (22 bp):
TTTCTGTTTAACTCATAATGAG
Found at i:27772092 original size:42 final size:42
Alignment explanation
Indices: 27771981--27772095 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
27771971 GAGTTTCTGT
* * * *
27771981 TTAA-CTCATATGAG-TTTTCGTTCAACTCTAATGGGTTTCCG
1 TTAAGCTCTTATGAGCTTTT-GTTCAACCCTTATGGATTTCCG
* * * * *
27772022 TTAAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGATTTTCT
1 TTAAGCTCTTATGAGCTTTTGTTCAACCCTTATGGATTTCCG
*
27772064 TTCAGCTCTTATGAGCTTTTGTTCAACCCTTA
1 TTAAGCTCTTATGAGCTTTTGTTCAACCCTTA
27772096 CGGGTTTCTA
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.07
42 52 0.88
43 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
TTAAGCTCTTATGAGCTTTTGTTCAACCCTTATGGATTTCCG
Found at i:27772095 original size:21 final size:21
Alignment explanation
Indices: 27772033--27772095 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
27772023 TAAGCTCTTT
* *
27772033 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTTTGTTCAACCCTTA
* * * *
27772054 TG-GATTTTCTTTCAGCTCTTA
1 TGAGCTTTT-GTTCAACCCTTA
27772075 TGAGCTTTTGTTCAACCCTTA
1 TGAGCTTTTGTTCAACCCTTA
27772096 CGGGTTTCTA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.46
Consensus pattern (21 bp):
TGAGCTTTTGTTCAACCCTTA
Found at i:27772144 original size:19 final size:21
Alignment explanation
Indices: 27772092--27772144 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
27772082 TTGTTCAACC
* * *
27772092 CTTACGGGTTTCTATTTATCA
1 CTTATGGGCTTCTATTTAGCA
*
27772113 CTTATGTGCTTCTATTTAGC-
1 CTTATGGGCTTCTATTTAGCA
27772133 CTT-TGGGCTTCT
1 CTTATGGGCTTCT
27772145 GAAAATGATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 8 0.30
20 3 0.11
21 16 0.59
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (21 bp):
CTTATGGGCTTCTATTTAGCA
Found at i:27774012 original size:25 final size:25
Alignment explanation
Indices: 27773950--27774012 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
27773940 TAATCAGGAA
* * *
27773950 GCTCTTTCGAGCCATATAATGGGAT
1 GCTCTTACGAGCTAAATAATGGGAT
* *
27773975 GCTCATAAGAGCTAAATAATGGGAT
1 GCTCTTACGAGCTAAATAATGGGAT
*
27774000 GCTCTTGCGAGCT
1 GCTCTTACGAGCT
27774013 GTGGTGTGTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (25 bp):
GCTCTTACGAGCTAAATAATGGGAT
Found at i:27774119 original size:21 final size:21
Alignment explanation
Indices: 27774093--27774135 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27774083 ATCGAATTTC
*
27774093 TTAGGTTCAAACGGGACTTAG
1 TTAGGTTCAAACGAGACTTAG
27774114 TTAGGTTCAAACGAGACTTAG
1 TTAGGTTCAAACGAGACTTAG
27774135 T
1 T
27774136 ACTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (21 bp):
TTAGGTTCAAACGAGACTTAG
Found at i:27775709 original size:21 final size:21
Alignment explanation
Indices: 27775685--27775726 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27775675 TTAGGGTCAT
27775685 AAATAAT-TAATAAAAGTATTA
1 AAATAATATAAT-AAAGTATTA
*
27775706 AAATAATATAATCAAGTATTA
1 AAATAATATAATAAAGTATTA
27775727 TTATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATAATATAATAAAGTATTA
Found at i:27778961 original size:23 final size:24
Alignment explanation
Indices: 27778926--27778973 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
27778916 TATTTTAAGA
* *
27778926 TTATATTTCTATATTTG-TTTAAT
1 TTATATTTATATAATTGTTTTAAT
*
27778949 TTATTTTTATATAATTGTTTTAAT
1 TTATATTTATATAATTGTTTTAAT
27778973 T
1 T
27778974 CAATCAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
TTATATTTATATAATTGTTTTAAT
Found at i:27779624 original size:22 final size:22
Alignment explanation
Indices: 27779583--27779624 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27779573 TAAAAATTAA
*
27779583 AAAATATATTTTTATATTTTTT
1 AAAATATATTATTATATTTTTT
*
27779605 AAAATATA-TATTATACTTTT
1 AAAATATATTATTATATTTTT
27779625 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAATATATTATTATATTTTTT
Found at i:27779651 original size:18 final size:18
Alignment explanation
Indices: 27779630--27779664 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27779620 CTTTTAATTT
* *
27779630 TTTTTAATTTTTTAAAAA
1 TTTTAAATTTTATAAAAA
27779648 TTTTAAATTTTATAAAA
1 TTTTAAATTTTATAAAA
27779665 TTAATTAATT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAATTTTATAAAAA
Found at i:27780252 original size:31 final size:31
Alignment explanation
Indices: 27780196--27780255 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
27780186 ATTTTGTGTC
*
27780196 AAGACTAAAATTTTAAAATCTGAAAAATACA
1 AAGACTAAAATTATAAAATCTGAAAAATACA
*
27780227 AAGATTAAGAATTATAAAAT-TGAAAAATA
1 AAGACTAA-AATTATAAAATCTGAAAAATA
27780256 TGGACTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.27
Consensus pattern (31 bp):
AAGACTAAAATTATAAAATCTGAAAAATACA
Found at i:27780868 original size:24 final size:26
Alignment explanation
Indices: 27780831--27780880 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
27780821 AAAATAATGG
27780831 ATTATCTTGTTATTATGTTTTT-TTGT
1 ATTATCTTGTTATTAT-TTTTTGTTGT
27780857 ATTAT-TT-TTATTATTTTTTGTTGT
1 ATTATCTTGTTATTATTTTTTGTTGT
27780881 TAGTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.22
24 11 0.48
25 2 0.09
26 5 0.22
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.72
Consensus pattern (26 bp):
ATTATCTTGTTATTATTTTTTGTTGT
Found at i:27780891 original size:22 final size:21
Alignment explanation
Indices: 27780849--27780893 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
27780839 GTTATTATGT
* *
27780849 TTTTTTGTATTATTTTTATTA
1 TTTTTTGTATTAGTTTAATTA
*
27780870 TTTTTTGTTGTTAGTTTAATTA
1 TTTTTTG-TATTAGTTTAATTA
27780892 TT
1 TT
27780894 ATTGTTAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TTTTTTGTATTAGTTTAATTA
Found at i:27781150 original size:37 final size:37
Alignment explanation
Indices: 27781102--27781187 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 37
27781092 TTTTACATTA
*
27781102 TATTATTGTTAG-T-TATTATTTTTAGTA-AAACCCTAAT
1 TATTATTGTTAGTTATATTATTTTGAGTATAAA--CT-AT
27781139 TATTATTGTTAGTTAGTATTATTTTGAGTATAAACTAT
1 TATTATTGTTAGTTA-TATTATTTTGAGTATAAACTAT
27781177 TATTATTGTTA
1 TATTATTGTTA
27781188 TTGTGCTAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
37 12 0.27
38 14 0.32
39 2 0.05
40 13 0.30
41 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.53
Consensus pattern (37 bp):
TATTATTGTTAGTTATATTATTTTGAGTATAAACTAT
Found at i:27786683 original size:153 final size:151
Alignment explanation
Indices: 27786221--27787295 Score: 1165
Period size: 153 Copynumber: 7.0 Consensus size: 151
27786211 GCAACTTCAA
* *
27786221 AAAAAATTAGTAAAAAACCCTTATTTCGGCCCTTTATTCGTA-TTTTTTCCCGAATTTTATTACT
1 AAAAAATTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTACT
* *
27786285 TTGAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
66 TTAAAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
* *
27786350 TAAATAAATTTAGTGTTTTTTT
131 T-AATTAATTTAGCGTTTTTTT
* * * * * *
27786372 AAATAAATT-TTAAAAAAACTCTTATTTCGCCCCTTTGCTT-GTGTATTTTTAC-CGATTTTTAT
1 AAA-AAATTAGT-AAAAAACCCTTATTTCGGCCCTTTG-TTCGTAT-TTTTTTCTCGAATTTTAT
* * **
27786434 TACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATTTTATTTTAGTACATTATGTT
62 TACTTT--A-AAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTT
* *
27786499 TGAAATGT-ATTAATTAAGTCTGTTTTTTTT
124 TGAAATTTAATTAATTTAG-C-G-TTTTTTT
* *
27786529 AAAAAATTAGTAAAAAGCCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTCGAATTTTATTACT
1 AAAAAATTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTACT
* * * * *
27786594 TTAAAAAACATACTATTTTATTATTTTATTATTTTAAATTATTTTAGTACATTATATTTTAAATT
66 TTAAAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
*
27786659 TAAATAAATTTAGCGTGTTTTTT
131 T-AATTAATTTAGCGT-TTTTTT
** * * *
27786682 AAATAAATTTTTTAAAAAATCCTTATTTCGGCCCTTTGGTCGTATTTTTTTCTCAAATTTTATTA
1 AAA-AAA-TTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTA
* ** * *
27786747 CTTTCAATAAAAATATATTATTTTAGTATTTTATTAGTTTA-ATTTATTTTAGTATATTATGTTT
64 CTTT--A-AAAAATATACTATTTTCTTATTTTATTATTTTACA-TTATTTTAGTACATTATGTTT
* *
27786811 GAAATTT-ATTAATTAATTC-TTTTTTT
125 GAAATTTAATTAATTTA-GCGTTTTTTT
* * *
27786837 --AAATTTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTATCGAATTTTATTACT
1 AAAAAATTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTACT
* *
27786900 TTAAAAAAGTATACTATTTTCTTATTTTATTATTTTACATTATTTCAGTACATTATGTTTTAAAT
66 TTAAAAAA-TATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
*
27786965 TT-ATTAATTTAGTGTGTTTTTT
130 TTAATTAATTTAGCGT-TTTTTT
* * * * *
27786987 AGATAAATTTA-AAAAAAACCCTTATTTCGGCCCTTTGCTCATATTTTTTTCCCGAATTTTATTA
1 A-A-AAAATTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTA
* * *
27787051 CTTTTAATAAAAATATATTATTTTCGTATTTTATTTTTTTACATTATTTTAGTACATTATGTTTG
64 C-TTT-A-AAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
* * *
27787116 AAATGT-ATTAATTAATTC-TTTTTTT
126 AAATTTAATTAATTTA-GCGTTTTTTT
** * * * * *
27787141 TTAAATTTAGTAAAAAACCCTTACTTCGACCATTTGTTCGTATTTTTTTCTCTGCATTTTATTAC
1 AAAAAATTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTC-GAATTTTATTAC
* * *
27787206 TTTAGAAAATAT-CATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAC
65 TTTAAAAAATATAC-TATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
*
27787270 TTT-ATTAATTTAGTGTGTTTTTT
129 TTTAATTAATTTAGCGT-TTTTTT
27787293 AAA
1 AAA
27787296 TATACAATTT
Statistics
Matches: 775, Mismatches: 108, Indels: 81
0.80 0.11 0.08
Matches are distributed among these distances:
148 5 0.01
149 59 0.08
150 7 0.01
151 122 0.16
152 47 0.06
153 168 0.22
154 46 0.06
155 138 0.18
156 115 0.15
157 14 0.02
158 54 0.07
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (151 bp):
AAAAAATTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTACT
TTAAAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
TAATTAATTTAGCGTTTTTTT
Found at i:27787185 original size:306 final size:305
Alignment explanation
Indices: 27786227--27787297 Score: 1562
Period size: 306 Copynumber: 3.5 Consensus size: 305
27786217 TCAAAAAAAA
* * * *
27786227 TTAGTAAAAAACCCTTATTTCGGCCCTTTATTCGTA-TTTTTTCCCGAATTTTATTACTTTGAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTCGAATTTTATTACTTTAAAA
27786291 AATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATA
66 AATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT-AATA
* * * * *
27786356 AATTTAGTGT-TTTTTTAAATAAATTTTAAAAAAACTCTTATTTCGCCCCTTTGCTTGTGTATTT
130 AATTTAGTGTGTTTTTTAAATAAATTTTAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTT
* * *
27786420 TTACCGATTTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATTTTATTT
195 TTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA-ATTATTT
* *
27786485 TAGTACATTATGTTTGAAATGTATTAATTAAGTCTGTTTTTTTTAAAAAA
259 TAGTACATTATGTTTGAAATGTATTAATTAATTCT-TTTTTTTT--AAAT
*
27786535 TTAGTAAAAAGCCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTCGAATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTCGAATTTTATTACTTTAAAA
* * * * * *
27786600 AACATACTATTTTATTATTTTATTATTTTAAATTATTTTAGTACATTATATTTTAAATTTAAATA
66 AATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT-AATA
* * * *
27786665 AATTTAGCGTGTTTTTTAAATAAATTTTTTAAAAAATCCTTATTTCGGCCCTTTGGTCGTATTTT
130 AATTTAGTGTGTTTTTTAAATAAA-TTTTAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTT
* * * *
27786730 TTTCTCAAATTTTATTACTTTCAATAAAAATATATTATTTTAGTATTTTATTAGTTTAATTTATT
194 TTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAA-TTATT
* *
27786795 TTAGTATATTATGTTTGAAATTTATTAATTAATTC--TTTTTTTAAAT
258 TTAGTACATTATGTTTGAAATGTATTAATTAATTCTTTTTTTTTAAAT
*
27786841 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTATCGAATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTCGAATTTTATTACTTTAAAA
* * * *
27786906 AAGTATACTATTTTCTTATTTTATTATTTTACATTATTTCAGTACATTATGTTTTAAATTT-ATT
66 AA-TATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAATA
* * *
27786970 AATTTAGTGTGTTTTTTAGATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGCTCATATTTTT
130 AATTTAGTGTGTTTTTTAAATAAATTTTAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTT
* *
27787035 TTCCCGAATTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTTTTTTACATTATTT
195 TTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA-ATTATTT
27787100 TAGTACATTATGTTTGAAATGTATTAATTAATTCTTTTTTTTTAAAT
259 TAGTACATTATGTTTGAAATGTATTAATTAATTCTTTTTTTTTAAAT
* * * *
27787147 TTAGTAAAAAACCCTTACTTCGACCATTTGTTCGTATTTTTTTCTCTGCATTTTATTACTTTAGA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTC-GAATTTTATTACTTTAAA
*
27787212 AAATAT-CATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAACTTT-AT
65 AAATATAC-TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAT
*
27787275 TAATTTAGTGTGTTTTTTAAATA
129 AAATTTAGTGTGTTTTTTAAATA
27787298 TACAATTTTT
Statistics
Matches: 689, Mismatches: 64, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
304 125 0.18
305 26 0.04
306 198 0.29
307 72 0.10
308 40 0.06
309 94 0.14
310 13 0.02
311 121 0.18
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (305 bp):
TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCTCGAATTTTATTACTTTAAAA
AATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAATAA
ATTTAGTGTGTTTTTTAAATAAATTTTAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTT
TCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAATTATTTTA
GTACATTATGTTTGAAATGTATTAATTAATTCTTTTTTTTTAAAT
Found at i:27787647 original size:10 final size:10
Alignment explanation
Indices: 27787626--27787743 Score: 60
Period size: 10 Copynumber: 11.0 Consensus size: 10
27787616 AAAATTTACC
27787626 TTCTTT-TTT
1 TTCTTTCTTT
27787635 TTCTTTCTTT
1 TTCTTTCTTT
* *
27787645 TTCCTTCCTT
1 TTCTTTCTTT
**
27787655 CCCTCTTCTTCT
1 TTCT-TTCTT-T
27787667 TCTCCTTTCTTT
1 T-T-CTTTCTTT
27787679 TTCTTTCTTCTCCT
1 TTCTTTC-T-T--T
27787693 TTCCTTT-TTAT
1 TT-CTTTCTT-T
*
27787704 TTCTTTCCTT
1 TTCTTTCTTT
*
27787714 TTCTTTCTTC
1 TTCTTTCTTT
* *
27787724 TCCTTTCCTT
1 TTCTTTCTTT
27787734 TTCTTTCTTT
1 TTCTTTCTTT
27787744 CTTTCTTCTC
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
9 6 0.07
10 45 0.56
11 10 0.12
12 5 0.06
13 6 0.07
14 5 0.06
15 4 0.05
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:27787688 original size:20 final size:20
Alignment explanation
Indices: 27787663--27787758 Score: 99
Period size: 20 Copynumber: 4.7 Consensus size: 20
27787653 TTCCCTCTTC
27787663 TTCTTCTCCTTTCTTTTTCT
1 TTCTTCTCCTTTCTTTTTCT
*
27787683 TTCTTCTCCTTTCCTTTTTAT
1 TTCTTCTCCTTT-CTTTTTCT
27787704 TTCTT-TCCTTTTCTTTCTTC-
1 TTCTTCTCC-TTTCTTT-TTCT
*
27787724 TCCTT-TCCTTTTCTTTCTTTCT
1 TTCTTCTCC-TTTC-TT-TTTCT
27787746 TTCTTCTCCTTTC
1 TTCTTCTCCTTTC
27787759 CCTCTCCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
20 31 0.48
21 22 0.34
22 9 0.14
23 3 0.05
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTTCTCCTTTCTTTTTCT
Found at i:27787709 original size:15 final size:15
Alignment explanation
Indices: 27787691--27787729 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
27787681 CTTTCTTCTC
27787691 CTTTCCTTTTTATTT
1 CTTTCCTTTTTATTT
*
27787706 CTTTCC-TTTTCTTT
1 CTTTCCTTTTTATTT
27787720 CTTCTCCTTT
1 CTT-TCCTTT
27787730 CCTTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.48
15 9 0.43
16 2 0.10
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTCCTTTTTATTT
Found at i:27787716 original size:35 final size:34
Alignment explanation
Indices: 27787671--27787744 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 34
27787661 TCTTCTTCTC
*
27787671 CTTTCTTTTTCTTTCTTCTCCTTTCCTTTTTATTT
1 CTTTCCTTTTCTTTCTTCTCCTTTCC-TTTTATTT
*
27787706 CTTTCCTTTTCTTTCTTCTCCTTTCCTTTTCTTT
1 CTTTCCTTTTCTTTCTTCTCCTTTCCTTTTATTT
27787740 CTTTC
1 CTTTC
27787745 TTTCTTCTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
34 12 0.32
35 25 0.68
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (34 bp):
CTTTCCTTTTCTTTCTTCTCCTTTCCTTTTATTT
Found at i:27787719 original size:25 final size:25
Alignment explanation
Indices: 27787658--27787758 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 25
27787648 CTTCCTTCCC
27787658 TCTTCTTCTTCTCCTTTCTTTTTCTT
1 TCTTCTTCTT-TCCTTTCTTTTTCTT
*
27787684 TCTTCTCCTTTCCTTT-TTATTTCTT
1 TCTTCTTCTTTCCTTTCTT-TTTCTT
*
27787709 TCCTTTTCTTTCTTCTCCTTTCCTTTTCTT
1 T-C--TTC-TTCTT-TCCTTTCTTTTTCTT
27787739 TCTTTCTTTCTTCTCCTTTC
1 TC-TTC-TTCTT-TCCTTTC
27787759 CCTCTCCTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.03
25 13 0.20
26 10 0.15
28 21 0.32
29 5 0.08
30 13 0.20
31 1 0.02
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (25 bp):
TCTTCTTCTTTCCTTTCTTTTTCTT
Found at i:27787757 original size:10 final size:10
Alignment explanation
Indices: 27787663--27787776 Score: 66
Period size: 10 Copynumber: 11.9 Consensus size: 10
27787653 TTCCCTCTTC
27787663 TTCTTCTCCT
1 TTCTTCTCCT
* *
27787673 TTCTTTTTCT
1 TTCTTCTCCT
27787683 TTCTTCTCCT
1 TTCTTCTCCT
*
27787693 TTC--CT-TT
1 TTCTTCTCCT
*
27787700 TTATT-T-CT
1 TTCTTCTCCT
*
27787708 TTCCTT-TTCT
1 TT-CTTCTCCT
27787718 TTCTTCTCCT
1 TTCTTCTCCT
*
27787728 TTCCTT-TTCT
1 TT-CTTCTCCT
27787738 TTCTT-T-CT
1 TTCTTCTCCT
27787746 TTCTTCTCCT
1 TTCTTCTCCT
*
27787756 TTCCCTCTCCTT
1 TT-CTTCTCC-T
27787768 TTCTTCTCC
1 TTCTTCTCC
27787777 ACCCACCAGC
Statistics
Matches: 82, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
7 3 0.04
8 13 0.16
9 11 0.13
10 37 0.45
11 15 0.18
12 3 0.04
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (10 bp):
TTCTTCTCCT
Found at i:27787767 original size:69 final size:68
Alignment explanation
Indices: 27787628--27787769 Score: 150
Period size: 69 Copynumber: 2.1 Consensus size: 68
27787618 AATTTACCTT
* *
27787628 CTTTTTTTTCTTTCTTTTTCCTTCCTTCCCTCTTCTTCTTCTCCTTTCTTTTTCTTTCTTCTCCT
1 CTTTTTTTTCTTTCCTTTTCCTTCCTTCCCTCTTCTTCTTCTCCTTTCTTTTTCTCTCTTCTCCT
*
27787693 TTC
66 CTC
* *
27787696 CTTTTTATTTCTTTCCTTTT-CTTTCTTCTCCT-TTCCTT-TTCTTTCTTTCTTTCTTCTC-CTT
1 CTTTTT-TTTCTTTCCTTTTCCTTCCTTC-CCTCTT-CTTCTTC-TCCTTTCTTT-TTCTCTCTT
27787757 -TCCCTCTC
61 CT-CCTCTC
27787765 CTTTT
1 CTTTT
27787770 CTTCTCCACC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
68 19 0.30
69 40 0.63
70 4 0.06
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (68 bp):
CTTTTTTTTCTTTCCTTTTCCTTCCTTCCCTCTTCTTCTTCTCCTTTCTTTTTCTCTCTTCTCCT
CTC
Found at i:27788887 original size:20 final size:19
Alignment explanation
Indices: 27788843--27788918 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
27788833 TAAATGTTGG
*
27788843 AATTTTTATAAATATTTTT
1 AATTTTTAAAAATATTTTT
27788862 AA-TTTTAAAAATTATTTTT
1 AATTTTTAAAAA-TATTTTT
* *
27788881 AATTTTTGAAAAACATTTTG
1 AATTTTT-AAAAATATTTTT
*
27788901 AATTTTTTAAAATTATTT
1 AA-TTTTTAAAAATATTT
27788919 GAATTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.17
19 11 0.23
20 19 0.40
21 10 0.21
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (19 bp):
AATTTTTAAAAATATTTTT
Found at i:27788905 original size:39 final size:38
Alignment explanation
Indices: 27788842--27788926 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
27788832 ATAAATGTTG
* * *
27788842 GAATTTTTATAAATATTTTTAA-TTTTAAAAATTATTTT
1 GAATTTTTAAAAACATTTTGAATTTTTAAAAATTA-TTT
* *
27788880 TAATTTTTGAAAAACATTTTGAATTTTTTAAAATTATTT
1 GAATTTTT-AAAAACATTTTGAATTTTTAAAAATTATTT
27788919 GAATTTTT
1 GAATTTTT
27788927 TTATTTTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 7 0.18
39 21 0.54
40 11 0.28
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (38 bp):
GAATTTTTAAAAACATTTTGAATTTTTAAAAATTATTT
Found at i:27788919 original size:19 final size:20
Alignment explanation
Indices: 27788845--27788927 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 20
27788835 AATGTTGGAA
*
27788845 TTTTTATAAA-TATTTTTAA-
1 TTTTTA-AAATTATTTTGAAT
* *
27788864 TTTTAAAAATTATTTTTAAT
1 TTTTTAAAATTATTTTGAAT
* **
27788884 TTTTGAAAAACATTTTGAAT
1 TTTTTAAAATTATTTTGAAT
27788904 TTTTTAAAATTA-TTTGAAT
1 TTTTTAAAATTATTTTGAAT
27788923 TTTTT
1 TTTTT
27788928 TATTTTTGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
18 3 0.06
19 26 0.48
20 25 0.46
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTATTTTGAAT
Found at i:27789071 original size:39 final size:39
Alignment explanation
Indices: 27789020--27789099 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
27789010 TTCAACCCGA
27789020 TTCAAACTCGAATTACTTATTCGAATTGACTCAAATAAT
1 TTCAAACTCGAATTACTTATTCGAATTGACTCAAATAAT
27789059 TTCAAACTCGAATTACTTATTCGAATTGACTCAAATAAT
1 TTCAAACTCGAATTACTTATTCGAATTGACTCAAATAAT
27789098 TT
1 TT
27789100 GACTAACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (39 bp):
TTCAAACTCGAATTACTTATTCGAATTGACTCAAATAAT
Found at i:27814733 original size:28 final size:28
Alignment explanation
Indices: 27814702--27814755 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
27814692 TTTCCTCCAC
*
27814702 TCTCATCATAGCAGTCGTTCTCCTTCAT
1 TCTCATCATAGCAGTCATTCTCCTTCAT
*
27814730 TCTCTTCATAGCAGTCATTCTCCTTC
1 TCTCATCATAGCAGTCATTCTCCTTC
27814756 CTCTCTGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.09, T:0.41
Consensus pattern (28 bp):
TCTCATCATAGCAGTCATTCTCCTTCAT
Found at i:27816129 original size:21 final size:21
Alignment explanation
Indices: 27816105--27816148 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27816095 TAATTATCTT
*
27816105 ATAATTGC-TCATTGATTTGTA
1 ATAATTGCAT-ATTAATTTGTA
27816126 ATAATTGCATATTAATTTGTA
1 ATAATTGCATATTAATTTGTA
27816147 AT
1 AT
27816149 TTTTTGTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (21 bp):
ATAATTGCATATTAATTTGTA
Found at i:27817488 original size:45 final size:45
Alignment explanation
Indices: 27817420--27817512 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
27817410 GAATGGTCTA
* *
27817420 CTAAGAGAGAGAAAATTACACAAACTATGTGGACTGATTATATGG
1 CTAAAAGAGAGAAAATTACACAAACTATGTAGACTGATTATATGG
* *
27817465 CTAAAAGAGAGGAAATTGCACAAACTATGTAGACTGATTATATGG
1 CTAAAAGAGAGAAAATTACACAAACTATGTAGACTGATTATATGG
27817510 CTA
1 CTA
27817513 GAAATATTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (45 bp):
CTAAAAGAGAGAAAATTACACAAACTATGTAGACTGATTATATGG
Found at i:27817657 original size:32 final size:32
Alignment explanation
Indices: 27817621--27817702 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
27817611 TTGCAATTAG
27817621 TTTGTTGGATTTTGAAATTATTATGTCTTAAA
1 TTTGTTGGATTTTGAAATTATTATGTCTTAAA
* * * *
27817653 TTTGTTAGATGTTT-AATTTATTATGTTTTAAG
1 TTTGTTGGAT-TTTGAAATTATTATGTCTTAAA
* *
27817685 CTTGTTGGATATTGAAAT
1 TTTGTTGGATTTTGAAAT
27817703 GATTGACAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 2 0.05
32 35 0.88
33 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (32 bp):
TTTGTTGGATTTTGAAATTATTATGTCTTAAA
Found at i:27819864 original size:21 final size:21
Alignment explanation
Indices: 27819838--27819879 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27819828 CAAACACACC
*
27819838 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
27819859 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
27819880 GTCCACCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:27822801 original size:21 final size:21
Alignment explanation
Indices: 27822777--27822818 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27822767 GTCCAACGTG
*
27822777 GCTAGTTAACTGGTCACGTCA
1 GCTAGTTAACGGGTCACGTCA
27822798 GCTAGTTAACGGGTCACGTCA
1 GCTAGTTAACGGGTCACGTCA
27822819 CCTATCCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (21 bp):
GCTAGTTAACGGGTCACGTCA
Found at i:27826582 original size:28 final size:26
Alignment explanation
Indices: 27826531--27826585 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 26
27826521 TATTTTAAAA
27826531 AATTATAATAAAAAATAAATATTAAT
1 AATTATAATAAAAAATAAATATTAAT
27826557 AATTATAGTATAAATAAATAAA-ATTAAT
1 AATTATA--ATAAA-AAATAAATATTAAT
27826585 A
1 A
27826586 CACAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.27
28 12 0.46
29 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AATTATAATAAAAAATAAATATTAAT
Found at i:27828848 original size:40 final size:38
Alignment explanation
Indices: 27828790--27828927 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 38
27828780 ACACACCAGT
* *
27828790 TTGACATCTAATGCCTCATCAGATAATTCGAAGTAATAAA
1 TTGACACCCAATGCCTCATCAGATAA-TCGAAGT-ATAAA
* * * * *
27828830 TTGACATCCAGTGTCTCATCAGCTAAACCGAAG--TAAA
1 TTGACACCCAATGCCTCATCAGAT-AATCGAAGTATAAA
* *
27828867 TTGGCACCCAGTGCCTCATC-GAATTAATCTGAAGTAGTAAA
1 TTGACACCCAATGCCTCATCAG-A-TAATC-GAAGTA-TAAA
*
27828908 TTGACACCCAATGTCTCATC
1 TTGACACCCAATGCCTCATC
27828928 GACTCGAAGT
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
36 1 0.01
37 24 0.31
38 5 0.06
40 25 0.32
41 23 0.29
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (38 bp):
TTGACACCCAATGCCTCATCAGATAATCGAAGTATAAA
Found at i:27829130 original size:24 final size:24
Alignment explanation
Indices: 27829085--27829131 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
27829075 TATATATACC
27829085 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
27829109 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
27829132 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:27829863 original size:13 final size:13
Alignment explanation
Indices: 27829800--27829856 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
27829790 ATTTACTTAT
27829800 TATAATA-TATAA
1 TATAATATTATAA
*
27829812 TATAATATATATAC
1 TATAATAT-TATAA
27829826 T-TAATAATTA-AGA
1 TATAAT-ATTATA-A
27829839 TATAATATTATAA
1 TATAATATTATAA
27829852 TATAA
1 TATAA
27829857 ATCTATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
12 8 0.22
13 17 0.46
14 12 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (13 bp):
TATAATATTATAA
Found at i:27831728 original size:38 final size:38
Alignment explanation
Indices: 27831677--27831753 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
27831667 ACCTCTACTT
27831677 AGACTTCAACCCGTGACCATATCAAGCAATGTCACCCC
1 AGACTTCAACCCGTGACCATATCAAGCAATGTCACCCC
*
27831715 AGACTTCGACCCGTGACCATATCAAGCAATGTCACCCC
1 AGACTTCAACCCGTGACCATATCAAGCAATGTCACCCC
27831753 A
1 A
27831754 AAACCTAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.18
Consensus pattern (38 bp):
AGACTTCAACCCGTGACCATATCAAGCAATGTCACCCC
Found at i:27836736 original size:24 final size:23
Alignment explanation
Indices: 27836709--27836754 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27836699 AAATTTTCCT
27836709 AAATTGATGTATTTTTATTTTTAG
1 AAATTGAT-TATTTTTATTTTTAG
* *
27836733 AAATTTATTTTTTTTATTTTTA
1 AAATTGATTATTTTTATTTTTA
27836755 AATATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (23 bp):
AAATTGATTATTTTTATTTTTAG
Found at i:27837647 original size:16 final size:16
Alignment explanation
Indices: 27837626--27837677 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
27837616 TTTGGTTTGC
27837626 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27837642 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
27837658 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
27837674 TGTA
1 TGTA
27837678 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27837724 original size:45 final size:44
Alignment explanation
Indices: 27837658--27837752 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
27837648 GGATTAGAGG
* * *
27837658 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
27837703 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
*
27837747 TATAAT
1 TGTAAT
27837753 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 17 0.40
45 26 0.60
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:27837935 original size:18 final size:17
Alignment explanation
Indices: 27837914--27837948 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27837904 TTATTATTTA
*
27837914 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27837932 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27837949 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27837942 original size:28 final size:27
Alignment explanation
Indices: 27837872--27837944 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
27837862 TTTATTATCA
*
27837872 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
27837900 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
27837927 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
27837945 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:27838039 original size:147 final size:149
Alignment explanation
Indices: 27837833--27838107 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
27837823 ATGATTATTG
*
27837833 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
27837898 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
27837963 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
27837982 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
27838045 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
27838108 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:27838082 original size:18 final size:17
Alignment explanation
Indices: 27838061--27838095 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27838051 TTATTATTAA
*
27838061 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27838079 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27838096 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27838141 original size:61 final size:61
Alignment explanation
Indices: 27838076--27838263 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
27838066 TTTTAATTAA
27838076 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
27838137 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
27838194 AA
60 AT
*
27838196 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
27838257 AATATAT
1 AATATAT
27838264 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:27838183 original size:120 final size:120
Alignment explanation
Indices: 27838039--27838336 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
27838029 ATTTAATCAT
*
27838039 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
27838104 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
27838161 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
27838225 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
27838280 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
27838337 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:27838200 original size:16 final size:16
Alignment explanation
Indices: 27838160--27838205 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
27838150 GTAAAATATA
27838160 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
27838175 TATT-AAATATATTAT
1 AATTAAAATATATAAT
27838190 AATTAAAATATATAAT
1 AATTAAAATATATAAT
27838206 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:27838347 original size:54 final size:54
Alignment explanation
Indices: 27838154--27838347 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
27838144 GATACTGTAA
* *
27838154 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
27838208 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
27838271 T
54 T
* *
27838272 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
27838328 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
27838348 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:27840213 original size:24 final size:24
Alignment explanation
Indices: 27840172--27840219 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
27840162 CTACGAATCT
* *
27840172 GCATAAACCAAATGAAAATTATAA
1 GCATAAACCAAATAAAAATAATAA
27840196 GCATAAA-CAAATTAAAAATAATAA
1 GCATAAACCAAA-TAAAAATAATAA
27840220 TCTCCACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.21
Consensus pattern (24 bp):
GCATAAACCAAATAAAAATAATAA
Found at i:27844440 original size:23 final size:23
Alignment explanation
Indices: 27844405--27844449 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27844395 TCTTATTTAA
**
27844405 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
27844428 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
27844450 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:27847951 original size:17 final size:15
Alignment explanation
Indices: 27847924--27847962 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27847914 ATATAAGAAC
*
27847924 ATTTTATTATTAAATT
1 ATTTTAATATT-AATT
27847940 ATATTTAATATTAATT
1 AT-TTTAATATTAATT
27847956 ATTTTAA
1 ATTTTAA
27847963 ATTGTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAATATTAATT
Found at i:27848035 original size:91 final size:91
Alignment explanation
Indices: 27847929--27848173 Score: 413
Period size: 89 Copynumber: 2.7 Consensus size: 91
27847919 AGAACATTTT
* *
27847929 ATTATTAAATTATATTTAATATTAATTATTTTAAATTGTATATATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
27847994 TCAAGAATTTTATGAAATTATATATC
66 TCAAGAATTTTATGAAATTATATATC
*
27848020 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATACAAGAAAATTTA--A
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
* *
27848083 TCACGAATTTTATGAAATTATATATT
66 TCAAGAATTTTATGAAATTATATATC
* *
27848109 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
27848174 GTGATAATTA
Statistics
Matches: 144, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
89 84 0.58
91 60 0.42
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
TCAAGAATTTTATGAAATTATATATC
Found at i:27848275 original size:33 final size:32
Alignment explanation
Indices: 27848183--27848280 Score: 88
Period size: 33 Copynumber: 2.8 Consensus size: 32
27848173 AGTGATAATT
* * *
27848183 ATTTTAGTAAATTATATATTATCATATATTATG
1 ATTTTAGTAAATTATATATTTTAAT-TATTAAG
*
27848216 ATTTTAGTAAATTCATATGAGAATTTTGATTATTAAG
1 ATTTTAGTAAATT-ATAT----ATTTTAATTATTAAG
*
27848253 AATTTTATTAAATTATATATTTTAATTA
1 -ATTTTAGTAAATTATATATTTTAATTA
27848281 AAATATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
33 22 0.41
34 4 0.07
37 10 0.19
38 18 0.33
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTAGTAAATTATATATTTTAATTATTAAG
Found at i:27848282 original size:18 final size:17
Alignment explanation
Indices: 27848254--27848288 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27848244 ATTATTAAGA
*
27848254 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27848271 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27848289 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27848334 original size:104 final size:104
Alignment explanation
Indices: 27848216--27848405 Score: 335
Period size: 104 Copynumber: 1.8 Consensus size: 104
27848206 ATATATTATG
* * *
27848216 ATTTTAGTAAATTCATATGAGAATTTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
1 ATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27848281 AAATATATTTAATAATAATTATGTTAAATTATATTTTAC
66 AAATATATTTAATAATAATTATGTTAAATTATATTTTAC
*
27848320 ATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTCTTAAATTATATATTTTAATTA
1 ATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
27848385 TAATATATTTAATAATAATTA
66 AAATATATTTAATAATAATTA
27848406 ATATGATTAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 81 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (104 bp):
ATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
AAATATATTTAATAATAATTATGTTAAATTATATTTTAC
Found at i:27848598 original size:44 final size:45
Alignment explanation
Indices: 27848548--27848637 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
27848538 CATCTATTCT
* * *
27848548 ATTCAACTAAACACAAT-A-TTACTATTATGCCTCTATTCCATTAC
1 ATTCAACCAAACA-AATGATTTACTATTACGCCTCTATTCCAATAC
* *
27848592 ATTCAACCAAACAATTGATTTGCTATTACGCCTCTATTCCAATAC
1 ATTCAACCAAACAAATGATTTACTATTACGCCTCTATTCCAATAC
27848637 A
1 A
27848638 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.05
44 13 0.33
45 24 0.62
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (45 bp):
ATTCAACCAAACAAATGATTTACTATTACGCCTCTATTCCAATAC
Found at i:27856073 original size:20 final size:20
Alignment explanation
Indices: 27856048--27856088 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27856038 GCAAATGTTC
27856048 TTTCATTCTTTACGATTTTT
1 TTTCATTCTTTACGATTTTT
**
27856068 TTTCATTCTTTTGGATTTTT
1 TTTCATTCTTTACGATTTTT
27856088 T
1 T
27856089 CTGCTAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTCATTCTTTACGATTTTT
Found at i:27857026 original size:7 final size:7
Alignment explanation
Indices: 27857014--27857056 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
27857004 AAATGATGAG
27857014 ATGAAAA
1 ATGAAAA
27857021 ATGAAAA
1 ATGAAAA
27857028 AGTG-AAA
1 A-TGAAAA
27857035 ATGAAAA
1 ATGAAAA
*
27857042 CTGAAAA
1 ATGAAAA
27857049 ATGGAAAA
1 AT-GAAAA
27857057 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 22 0.71
8 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.14
Consensus pattern (7 bp):
ATGAAAA
Found at i:27857035 original size:14 final size:13
Alignment explanation
Indices: 27857018--27857064 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
27857008 GATGAGATGA
27857018 AAAATGAAAAAGTG
1 AAAATG-AAAAGTG
*
27857032 AAAATGAAAACTG
1 AAAATGAAAAGTG
27857045 AAAAATGGAAAAGT-
1 -AAAAT-GAAAAGTG
27857059 AAAATG
1 AAAATG
27857065 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 11 0.38
15 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.19, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAGTG
Found at i:27858468 original size:89 final size:89
Alignment explanation
Indices: 27858317--27858901 Score: 798
Period size: 89 Copynumber: 6.6 Consensus size: 89
27858307 GAGCAGGTTG
* *
27858317 AAAGATAA-CAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAGAGATACCAGATCTTGCCT
1 AAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCT
27858381 TCCCATACTGGTGGCGAAGCAGATC
65 TCCCATACTGGTGGCGAAGCAGATC
* * *
27858406 AAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGATACCAAATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTT
** *
27858471 CCCATACTGGTGGTAAAGTAGATC
66 CCCATACTGGTGGCGAAGCAGATC
* * * *
27858495 GAAGAAAGCAGATCTTGTCTTCTTGTACTGGCATGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTT
*
27858560 CCCATACTGGTTGCGAAGCAGATC
66 CCCATACTGGTGGCGAAGCAGATC
* * *
27858584 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAAAATAACAGATCTTGTCT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAAGATACCAGATCTTGCCT
*
27858649 TCCCATACTGGTGGCGAAACAGATC
65 TCCCATACTGGTGGCGAAGCAGATC
* * * *
27858674 AAAGAAAGCAGGTCTTGTCTTCATGTACCGCCGTGAAGTAGATCAAAGATAACAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTT
*
27858739 CCCATACTGGTGGCGAAGCAAATC
66 CCCATACTGGTGGCGAAGCAGATC
* * * * ** *
27858763 GAAGAAAACAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAA-A-AGTAGATCTTGTCT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAAGATACCAGATCTTGCCT
* * *
27858826 TCCCATACTGGTGGTGGAGTAGATC
65 TCCCATACTGGTGGCGAAGCAGATC
* ** *
27858851 GAAGAAAATAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
27858902 GCAGGTCCTG
Statistics
Matches: 440, Mismatches: 51, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
87 3 0.01
88 77 0.17
89 277 0.63
90 83 0.19
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (89 bp):
AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTT
CCCATACTGGTGGCGAAGCAGATC
Found at i:27858802 original size:268 final size:266
Alignment explanation
Indices: 27858317--27858897 Score: 813
Period size: 268 Copynumber: 2.2 Consensus size: 266
27858307 GAGCAGGTTG
* * * *
27858317 AAAGATAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATC-AGAGATACCAGATCTTGCCT
1 AAAGA-AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAAAATAACAGATCTTGCCT
* * * *
27858381 TCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTAAAGTA
65 TCCCATACTGGTGGCGAAACAGATCAAAGAAAGCAGATCTTGTCTTCATGTACCGCCGTAAAGTA
* * * * *
27858446 GATCAAAGATACCAAATCTTGCCTTCCCATACTGGTGGTAAAGTAGATCGAAGAAAGCAGATCTT
130 GATCAAAGATAACAAATCTTGCCTTCCCATACTGGTGGCAAAGCAAATCGAAGAAAACAGATCTT
* * * * *
27858511 GTCTTCTTGTACTGGCATGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTTGCGA
195 ATCTTCATGTACTGGCATGAAGTAGATC-GAAAAACCAGATCTTGCCTTCCCATACTGGTGGCGA
27858576 AGCAGATC
259 AGCAGATC
*
27858584 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAAAATAACAGATCTTGTCT
1 AAAGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAAAATAACAGATCTTGCCT
* *
27858649 TCCCATACTGGTGGCGAAACAGATCAAAGAAAGCAGGTCTTGTCTTCATGTACCGCCGTGAAGTA
65 TCCCATACTGGTGGCGAAACAGATCAAAGAAAGCAGATCTTGTCTTCATGTACCGCCGTAAAGTA
* *
27858714 GATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCGAAGAAAACAGATCTT
130 GATCAAAGATAACAAATCTTGCCTTCCCATACTGGTGGCAAAGCAAATCGAAGAAAACAGATCTT
* * ** * * *
27858779 ATCTTCATGTATTGGCGTGAAGTAGATCGAAAAAGTAGATCTTGTCTTCCCATACTGGTGGTGGA
195 ATCTTCATGTACTGGCATGAAGTAGATCGAAAAACCAGATCTTGCCTTCCCATACTGGTGGCGAA
*
27858844 GTAGATC
260 GCAGATC
* * *
27858851 GAAGAAAATAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAA
1 AAAG-AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
27858898 GATAGCAGGT
Statistics
Matches: 277, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
266 2 0.01
267 115 0.42
268 160 0.58
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (266 bp):
AAAGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAAAATAACAGATCTTGCCTT
CCCATACTGGTGGCGAAACAGATCAAAGAAAGCAGATCTTGTCTTCATGTACCGCCGTAAAGTAG
ATCAAAGATAACAAATCTTGCCTTCCCATACTGGTGGCAAAGCAAATCGAAGAAAACAGATCTTA
TCTTCATGTACTGGCATGAAGTAGATCGAAAAACCAGATCTTGCCTTCCCATACTGGTGGCGAAG
CAGATC
Found at i:27858872 original size:45 final size:45
Alignment explanation
Indices: 27858318--27859003 Score: 302
Period size: 44 Copynumber: 15.4 Consensus size: 45
27858308 AGCAGGTTGA
* * ***
27858318 AAGATAACAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATC-
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * ** * * *
27858361 AGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCA
1 A-AGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
** * *** * * *
27858407 AAGAAAGTAGATCTTGTCTTCATGTACTGG-CGTAAAGTAGATCA
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * * ** *
27858451 AAGATACCAAATCTTGCCTTCCCATACTGGTGGTAAAGTAGATCG
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * *** **
27858496 AAGAAAGCAGATCTTGTCTTCTTGTACTGG-CATGAAGTAGATC-
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * ** * * * *
27858539 AGAGATACCAGATCTTGCCTTCCCATACTGGTTGCGAAGCAGATCA
1 A-AGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * *** * *
27858585 AAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCA
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * * ** *
27858629 AAAAATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCA
1 AAGAA-AACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * * *** * ** *
27858675 AAGAAAGCAGGTCTTGTCTTCATGTAC-CGCCGTGAAGTAGATCA
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* ** * * *
27858719 AAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCG
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
*** * *
27858764 AAGAAAACAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
** * *
27858808 AA-AAAGTAGATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCG
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* *** * *
27858852 AAGAAAATAGATCTTATCTTCATGTACTGG-CGTGAAGTAGATCA
1 AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
* * * * * * * * * *
27858896 AAGATAGCAGGTCCTGTCTTCCTATA-TCAGTAGCGAAGT-GTTTC-
1 AAGAAAACAGATCTTATCTTCCCATACT-GGTGGTGAAGTAG-ATCG
* * * * *
27858940 AA-ATATACAGATTTTATCTTCCAATACTGGTGGCGAAGTAGATTG
1 AAGA-AAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
*
27858985 AGGAAAACAGATCTTATCT
1 AAGAAAACAGATCTTATCT
27859004 CCCTAAGCAG
Statistics
Matches: 476, Mismatches: 147, Indels: 38
0.72 0.22 0.06
Matches are distributed among these distances:
43 24 0.05
44 219 0.46
45 216 0.45
46 17 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
AAGAAAACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG
Found at i:27861849 original size:96 final size:96
Alignment explanation
Indices: 27861681--27861872 Score: 289
Period size: 96 Copynumber: 2.0 Consensus size: 96
27861671 GCGTTACGAG
* *
27861681 GGTGCTAATCCTTCCTCGTGCGTAACTGACTCCCGAACCTGTTTTCTCAAATTTCGCAGACCAAA
1 GGTGCTAACCCTTCCTCGTGCGTAACTGACTCCCGAACCTGTCTTCTCAAATTTCGCAGACCAAA
* **
27861746 ATTATTTTTAAGGTGGGCCGATCACACCTTA
66 ATCATTTTTAAGGTGAACCGATCACACCTTA
* *
27861777 GGTGCTAACCCTTCCTCGTGCGTAACTGACTCCCGGACTCAT-TCTT-TCAAATTTCGTAGACCA
1 GGTGCTAACCCTTCCTCGTGCGTAACTGACTCCCGAAC-C-TGTCTTCTCAAATTTCGCAGACCA
27861840 AAATCATTTTTAAGGTGAACCGATCACACCTTA
64 AAATCATTTTTAAGGTGAACCGATCACACCTTA
27861873 ATAAAGGATC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 82 0.94
97 4 0.05
98 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (96 bp):
GGTGCTAACCCTTCCTCGTGCGTAACTGACTCCCGAACCTGTCTTCTCAAATTTCGCAGACCAAA
ATCATTTTTAAGGTGAACCGATCACACCTTA
Found at i:27885733 original size:27 final size:27
Alignment explanation
Indices: 27885700--27885841 Score: 275
Period size: 27 Copynumber: 5.3 Consensus size: 27
27885690 TAAATTGTGC
*
27885700 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27885727 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27885754 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27885781 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27885808 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27885835 AGCACTA
1 AGCACTA
27885842 TTAGGGGTCG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:27892931 original size:27 final size:27
Alignment explanation
Indices: 27892900--27893077 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27892890 TAAATTGTAC
27892900 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27892927 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27892953 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27892981 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27893009 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27893036 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27893063 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27893078 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27893014 original size:82 final size:81
Alignment explanation
Indices: 27892901--27893056 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27892891 AAATTGTACA
* *
27892901 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27892965 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27892982 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27893047 TGCGAGTTGA
65 TGCGAATTGA
27893057 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27893068 original size:82 final size:81
Alignment explanation
Indices: 27892897--27893077 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27892887 GATTAAATTG
* *
27892897 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27892962 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27892978 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27893042 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27893060 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27893078 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27895044 original size:86 final size:83
Alignment explanation
Indices: 27894941--27895101 Score: 198
Period size: 83 Copynumber: 1.9 Consensus size: 83
27894931 TTTTTTTTAT
* * * *
27894941 TTTTAGGGGGGCTAAAGTGAAATTTTACTCTATATATTAA-TTTATAATTTCTTTACTTATAAGA
1 TTTTAAGGGGGCCAAAGTGAAAGTTTAC-C-ATATA-TAATTTTAT-ATTTCTTTACTTATAAAA
*
27895005 GGACTGAATTGAAAACTTTTCA
62 GGACTAAATTGAAAACTTTTCA
* * * *
27895027 TTTTAAGGGGGCCAAAGTGCAAGTTTACCATATATAATTTTATATTTTTTTATTTATAAAATGAC
1 TTTTAAGGGGGCCAAAGTGAAAGTTTACCATATATAATTTTATATTTCTTTACTTATAAAAGGAC
27895092 TAAATTGAAA
66 TAAATTGAAA
27895102 TTTGAAGTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
83 30 0.46
84 10 0.15
85 1 0.02
86 24 0.37
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (83 bp):
TTTTAAGGGGGCCAAAGTGAAAGTTTACCATATATAATTTTATATTTCTTTACTTATAAAAGGAC
TAAATTGAAAACTTTTCA
Found at i:27899251 original size:21 final size:20
Alignment explanation
Indices: 27899202--27899238 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27899192 ATACAAAAGG
27899202 AAAA-TCAAAATAATTTTCA
1 AAAATTCAAAATAATTTTCA
27899221 AAAATTCAAAATAATTTT
1 AAAATTCAAAATAATTTT
27899239 TTAAATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTCAAAATAATTTTCA
Found at i:27899270 original size:19 final size:19
Alignment explanation
Indices: 27899220--27899277 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
27899210 AATAATTTTC
* *
27899220 AAAAATTCAAAATAATTTTT
1 AAAAATTCCAAAT-ATTTAT
* * *
27899240 TAAATTTTCAAATATTTAT
1 AAAAATTCCAAATATTTAT
27899259 AAAAATTCCAAA-ATTTAT
1 AAAAATTCCAAATATTTAT
27899277 A
1 A
27899278 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
18 7 0.23
19 14 0.47
20 9 0.30
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTCCAAATATTTAT
Found at i:27899293 original size:17 final size:17
Alignment explanation
Indices: 27899268--27899306 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
27899258 TAAAAATTCC
* *
27899268 AAAATTTATATTTTTTA
1 AAAAATTATAATTTTTA
27899285 AAAAATTATAATTTTTA
1 AAAAATTATAATTTTTA
27899302 AAAAA
1 AAAAA
27899307 AAATCTAAAG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAAATTATAATTTTTA
Found at i:27899307 original size:18 final size:18
Alignment explanation
Indices: 27899268--27899307 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
27899258 TAAAAATTCC
*
27899268 AAAATTTATATTTTTTAA
1 AAAATTTATATTTTTAAA
27899286 AAAA-TTATAATTTTTAAA
1 AAAATTTAT-ATTTTTAAA
27899304 AAAA
1 AAAA
27899308 AATCTAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTTATATTTTTAAA
Found at i:27902370 original size:11 final size:11
Alignment explanation
Indices: 27902354--27902431 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
27902344 ATTTTTTTAA
27902354 TTTTAAAATAT
1 TTTTAAAATAT
27902365 TTTTAAAATACT
1 TTTTAAAATA-T
***
27902377 TTTT-TTTTAT
1 TTTTAAAATAT
*
27902387 TTTT---TTAT
1 TTTTAAAATAT
27902395 -TTTAAAATAT
1 TTTTAAAATAT
27902405 TTTTAAAATAT
1 TTTTAAAATAT
27902416 TTTTAAAATACT
1 TTTTAAAATA-T
27902428 TTTT
1 TTTT
27902432 TTAATTTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
7 3 0.05
8 4 0.07
10 8 0.14
11 32 0.56
12 10 0.18
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:27902398 original size:40 final size:40
Alignment explanation
Indices: 27902341--27902445 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
27902331 AATAAATGTA
27902341 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
1 TTTATTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTT
*
27902382 TTTATTTTTTT-ATTTTAAAATATTTTTAAAATATTTTTAA
1 TTTATTTTTTTAATTTTAAAATATTTTTAAAATATTTTT-T
**
27902422 AATACTTTTTTTAATTTTAAAATA
1 TTTA-TTTTTTTAATTTTAAAATA
27902446 AATTTTTGGT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
39 5 0.09
40 24 0.41
41 18 0.31
42 11 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTT
Found at i:27911020 original size:31 final size:32
Alignment explanation
Indices: 27910979--27911059 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
27910969 TGATTATCTA
*
27910979 TTTATAATTTTTTAAA-ATATTAA-ATTAAAAT
1 TTTATAA-TTTTTAAATATATTAACATTAAAAC
* *
27911010 TTTATCATTTTTAAATATATTAACTTTAAAAC
1 TTTATAATTTTTAAATATATTAACATTAAAAC
*
27911042 TTTATAAATTTTAAATAT
1 TTTATAATTTTTAAATAT
27911060 TTACCACTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.19
31 13 0.30
32 22 0.51
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTATAATTTTTAAATATATTAACATTAAAAC
Found at i:27911536 original size:26 final size:26
Alignment explanation
Indices: 27911479--27911536 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27911469 ACTGCCTGCC
* *
27911479 CACTGCACCCCTCTGCTGCACAGCCC
1 CACTGCACCCCTCTGCTGCACAGACA
* * *
27911505 CCCTGCGCCCCTCTGCTGCACAGATA
1 CACTGCACCCCTCTGCTGCACAGACA
27911531 CACTGC
1 CACTGC
27911537 TTGGCAGTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.50, G:0.17, T:0.17
Consensus pattern (26 bp):
CACTGCACCCCTCTGCTGCACAGACA
Found at i:27911664 original size:12 final size:13
Alignment explanation
Indices: 27911647--27911699 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 13
27911637 GAAATGAGAG
27911647 AAAAG-AGAAGAA
1 AAAAGAAGAAGAA
27911659 AAAAGAAGAAG-A
1 AAAAGAAGAAGAA
*
27911671 AGAAGAAGAAGAA
1 AAAAGAAGAAGAA
*
27911684 GAAAGAA-AA-AA
1 AAAAGAAGAAGAA
27911695 AAAAG
1 AAAAG
27911700 TAATGTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 6 0.17
12 18 0.51
13 11 0.31
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AAAAGAAGAAGAA
Found at i:27911667 original size:3 final size:3
Alignment explanation
Indices: 27911652--27911686 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
27911642 GAGAGAAAAG
27911652 AGA AGA A-A A-A AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
27911687 AGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:27911680 original size:22 final size:24
Alignment explanation
Indices: 27911626--27911680 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
27911616 GCACCCACCG
27911626 GAAGAGAGAAAGAAATGAGAGAAAA
1 GAAGA-AGAAAGAAATGAGAGAAAA
27911651 G-AGAAGAAA-AAA-GA-AGAAGAA
1 GAAGAAGAAAGAAATGAGAGAA-AA
27911672 GAAGAAGAA
1 GAAGAAGAA
27911681 GAAGAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 10 0.36
23 5 0.18
24 3 0.11
25 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (24 bp):
GAAGAAGAAAGAAATGAGAGAAAA
Found at i:27911953 original size:60 final size:60
Alignment explanation
Indices: 27911860--27911978 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
27911850 TTGTTTTTTA
*
27911860 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTATTATGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTTG
* *
27911920 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTT
27911979 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTTG
Found at i:27912476 original size:103 final size:102
Alignment explanation
Indices: 27912173--27912487 Score: 390
Period size: 103 Copynumber: 3.1 Consensus size: 102
27912163 TTATAGTTAT
* * * * * *
27912173 TTATTTTGTTAATAATTAATGGGATTTGGTTACA-AATTGTTAGTGTTTAGTATAGGGTTTTGTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAATTGTTAGTGTTTAGTTTAGTGTTTTGTG
*
27912237 ATTTTTTAGTAATGTAATTTTTAAAAAAATAA-TTTATAG
64 ATTTTTTA-TAATGTAATTTTTATAAAAATAATTTTATAG
*
27912276 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAG-TTATGTGTTTTGTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAT-AATTGTTAGTGTTTAGTTTA-GTGTTTTGTG
* *
27912340 ATTTTTTAGTAATGT-ATTTTTTTAAAAACAATTTTATAG
64 ATTTTTTA-TAATGTAATTTTTATAAAAATAATTTTATAG
*
27912379 TTATTTTGTTAGTAATTTATGATTAGGTTATATCAATTGTTAGTATTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAT-AATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
** *
27912444 TTTTTT-TAATGTAATTTTTATATAATGTAATTTTAT-T
65 TTTTTTATAATGTAATTTTTATA-AAAATAATTTTATAG
27912481 TTATTTT
1 TTATTTT
27912488 TATTTATTTG
Statistics
Matches: 187, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
101 16 0.09
102 30 0.16
103 138 0.74
104 3 0.02
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.55
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
TTTTTATAATGTAATTTTTATAAAAATAATTTTATAG
Found at i:27914826 original size:77 final size:76
Alignment explanation
Indices: 27914739--27914962 Score: 314
Period size: 71 Copynumber: 3.0 Consensus size: 76
27914729 AATAATTTCA
*
27914739 TATTTATGTAATGAATTTTTTTCCATTTTATTTATCAATTTTATGGGTTTCTTTTGCAATTTAAA
1 TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTT-TTTTGCAATTTAAA
*
27914804 TAGTTAACTTTG
65 TAGTAAACTTTG
27914816 TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTA-----TTTTTTGCAATTTAAAT
1 TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTGCAATTTAAAT
27914876 AGTAAACTTTG
66 AGTAAACTTTG
** * * * *
27914887 TATTTATGTAATGACTTTTTCGCTATTTCAGTTATCAATTTTATGGGTTTTTTTTCAATTTAAAT
1 TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTGCAATTTAAAT
*
27914952 AAATAAACTTT
66 -AGTAAACTTT
27914963 AGACTAACTT
Statistics
Matches: 132, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
71 63 0.48
72 2 0.02
76 16 0.12
77 51 0.39
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (76 bp):
TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTGCAATTTAAAT
AGTAAACTTTG
Found at i:27918115 original size:27 final size:27
Alignment explanation
Indices: 27918058--27918125 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
27918048 TCGCGCTTGT
*** **
27918058 CAGATAGGCTCCACTAGTCTTGCCTGT
1 CAGATAGGCTCCACTAGTCGCACCTAC
27918085 CAGATAGGCTCCACTAGTCGCACCTAC
1 CAGATAGGCTCCACTAGTCGCACCTAC
*
27918112 CAGATAGGCGCCAC
1 CAGATAGGCTCCAC
27918126 CTACCCCCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
CAGATAGGCTCCACTAGTCGCACCTAC
Found at i:27919607 original size:20 final size:19
Alignment explanation
Indices: 27919584--27919669 Score: 68
Period size: 19 Copynumber: 4.2 Consensus size: 19
27919574 TCTCTCAACA
27919584 AAAATTATAAAATAATTTTT
1 AAAATT-TAAAATAATTTTT
*
27919604 AAAAATTCAAAATAA-TTTT
1 -AAAATTTAAAATAATTTTT
*
27919623 AAAATTTTAAAAT-ATTTATA
1 AAAA-TTTAAAATAATTT-TT
27919643 AAAATTTCAAAATTTATATTTTT
1 AAAATTT-AAAA--TA-ATTTTT
27919666 AAAA
1 AAAA
27919670 AATTCTAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
18 5 0.09
19 16 0.30
20 16 0.30
21 6 0.11
22 1 0.02
23 5 0.09
24 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTT
Found at i:27919628 original size:28 final size:29
Alignment explanation
Indices: 27919597--27919657 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
27919587 ATTATAAAAT
*
27919597 AATTTTTAAAA-ATTCA-AAATAATTTTAA
1 AATTTTTAAAATATTCATAAA-AATTTCAA
*
27919625 AA-TTTTAAAATATTTATAAAAATTTCAA
1 AATTTTTAAAATATTCATAAAAATTTCAA
27919653 AATTT
1 AATTT
27919658 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 8 0.29
28 15 0.54
29 5 0.18
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTTTAAAATATTCATAAAAATTTCAA
Found at i:27919644 original size:11 final size:10
Alignment explanation
Indices: 27919583--27919697 Score: 54
Period size: 10 Copynumber: 12.0 Consensus size: 10
27919573 CTCTCTCAAC
27919583 AAAAA-TTAT
1 AAAAATTTAT
*
27919592 AAAATAATTTTT
1 -AAA-AATTTAT
*
27919604 AAAAATTCA-
1 AAAAATTTAT
27919613 AAATAATTT-T
1 AAA-AATTTAT
27919623 -AAAATTT-T
1 AAAAATTTAT
27919631 AAAATATTTAT
1 AAAA-ATTTAT
27919642 AAAAA-TT-T
1 AAAAATTTAT
*
27919650 CAAAATTTAT
1 AAAAATTTAT
**
27919660 --ATTTTTA-
1 AAAAATTTAT
27919667 AAAAATTCTA-
1 AAAAATT-TAT
27919677 AAAAATTTAT
1 AAAAATTTAT
27919687 AAAAAATTTAT
1 -AAAAATTTAT
27919698 GATTTTAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
8 16 0.20
9 17 0.21
10 26 0.32
11 20 0.24
12 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:27921266 original size:12 final size:12
Alignment explanation
Indices: 27921249--27921282 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27921239 AGTTGTTATC
27921249 TTATATATATAT
1 TTATATATATAT
27921261 TTATATATATAT
1 TTATATATATAT
**
27921273 GAATATATAT
1 TTATATATAT
27921283 TCAATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTATATATATAT
Found at i:27922557 original size:19 final size:19
Alignment explanation
Indices: 27922497--27922544 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
27922487 GCACGTAAGT
27922497 GCATACTGGCACACAAAGC
1 GCATACTGGCACACAAAGC
* *
27922516 GCATCCTGGCGCACAAAGC
1 GCATACTGGCACACAAAGC
27922535 GCATACTGGC
1 GCATACTGGC
27922545 TCACGAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.12
Consensus pattern (19 bp):
GCATACTGGCACACAAAGC
Found at i:27923598 original size:13 final size:14
Alignment explanation
Indices: 27923573--27923602 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27923563 TTGTTTAGTT
27923573 TTAATTAAACTTAA
1 TTAATTAAACTTAA
27923587 TTAATT-AACTTAA
1 TTAATTAAACTTAA
27923600 TTA
1 TTA
27923603 TAACCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAATTAAACTTAA
Found at i:27935225 original size:42 final size:40
Alignment explanation
Indices: 27935126--27935281 Score: 116
Period size: 42 Copynumber: 3.7 Consensus size: 40
27935116 TAATGCCAAC
* * * * *
27935126 GTCCCAGACTTGGTCTTACATGTATTCAAATAACGATGCCACT
1 GTCCCAGA-ATGGTCTTACACGAAATCATAT-ACGATGCCA-T
* * *
27935169 GTCCTAGAAGGGTCTTACACGAAATCATATACGATACCGAT
1 GTCCCAGAATGGTCTTACACGAAATCATATACGATGCC-AT
* *
27935210 GTCCCAGACATGGTCTTACACGTAAATC-TCAAATCGATGCCAAC
1 GTCCCAGA-ATGGTCTTACACG-AAATCAT-ATA-CGATGCC-AT
*
27935254 GTCCCAGAAGTGGTCTTACACGATATCA
1 GTCCCAGAA-TGGTCTTACACGAAATCA
27935282 CATTTCAGAA
Statistics
Matches: 91, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 15 0.16
42 30 0.33
43 19 0.21
44 27 0.30
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
GTCCCAGAATGGTCTTACACGAAATCATATACGATGCCAT
Found at i:27936380 original size:13 final size:13
Alignment explanation
Indices: 27936362--27936388 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27936352 CACAAACGAT
27936362 AAAATTTTCACAC
1 AAAATTTTCACAC
27936375 AAAATTTTCACAC
1 AAAATTTTCACAC
27936388 A
1 A
27936389 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:27944313 original size:13 final size:13
Alignment explanation
Indices: 27944295--27944321 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27944285 CACAAACGAT
27944295 AAAATTTTCACAC
1 AAAATTTTCACAC
27944308 AAAATTTTCACAC
1 AAAATTTTCACAC
27944321 A
1 A
27944322 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:27948167 original size:38 final size:38
Alignment explanation
Indices: 27948116--27948243 Score: 184
Period size: 38 Copynumber: 3.4 Consensus size: 38
27948106 AAACAATTAA
* *
27948116 CATGCTTAACATGTTTTCAGTTCAATAGTAGCATTAGG
1 CATGCTTAACATGTATTCAGTTCAATAGTAGCAGTAGG
* *
27948154 CATGCTTAACATGTATTCAGTTCAATAGTAACAGTAGA
1 CATGCTTAACATGTATTCAGTTCAATAGTAGCAGTAGG
* ** *
27948192 TATGCTTAACATGTATTGGGTTCAATAGTAGTAGTAGG
1 CATGCTTAACATGTATTCAGTTCAATAGTAGCAGTAGG
27948230 CATGCTTAACATGT
1 CATGCTTAACATGT
27948244 GTTTGGTAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (38 bp):
CATGCTTAACATGTATTCAGTTCAATAGTAGCAGTAGG
Found at i:27949154 original size:16 final size:16
Alignment explanation
Indices: 27949110--27949152 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
27949100 GAATTATGAT
* * *
27949110 GAAAAGAATAGGAAAA
1 GAAAAGAAAAAGAGAA
27949126 GAAAAGAAAAAGAGAA
1 GAAAAGAAAAAGAGAA
27949142 GAAATAGAAAA
1 GAAA-AGAAAA
27949153 GATGGAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (16 bp):
GAAAAGAAAAAGAGAA
Found at i:27949831 original size:24 final size:24
Alignment explanation
Indices: 27949804--27949849 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
27949794 CGTCATTAAA
27949804 ATTAGAAAAATAGAAAA-TTACTTC
1 ATTAGAAAAAT-GAAAACTTACTTC
27949828 ATTAGAAAAATGAAAACTTACT
1 ATTAGAAAAATGAAAACTTACT
27949850 CATAGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (24 bp):
ATTAGAAAAATGAAAACTTACTTC
Found at i:27952462 original size:50 final size:52
Alignment explanation
Indices: 27952382--27952513 Score: 160
Period size: 56 Copynumber: 2.5 Consensus size: 52
27952372 CCCGAATTAT
* * ** *
27952382 GCCATGTACCAAACATGGTCTTACGGGGGACCTCTC-ATCTC-GGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTCAGATGCCAAC
*
27952432 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--AATCTC-A-GATGCCAAC
27952488 GCCATGTCCCAGACATGGTCTTACAT
1 GCCATGTCCCAGACATGGTCTTACAT
27952514 AGGATCTCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
50 32 0.46
53 5 0.07
56 33 0.47
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (52 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTCAGATGCCAAC
Found at i:27958446 original size:18 final size:18
Alignment explanation
Indices: 27958423--27958478 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
27958413 TTCACCTCCA
27958423 CAACCATCATCCACAGGC
1 CAACCATCATCCACAGGC
* *
27958441 CAACCACCATCCACAGAC
1 CAACCATCATCCACAGGC
* *
27958459 CAACCATCGTCCACAAGC
1 CAACCATCATCCACAGGC
27958477 CA
1 CA
27958479 CCCACCTACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.36, C:0.46, G:0.09, T:0.09
Consensus pattern (18 bp):
CAACCATCATCCACAGGC
Found at i:27964919 original size:15 final size:14
Alignment explanation
Indices: 27964892--27964941 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
27964882 TAATTTTCTT
27964892 AATATTTTATTAAA
1 AATATTTTATTAAA
27964906 AATATTTATATT---
1 AATATTT-TATTAAA
*
27964918 AATATTTTAATAATA
1 AATATTTTATTAA-A
27964933 AATATTTTA
1 AATATTTTA
27964942 CAATTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
11 3 0.10
12 7 0.23
14 7 0.23
15 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATATTTTATTAAA
Found at i:27966707 original size:21 final size:21
Alignment explanation
Indices: 27966683--27966724 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27966673 AATGTTTACT
*
27966683 CATTAAGTTAAAAGTCAAAAC
1 CATTAAGTTAAAAGGCAAAAC
27966704 CATTAAGTTAAAAGGCAAAAC
1 CATTAAGTTAAAAGGCAAAAC
27966725 TACGTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.21
Consensus pattern (21 bp):
CATTAAGTTAAAAGGCAAAAC
Found at i:27966717 original size:67 final size:67
Alignment explanation
Indices: 27966576--27966769 Score: 307
Period size: 67 Copynumber: 2.9 Consensus size: 67
27966566 TCCGAATAAG
* *** **
27966576 AAAAGGCAAAACTATGCCATTTTGATAAATGTTTACCTTTTTTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTA-C-TCATT-AAGTTAAAAGTCAAAACCATT
27966641 AAGTT
63 AAGTT
27966646 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACTCATTAAGTTAAAAGTCAAAACCATTAAG
1 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACTCATTAAGTTAAAAGTCAAAACCATTAAG
27966711 TT
66 TT
27966713 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACTCATTAAGTTAAAAGTCAAAA
1 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACTCATTAAGTTAAAAGTCAAAA
27966770 TTATTATATT
Statistics
Matches: 118, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
67 83 0.70
68 3 0.03
69 1 0.01
70 31 0.26
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (67 bp):
AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACTCATTAAGTTAAAAGTCAAAACCATTAAG
TT
Found at i:27973249 original size:13 final size:13
Alignment explanation
Indices: 27973227--27973257 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27973217 ATTTAAACCA
*
27973227 CACTTTTCAAAAG
1 CACTTCTCAAAAG
27973240 CACTTCTCAAAAG
1 CACTTCTCAAAAG
27973253 CACTT
1 CACTT
27973258 TTCTACGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (13 bp):
CACTTCTCAAAAG
Found at i:27973384 original size:17 final size:19
Alignment explanation
Indices: 27973362--27973402 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
27973352 ATTTAAGTTT
27973362 TAATTTGATA-A-ATTTTA
1 TAATTTGATATATATTTTA
27973379 TAATTT-ATATATATTTTA
1 TAATTTGATATATATTTTA
27973397 -AATTTG
1 TAATTTG
27973403 TATTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 12 0.57
18 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TAATTTGATATATATTTTA
Found at i:27985485 original size:17 final size:17
Alignment explanation
Indices: 27985448--27985485 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27985438 TCCAAATGTG
* *
27985448 CGAGCTCACCAAGACTG
1 CGAGCTCACCAAAACTA
27985465 CGAGCTCACCAAAACTA
1 CGAGCTCACCAAAACTA
27985482 CGAG
1 CGAG
27985486 GTCGCTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.34, G:0.21, T:0.11
Consensus pattern (17 bp):
CGAGCTCACCAAAACTA
Found at i:27989975 original size:125 final size:125
Alignment explanation
Indices: 27989789--27990149 Score: 481
Period size: 126 Copynumber: 2.9 Consensus size: 125
27989779 AGATAAATCA
** * * * * * * *
27989789 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCACCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATCCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
* *
27989854 AGGTCCTGGAAAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * *
27989914 AAGCAGGATCCTTTATGAGAAGACTTTGTGAAATCGCGCTCTCGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATCCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
* * *
27989979 TGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
27990040 AAGCAGGATGCTTTATAAGAATAATTTGTGAAGTCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATCCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
* * * *
27990105 ATGTCCT-GAAAAATAATTTTGAGTTAACGTTTCTGGGCAAATAGT
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
27990150 AAGTTAAGGG
Statistics
Matches: 204, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
124 31 0.15
125 65 0.32
126 108 0.53
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
AAGCAGGATCCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:27990180 original size:22 final size:22
Alignment explanation
Indices: 27990149--27990331 Score: 190
Period size: 22 Copynumber: 8.4 Consensus size: 22
27990139 GGGCAAATAG
27990149 TAAGTTAAGGGTTTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
* * *
27990171 CAATTTAAGGGTTTAGGGTTTA
1 TAAGTTAAGGGTTTAGGGTTTT
* **
27990193 AAAGTTAAAAG-TTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
27990214 TAAGTTAAGGGTTTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
* * * *
27990236 AAAGTTAATGG-CTATGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
* * *
27990257 TAGGTTTAGGGGTTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
*
27990279 TAAATTAAGGGTTTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
* *
27990301 TAGGTTAAGGGTTTAAGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
*
27990323 GTAAATTAA
1 -TAAGTTAA
27990332 ATTATGTATT
Statistics
Matches: 128, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
21 32 0.25
22 90 0.70
23 6 0.05
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (22 bp):
TAAGTTAAGGGTTTAGGGTTTT
Found at i:27990212 original size:43 final size:43
Alignment explanation
Indices: 27990161--27990321 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
27990151 AGTTAAGGGT
*
27990161 TTAGGGTTTTCAATTTAAGGGTTTAGGGTTTAAAAGTTAAAAG
1 TTAGGGTTTTCAAGTTAAGGGTTTAGGGTTTAAAAGTTAAAAG
* * **
27990204 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAATGG
1 TTAGGGTTTTCAAGTTAAGGGTTTAGGGTTTAAAAGTTAAAAG
* * * * * * * **
27990247 CTATGGTTTTTAGGTTTAGGGGTTAGGGTTTTTAAA-TTAAGGG
1 TTAGGGTTTTCAAGTTAAGGGTTTAGGG-TTTAAAAGTTAAAAG
* * *
27990290 TTTAGGGTTTTTAGGTTAAGGGTTTAAGGTTT
1 -TTAGGGTTTTCAAGTTAAGGGTTTAGGGTTT
27990322 TGTAAATTAA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
43 70 0.70
44 30 0.30
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (43 bp):
TTAGGGTTTTCAAGTTAAGGGTTTAGGGTTTAAAAGTTAAAAG
Found at i:27991515 original size:20 final size:20
Alignment explanation
Indices: 27991478--27991515 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27991468 TTTATTTTTA
*
27991478 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
27991498 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
27991516 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:27992507 original size:51 final size:51
Alignment explanation
Indices: 27992452--27992549 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
27992442 AATTATTTAA
*
27992452 AAATAGGGATTTAAGATAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * * *
27992503 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGTAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
27992550 GAGGAACTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.29
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:27992525 original size:11 final size:11
Alignment explanation
Indices: 27992511--27992587 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
27992501 ATAAATATGG
27992511 ATTTGAGAGAA
1 ATTTGAGAGAA
*
27992522 ATTTTGA-AGGA
1 A-TTTGAGAGAA
27992533 ATTTGAGAGTAA
1 ATTTGAGAG-AA
27992545 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
27992556 CTTT-AGAAGAA
1 ATTTGAG-AGAA
*
27992567 A-CTGAGAGGAA
1 ATTTGAGA-GAA
27992578 ATTTGAGAGA
1 ATTTGAGAGA
27992588 GGATTAGTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
10 7 0.14
11 28 0.55
12 16 0.31
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:27992550 original size:33 final size:33
Alignment explanation
Indices: 27992511--27992587 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
27992501 ATAAATATGG
* ** *
27992511 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGTAA
1 ATTTGAGAGAAATTTAGAA-GAAACTGAGAGGAA
*
27992545 A-TTGAGAGGAACTTTAGAAGAAACTGAGAGGAA
1 ATTTGAGA-GAAATTTAGAAGAAACTGAGAGGAA
27992578 ATTTGAGAGA
1 ATTTGAGAGA
27992588 GGATTAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
33 20 0.56
34 16 0.44
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAACTGAGAGGAA
Found at i:27992554 original size:22 final size:21
Alignment explanation
Indices: 27992511--27992587 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 21
27992501 ATAAATATGG
27992511 ATTTGAGAGAAATTTTGA-AGGA
1 ATTTGAGAGAAA--TTGAGAGGA
27992533 ATTTGAGAGTAAATTGAGAGGA
1 ATTTGAGAG-AAATTGAGAGGA
*
27992555 ACTTT-AGAAGAAACTGAGAGGAA
1 A-TTTGAG-AGAAATTGAGAGG-A
27992578 ATTTGAGAGA
1 ATTTGAGAGA
27992588 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
21 4 0.08
22 32 0.67
23 12 0.25
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (21 bp):
ATTTGAGAGAAATTGAGAGGA
Found at i:27993049 original size:17 final size:17
Alignment explanation
Indices: 27992995--27993053 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
27992985 TTATATTTAC
*
27992995 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
* *
27993012 TAAATTTAACATT-TTGTAT
1 T--ATTT-ATATTATTGAAT
27993031 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
27993048 TATTTA
1 TATTTA
27993054 ATCATATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
19 9 0.27
20 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:27995492 original size:18 final size:18
Alignment explanation
Indices: 27995469--27995508 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27995459 TTTTAAATAC
* *
27995469 ATTTATTTCATTTTATTT
1 ATTTATATCATTTTATAT
*
27995487 ATTTATATCTTTTTATAT
1 ATTTATATCATTTTATAT
27995505 ATTT
1 ATTT
27995509 TCGAACTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTATATCATTTTATAT
Done.