Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 6 of 352
Found at i:1845021 original size:45 final size:45
Alignment explanation
Indices: 1844956--1845076 Score: 197
Period size: 45 Copynumber: 2.7 Consensus size: 45
1844946 CTGTTACCGC
* * *
1844956 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATGTTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
1845001 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
1845046 TACTATTACCGTTACCGATTCGGCACTTTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGT
1845077 TACTAAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:1847913 original size:17 final size:17
Alignment explanation
Indices: 1847891--1847924 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1847881 ATCCACTAAT
*
1847891 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1847908 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1847925 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1852542 original size:17 final size:17
Alignment explanation
Indices: 1852520--1852553 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1852510 ATCCACTAAT
*
1852520 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1852537 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1852554 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1863985 original size:132 final size:130
Alignment explanation
Indices: 1863741--1864131 Score: 499
Period size: 132 Copynumber: 3.0 Consensus size: 130
1863731 ATTATTTATT
*
1863741 TAAAAATTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGAAATCGTGCCCTAACAT
1 TAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCG-AATCGTGCCCTAACAT
* * *
1863806 GCTGGGTTGCAAGTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAAAATTTCATTCATATTT
65 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCATTC-TATTT
1863871 TC
129 TC
*
1863873 TAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCCGAATCGTGCCCTAACAT
1 TAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCG-CGAATCGTGCCCTAACAT
* *
1863938 GCTGGGTTACAATTTCTCGTTTGCTCAAAATAATCGAATATCTCTTTAGAA--T--TTC-A--TT
65 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCATTCTATTTT
1863996 C
130 C
* * * * * * * *
1863997 TAAAAACTCTTTAAAACGAAGGAAATGTTCAATGTTTGGCAATTCGGGGAATAGTGCCCTATCGT
1 TAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTC-GCGAATCGTGCCCTAACAT
* * * * * *
1864062 GTTGGGTTGCAATCTCTCGTTTGTTCAAAATAATCGAATATCCCTTTTGAATTTCACTCGTGTTT
65 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCATTC-TATTT
1864127 TC
129 TC
1864129 TAA
1 TAA
1864132 GGCGAGGCAA
Statistics
Matches: 225, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
124 102 0.45
125 1 0.00
126 2 0.01
128 5 0.02
130 1 0.00
132 112 0.50
133 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (130 bp):
TAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGAATCGTGCCCTAACATG
CTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCATTCTATTTTC
Found at i:1864080 original size:124 final size:123
Alignment explanation
Indices: 1863734--1864117 Score: 484
Period size: 124 Copynumber: 3.0 Consensus size: 123
1863724 TTTTATAATT
* *
1863734 ATTT-ATT-TAAAAATTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGAAATCGTG
1 ATTTCATTCTAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTG
* *
1863797 CCCTAACATGCTGGGTTGCAAGTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAAA
66 CCCTAACATGCTGGGTTGCAA-TTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGA
* *
1863856 ATTTCATTCATATTTTCTAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCC
1 A--T--TTC--A--TTCTAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCG
* *
1863921 GAATCGTGCCCTAACATGCTGGGTTACAATTTCTCGTTTGCTCAAAATAATCGAATATCTCTTTA
58 GAATCGTGCCCTAACATGCTGGGTTGCAA-TTCTCGTTTGCTCAAAATAATCGAATATCCCTTTA
1863986 GA
122 GA
* * * * * *
1863988 ATTTCATTCTAAAAACTCTTTAAAACGAAGGAAATGTTCAATGTTTGGCAATTCGGGGAATAGTG
1 ATTTCATTCTAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTG
* * * * *
1864053 CCCTATCGTGTTGGGTTGCAATCTCTCGTTTGTTCAAAATAATCGAATATCCCTTTTGA
66 CCCTAACATGCTGGGTTGCAAT-TCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGA
1864112 ATTTCA
1 ATTTCA
1864118 CTCGTGTTTT
Statistics
Matches: 227, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
122 1 0.00
123 1 0.00
124 108 0.48
126 3 0.01
128 3 0.01
129 1 0.00
130 1 0.00
131 2 0.01
132 107 0.47
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (123 bp):
ATTTCATTCTAAAAATTCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTG
CCCTAACATGCTGGGTTGCAATTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGA
Found at i:1864189 original size:120 final size:120
Alignment explanation
Indices: 1863880--1864189 Score: 331
Period size: 124 Copynumber: 2.5 Consensus size: 120
1863870 TTCTAAAAAT
* * * ** *
1863880 TCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCCGAATCGTGCCCTAAC-ATGCTGGG
1 TCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGAGGAATCGTGCCCT-ACTGTGCTGGG
* * *
1863944 TTACAATTTCTCGTTTGCTCAAAATAATCGAATATCTCTTTAGAATTTCATTCTAAAAAC
65 TTACAATCTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCT----AC
* * * *
1864004 TCTTTAAAACGAAGGAAATGTTCAATGTTTGGCAATTCGGGGAATAGTGCCCTA-TCGTGTTGGG
1 TCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGAGGAATCGTGCCCTACT-GTGCTGGG
* * * *
1864068 TTGCAATCTCTCGTTTGTTCAAAATAATCGAATATCCCTTTTGAATTTCACTCGT-G
65 TTACAATCTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTC-TAC
* ** *
1864124 TTTTCTAAGGCG-AGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGGG
1 TCTT-TAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGAGGAATCGTGCCCTACTGTGCTGGG
1864188 TT
65 TT
1864190 TCGGTTTTTC
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
120 50 0.32
121 6 0.04
123 1 0.01
124 99 0.63
125 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (120 bp):
TCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGAGGAATCGTGCCCTACTGTGCTGGGT
TACAATCTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCTAC
Found at i:1869036 original size:13 final size:14
Alignment explanation
Indices: 1869020--1869061 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
1869010 TTTCAATTTT
1869020 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
1869033 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
1869048 ATTTTACATAATAT
1 ATTTTA-ATAATAT
1869062 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 9 0.38
16 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:1870166 original size:104 final size:104
Alignment explanation
Indices: 1869986--1870193 Score: 308
Period size: 104 Copynumber: 2.0 Consensus size: 104
1869976 TCAAGAATAG
* * * *
1869986 GGGTTACAAAGCTAGCAACTAATGAGAATACAAATCGATATTTTTTAGTTACAAAGGCGCTAATG
1 GGGTTACAAAGCTAACAACTAATGAGAATAAAAATCGATATTTTTTAGTTACAAAGGCACTAACG
*
1870051 ATTCTTTTTATTATGAAAGGATATTGTAGGTGATGGTGA
66 ATTCTTTTTATTATGAAAGGATATTGTAGATGATGGTGA
* * * *
1870090 GGGTTACAAAGCTAACAACTGATGAGAATAAAAATTGATATTTTTTAGTTATAAAGGCATTAACG
1 GGGTTACAAAGCTAACAACTAATGAGAATAAAAATCGATATTTTTTAGTTACAAAGGCACTAACG
* * *
1870155 GTTCTTTTTATTATGAAAGGATTTTGTAGATTATGGTGA
66 ATTCTTTTTATTATGAAAGGATATTGTAGATGATGGTGA
1870194 ATAATGAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 92 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (104 bp):
GGGTTACAAAGCTAACAACTAATGAGAATAAAAATCGATATTTTTTAGTTACAAAGGCACTAACG
ATTCTTTTTATTATGAAAGGATATTGTAGATGATGGTGA
Found at i:1873842 original size:55 final size:56
Alignment explanation
Indices: 1873726--1873848 Score: 144
Period size: 54 Copynumber: 2.2 Consensus size: 56
1873716 GTTTGGGAAG
* * *
1873726 AAGTAAAAG-TTTAGCGGGAAAAACAAAAGGAAAAAAAATCAGGGGATTTTGGGGA
1 AAGTAAAAGTTTTAGCAGAAAAAACAAAAGGAAAAAAAATCAGGGGATTTGGGGGA
* * ** *
1873781 GA-TAAAAGTTTTAG-AGAAAAAGCAAAAGGAAAAAAAATTGGGGGGTTTGGGGGA
1 AAGTAAAAGTTTTAGCAGAAAAAACAAAAGGAAAAAAAATCAGGGGATTTGGGGGA
*
1873835 AAGTAAAATTTTTA
1 AAGTAAAAGTTTTA
1873849 AGGAGAAAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
54 40 0.71
55 16 0.29
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.20
Consensus pattern (56 bp):
AAGTAAAAGTTTTAGCAGAAAAAACAAAAGGAAAAAAAATCAGGGGATTTGGGGGA
Found at i:1880541 original size:21 final size:21
Alignment explanation
Indices: 1880506--1880546 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1880496 AAAAAAAAAC
*
1880506 TAAATTTAAATTATAAATTTTT
1 TAAATTTAAAATAT-AATTTTT
1880528 TAAA-TTAAAATATAATTTT
1 TAAATTTAAAATATAATTTT
1880547 ATGGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATTTAAAATATAATTTTT
Found at i:1890367 original size:16 final size:16
Alignment explanation
Indices: 1890346--1890401 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 16
1890336 TTTATATAAC
1890346 AATTTAATTTTTTAAT
1 AATTTAATTTTTTAAT
*
1890362 AATTTAA--ATTTAA-
1 AATTTAATTTTTTAAT
*
1890375 AATTGAATTTTTTAAT
1 AATTTAATTTTTTAAT
*
1890391 -ACTTAATTTTT
1 AATTTAATTTTT
1890402 CAATTTGTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
15 14 0.44
16 7 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
AATTTAATTTTTTAAT
Found at i:1890406 original size:28 final size:29
Alignment explanation
Indices: 1890344--1890406 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
1890334 CATTTATATA
* *
1890344 ACAATTTAATTTTTTAATAATTTAAATTT
1 ACAATTGAATTTTTTAATAACTTAAATTT
* *
1890373 AAAATTGAATTTTTTAAT-ACTTAATTTT
1 ACAATTGAATTTTTTAATAACTTAAATTT
*
1890401 TCAATT
1 ACAATT
1890407 TGTCAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
ACAATTGAATTTTTTAATAACTTAAATTT
Found at i:1892861 original size:16 final size:16
Alignment explanation
Indices: 1892840--1892872 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1892830 AATAATTAAT
1892840 TATTATTTTAAAATAA
1 TATTATTTTAAAATAA
*
1892856 TATTATTTTAAATTAA
1 TATTATTTTAAAATAA
1892872 T
1 T
1892873 TACATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTTTAAAATAA
Found at i:1892910 original size:29 final size:27
Alignment explanation
Indices: 1892835--1892909 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 27
1892825 AATATAATAA
* *
1892835 TTAATTATTATTTTAAAATAATATTATT
1 TTAATTATTA-CTTAAAATAATATTACT
*
1892863 TTAAATTAATTACATAAAAGTTAA-ATTACT
1 TT-AATT-ATTACTTAAAA--TAATATTACT
1892893 TTAATTATTACTTAAAA
1 TTAATTATTACTTAAAA
1892910 ATTTTATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 12 0.31
29 13 0.33
30 11 0.28
31 3 0.08
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (27 bp):
TTAATTATTACTTAAAATAATATTACT
Found at i:1899244 original size:47 final size:47
Alignment explanation
Indices: 1899190--1899434 Score: 436
Period size: 47 Copynumber: 5.2 Consensus size: 47
1899180 GTTGTAGATG
*
1899190 TAGGACTCTTAATAAAAGTTGTTTTATTATTTTTAGGAGAAGTTAGA
1 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGA
*
1899237 TAGGACTCTTAATAAAAGTTGTTTTATTATTTTTAGGAGAAGTTAGA
1 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGA
*
1899284 TAGGAATCTTAATAAAAGTTTTTTTTATTATTTTTAGGAGAAGTTAGA
1 TAGGACTCTTAATAAAAG-TTTTTTTATTATTTTTAGGAGAAGTTAGA
1899332 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGA
1 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGA
* *
1899379 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTCGGAGAAGTTAGG
1 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGA
1899426 TAGGACTCT
1 TAGGACTCT
1899435 CATGATAAAA
Statistics
Matches: 192, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 147 0.77
48 45 0.23
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (47 bp):
TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGA
Found at i:1899327 original size:95 final size:94
Alignment explanation
Indices: 1899190--1899434 Score: 436
Period size: 95 Copynumber: 2.6 Consensus size: 94
1899180 GTTGTAGATG
*
1899190 TAGGACTCTTAATAAAAGTTGTTTTATTATTTTTAGGAGAAGTTAGATAGGACTCTTAATAAAAG
1 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGATAGGACTCTTAATAAAAG
1899255 TTGTTTTATTATTTTTAGGAGAAGTTAGA
66 TTGTTTTATTATTTTTAGGAGAAGTTAGA
*
1899284 TAGGAATCTTAATAAAAGTTTTTTTTATTATTTTTAGGAGAAGTTAGATAGGACTCTTAATAAAA
1 TAGGACTCTTAATAAAAG-TTTTTTTATTATTTTTAGGAGAAGTTAGATAGGACTCTTAATAAAA
*
1899349 GTTTTTTTATTATTTTTAGGAGAAGTTAGA
65 GTTGTTTTATTATTTTTAGGAGAAGTTAGA
* *
1899379 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTCGGAGAAGTTAGGTAGGACTCT
1 TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGATAGGACTCT
1899435 CATGATAAAA
Statistics
Matches: 144, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 53 0.37
95 91 0.63
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (94 bp):
TAGGACTCTTAATAAAAGTTTTTTTATTATTTTTAGGAGAAGTTAGATAGGACTCTTAATAAAAG
TTGTTTTATTATTTTTAGGAGAAGTTAGA
Found at i:1902967 original size:27 final size:25
Alignment explanation
Indices: 1902909--1902968 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
1902899 GATCCCGACC
*
1902909 TAAATATTTTAAATGAATTTAAATT
1 TAAATATTTTAAATGAATTCAAATT
1902934 TAAAATATTTT-AATGATATATCAAATT
1 T-AAATATTTTAAATGA-AT-TCAAATT
1902961 ATAAATAT
1 -TAAATAT
1902969 AGTATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 6 0.20
26 11 0.37
27 12 0.40
28 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (25 bp):
TAAATATTTTAAATGAATTCAAATT
Found at i:1905752 original size:73 final size:72
Alignment explanation
Indices: 1905633--1905776 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 72
1905623 AAAATAAGAG
* *
1905633 TAAAATTACGAATTTACATCTTCGAAAACCAAAGAATTGTTTTAAATAATGGGTGTGAACATATT
1 TAAAATTACAAATTTACATCTTCAAAAACCAAAGAATTGTTTTAAATAATGGGTGTGAACATA-T
1905698 TTTCCCTC
65 TTTCCCTC
*
1905706 TAAAATTACAAATTTACATCTTTAAAAACCAAAGAATTGTTTTAAATAATGGGTGTGAACATATT
1 TAAAATTACAAATTTACATCTTCAAAAACCAAAGAATTGTTTTAAATAATGGGTGTGAACATATT
1905771 TTCCCT
66 TTCCCT
1905777 TCACCCATAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
72 8 0.12
73 60 0.88
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (72 bp):
TAAAATTACAAATTTACATCTTCAAAAACCAAAGAATTGTTTTAAATAATGGGTGTGAACATATT
TTCCCTC
Found at i:1912979 original size:15 final size:16
Alignment explanation
Indices: 1912928--1913004 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 16
1912918 GATATTCTAG
1912928 TTAATATATATATATATA
1 TTAATATAT-TATAT-TA
*
1912946 TGTAAGTA-ATGATTATTA
1 T-TAA-TATATTA-TATTA
1912964 TTAATAT-TTATATTA
1 TTAATATATTATATTA
*
1912979 -TATTATATTATATTA
1 TTAATATATTATATTA
1912994 TATATATATAT
1 T-TA-ATATAT
1913005 GACAAAGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
14 5 0.11
15 13 0.28
16 4 0.09
17 5 0.11
18 10 0.21
19 8 0.17
20 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (16 bp):
TTAATATATTATATTA
Found at i:1912981 original size:5 final size:5
Alignment explanation
Indices: 1912957--1913002 Score: 56
Period size: 5 Copynumber: 8.4 Consensus size: 5
1912947 GTAAGTAATG
1912957 ATTATT ATTAAT ATTTAT ATTAT ATTAT ATTAT ATTAT ATATAT AT
1 ATTA-T ATT-AT A-TTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT
1913003 ATGACAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 21 0.57
6 13 0.35
7 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:1913079 original size:45 final size:43
Alignment explanation
Indices: 1913013--1913116 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 43
1913003 ATGACAAAGA
1913013 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACA-AAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGC-AAACAAAACAGAAA-AG-GAAGG
* * *
1913059 GAGAAAGAAAGAAACAGAGAGCAAACGAAACAGAGAAGGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAACAAAACAGAAAAGGAAGG
1913102 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
1913117 GAAAAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
43 6 0.12
44 23 0.44
45 17 0.33
46 6 0.12
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (43 bp):
AAGAAAGAAAGAAACAGAGAGCAAACAAAACAGAAAAGGAAGG
Found at i:1916666 original size:47 final size:46
Alignment explanation
Indices: 1916592--1916740 Score: 141
Period size: 47 Copynumber: 3.2 Consensus size: 46
1916582 GGGAGTTTAG
*
1916592 CGTGCTCTCTGAT-TATTAGCACATCAGTGCTCTCTGTTTAGCACAT
1 CGTGCTCTCTGATAT-TTAGCACGTCAGTGCTCTCTGTTTAGCACAT
1916638 CGGTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGAATATTAG--CA-
1 C-GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTG--T-TTAGCACAT
* * *
1916685 C--GCTCTCTGATCA-CTAGCACGTTAGTGCTCTCCGTTTAGCACATT
1 CGTGCTCTCTGAT-ATTTAGCACGTCAGTGCTCTCTGTTTAGCACA-T
*
1916730 TGTGCTCTCTG
1 CGTGCTCTCTG
1916741 TACAGTCCCG
Statistics
Matches: 86, Mismatches: 5, Indels: 23
0.75 0.04 0.20
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 2 0.02
44 28 0.33
45 1 0.01
46 1 0.01
47 41 0.48
48 3 0.03
49 1 0.01
50 4 0.05
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (46 bp):
CGTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACAT
Found at i:1916686 original size:25 final size:24
Alignment explanation
Indices: 1916593--1916685 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 24
1916583 GGAGTTTAGC
1916593 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGA-TATTAGCACATCA
*
1916618 GTGCTCTCTG-T-TTAGCACATCG
1 GTGCTCTCTGATATTAGCACATCA
*
1916640 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATCA
1916665 GTGCTCTCTGAATATTAGCAC
1 GTGCTCTCTG-ATATTAGCAC
1916686 GCTCTCTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
22 20 0.33
23 2 0.03
25 36 0.59
26 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
GTGCTCTCTGATATTAGCACATCA
Found at i:1916702 original size:19 final size:19
Alignment explanation
Indices: 1916667--1916705 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1916657 GCACGTCAGT
*
1916667 GCTCTCTGAATATTAGCAC
1 GCTCTCTGAATACTAGCAC
1916686 GCTCTCTG-ATCACTAGCAC
1 GCTCTCTGAAT-ACTAGCAC
1916705 G
1 G
1916706 TTAGTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (19 bp):
GCTCTCTGAATACTAGCAC
Found at i:1917654 original size:13 final size:13
Alignment explanation
Indices: 1917638--1917665 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1917628 CGATTTCTTC
1917638 TGGGTATTCTATA
1 TGGGTATTCTATA
1917651 TGGGTATTCTATA
1 TGGGTATTCTATA
1917664 TG
1 TG
1917666 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:1917978 original size:12 final size:12
Alignment explanation
Indices: 1917963--1918002 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1917953 TTCTTCTTTT
1917963 GGATTTTCTCTG
1 GGATTTTCTCTG
* * *
1917975 GGATATTCTTTT
1 GGATTTTCTCTG
1917987 GGATTTTCTCTG
1 GGATTTTCTCTG
1917999 GGAT
1 GGAT
1918003 ATCATCGATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (12 bp):
GGATTTTCTCTG
Found at i:1917988 original size:24 final size:24
Alignment explanation
Indices: 1917956--1918004 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1917946 AGTGATATTC
1917956 TTCTTTTGGATTTTCTCTGGGATA
1 TTCTTTTGGATTTTCTCTGGGATA
1917980 TTCTTTTGGATTTTCTCTGGGATA
1 TTCTTTTGGATTTTCTCTGGGATA
1918004 T
1 T
1918005 CATCGATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.55
Consensus pattern (24 bp):
TTCTTTTGGATTTTCTCTGGGATA
Found at i:1919639 original size:5 final size:5
Alignment explanation
Indices: 1919629--1919660 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
1919619 TATTAATATT
1919629 TTATA TTATA TTATA TTATA TTATA TATATA T
1 TTATA TTATA TTATA TTATA TTATA T-TATA T
1919661 GACAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:1919740 original size:40 final size:41
Alignment explanation
Indices: 1919669--1919768 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 41
1919659 ATGACAAAGA
1919669 AAGAAAGAAAAGAAACAGAGAGCAAAAAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGC---AAAAACAAAACAGAGAAGG
* *
1919714 GAGAAAGAAAGAAACAGAGAGC-AAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAAACAAAACAGAGAAGG
*
1919754 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
1919769 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 18 0.36
41 11 0.22
44 15 0.30
45 6 0.12
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (41 bp):
AAGAAAGAAAGAAACAGAGAGCAAAAACAAAACAGAGAAGG
Found at i:1919757 original size:44 final size:44
Alignment explanation
Indices: 1919669--1919772 Score: 131
Period size: 44 Copynumber: 2.3 Consensus size: 44
1919659 ATGACAAAGA
1919669 AAGAAAGAAAAGAAACAGAGAGCAAAAAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAAAAAACAAAACAGAGAAGG
* * *
1919714 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGA-AG-GAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAA-AAAACA-AAACAGAGAAGG
1919758 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
1919773 GAAAAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 25 0.48
45 25 0.48
46 2 0.04
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAGAAACAGAGAGCAAAAAAAACAAAACAGAGAAGG
Found at i:1919775 original size:49 final size:45
Alignment explanation
Indices: 1919667--1919772 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
1919657 ATATGACAAA
*
1919667 GAAAGAAAGAAAAGAAACAGAGAGCAAAAAAAACAAAACAGAGAAG
1 GAAAGAAAG-AAAGAAACAGAGAGCAAAAAAAACAAAAAAGAGAAG
* * * *
1919713 G-GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAG-GAAG
1 GAAAGAAAGAAAGAAACAGAGAGCAAAA-AAAACAAAAAAGAGAAG
*
1919757 GAAGGAAAGAAAGAAA
1 GAAAGAAAGAAAGAAA
1919773 GAAAAGAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
44 24 0.47
45 26 0.51
46 1 0.02
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (45 bp):
GAAAGAAAGAAAGAAACAGAGAGCAAAAAAAACAAAAAAGAGAAG
Found at i:1924805 original size:20 final size:20
Alignment explanation
Indices: 1924780--1924829 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1924770 TGGCTTAAAA
1924780 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1924800 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1924817 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1924830 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1929434 original size:20 final size:20
Alignment explanation
Indices: 1929409--1929458 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1929399 TGGCTTAAAA
1929409 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1929429 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1929446 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1929459 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1951599 original size:8 final size:8
Alignment explanation
Indices: 1951582--1951610 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1951572 TCAGCAAATG
1951582 TTTTTT-T
1 TTTTTTCT
1951589 TTTTTTCT
1 TTTTTTCT
1951597 TTTTTTCT
1 TTTTTTCT
1951605 TTTTTT
1 TTTTTT
1951611 ACGGTGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1953696 original size:146 final size:146
Alignment explanation
Indices: 1953432--1953723 Score: 584
Period size: 146 Copynumber: 2.0 Consensus size: 146
1953422 GTACTACAAT
1953432 ACATTCTTGGCAATATAAAATTGTCTTAACATAGTAGAACACAGATCTGAACTCCAAGCAACCAA
1 ACATTCTTGGCAATATAAAATTGTCTTAACATAGTAGAACACAGATCTGAACTCCAAGCAACCAA
1953497 TAGCACAGTTATATACCATCTTGAAAGACTGACCCCATTTAAACTTCAATGAACGCCTATCACGG
66 TAGCACAGTTATATACCATCTTGAAAGACTGACCCCATTTAAACTTCAATGAACGCCTATCACGG
1953562 TAATTTTAAGACCCTG
131 TAATTTTAAGACCCTG
1953578 ACATTCTTGGCAATATAAAATTGTCTTAACATAGTAGAACACAGATCTGAACTCCAAGCAACCAA
1 ACATTCTTGGCAATATAAAATTGTCTTAACATAGTAGAACACAGATCTGAACTCCAAGCAACCAA
1953643 TAGCACAGTTATATACCATCTTGAAAGACTGACCCCATTTAAACTTCAATGAACGCCTATCACGG
66 TAGCACAGTTATATACCATCTTGAAAGACTGACCCCATTTAAACTTCAATGAACGCCTATCACGG
1953708 TAATTTTAAGACCCTG
131 TAATTTTAAGACCCTG
1953724 CTTCCTATAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (146 bp):
ACATTCTTGGCAATATAAAATTGTCTTAACATAGTAGAACACAGATCTGAACTCCAAGCAACCAA
TAGCACAGTTATATACCATCTTGAAAGACTGACCCCATTTAAACTTCAATGAACGCCTATCACGG
TAATTTTAAGACCCTG
Found at i:1957400 original size:13 final size:13
Alignment explanation
Indices: 1957382--1957412 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1957372 TTTTTTACGT
1957382 TTAAATTAAATTA
1 TTAAATTAAATTA
1957395 TTAAATTAAATTA
1 TTAAATTAAATTA
1957408 TTAAA
1 TTAAA
1957413 GGTAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAATTAAATTA
Found at i:1960587 original size:22 final size:22
Alignment explanation
Indices: 1960562--1960610 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1960552 TTAGTATTTC
*
1960562 TTTTCCCTATAAAATAAAGTAA
1 TTTTACCTATAAAATAAAGTAA
** *
1960584 TTTTATTTTTAAAATAAAGTAA
1 TTTTACCTATAAAATAAAGTAA
1960606 TTTTA
1 TTTTA
1960611 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTACCTATAAAATAAAGTAA
Found at i:1960611 original size:22 final size:22
Alignment explanation
Indices: 1960571--1960622 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1960561 CTTTTCCCTA
*
1960571 TAAAATAAAGTAATTTTATTTT
1 TAAAATAAAGTAATTTTATATT
1960593 TAAAATAAAGTAATTTTATATT
1 TAAAATAAAGTAATTTTATATT
1960615 TAAAATAA
1 TAAAATAA
1960623 TACATAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
TAAAATAAAGTAATTTTATATT
Found at i:1971359 original size:25 final size:26
Alignment explanation
Indices: 1971315--1971365 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
1971305 AATATTTTAG
* *
1971315 AAAGATATAATAATATATTTTTAAAA
1 AAAGACATAATAATAAATTTTTAAAA
1971341 AAAGACAT-ATAATAAATTTTTAAAA
1 AAAGACATAATAATAAATTTTTAAAA
1971366 TTTATTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (26 bp):
AAAGACATAATAATAAATTTTTAAAA
Found at i:1971427 original size:15 final size:16
Alignment explanation
Indices: 1971397--1971430 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1971387 TACTGTTAGT
1971397 ATATTAGATAATATTA
1 ATATTAGATAATATTA
*
1971413 ATATTTGAT-ATATTA
1 ATATTAGATAATATTA
1971428 ATA
1 ATA
1971431 ATATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATATTAGATAATATTA
Found at i:1974947 original size:13 final size:13
Alignment explanation
Indices: 1974929--1974955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1974919 GTTGACTGTT
1974929 TGATATGCATATA
1 TGATATGCATATA
1974942 TGATATGCATATA
1 TGATATGCATATA
1974955 T
1 T
1974956 TGTTGAAATA
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:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TGATATGCATATA
Found at i:1978871 original size:15 final size:15
Alignment explanation
Indices: 1978851--1978879 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1978841 TCTTTGCAAC
1978851 TTATTATAATCAATA
1 TTATTATAATCAATA
1978866 TTATTATAATCAAT
1 TTATTATAATCAAT
1978880 TAGAGCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATTATAATCAATA
Found at i:1982311 original size:33 final size:35
Alignment explanation
Indices: 1982216--1982312 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
1982206 TTAATATTTT
*
1982216 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
1982251 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
1982284 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
1982313 ATATAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:1982327 original size:33 final size:30
Alignment explanation
Indices: 1982251--1982331 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
1982241 ATTTTTAAGC
1982251 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
1982279 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
1982312 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
1982332 GTAATTACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 9 0.21
33 14 0.33
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:1991669 original size:14 final size:14
Alignment explanation
Indices: 1991650--1991677 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1991640 AAAATAAAAC
1991650 CTAAAGCTATTTCG
1 CTAAAGCTATTTCG
1991664 CTAAAGCTATTTCG
1 CTAAAGCTATTTCG
1991678 TGACTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
CTAAAGCTATTTCG
Found at i:1999617 original size:126 final size:126
Alignment explanation
Indices: 1999389--1999629 Score: 392
Period size: 126 Copynumber: 1.9 Consensus size: 126
1999379 ATTTTAGCCT
* * *
1999389 TAAGAGGATATTTGAATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAATACATTAGGGCACGATT
** * *
1999454 CTTCGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAATTTTTGAAAGTGAATTGG
66 CTTCGAATTCTTTAAATACCAAACATTGCCTTCATTTTGAAAAATTTTGAAAGTGAATTGG
* * *
1999515 TAAGAGGATATTCGAATATTCAAGACAAATAAAGAAAGCGAAACCCAATACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAATACATTAGGGCACGATT
1999580 CTTCGAATTCTTTAAATACCAAACATTGCCTTCATTTTGAAAAATTTTGA
66 CTTCGAATTCTTTAAATACCAAACATTGCCTTCATTTTGAAAAATTTTGA
1999630 GAGAAGATCA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 105 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAATACATTAGGGCACGATT
CTTCGAATTCTTTAAATACCAAACATTGCCTTCATTTTGAAAAATTTTGAAAGTGAATTGG
Found at i:2000546 original size:18 final size:18
Alignment explanation
Indices: 2000523--2000595 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
2000513 ATAACAAATA
2000523 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
2000541 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
2000559 ATGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
2000578 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
2000596 ATGGTTTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.07
18 28 0.64
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.26
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:2000574 original size:29 final size:29
Alignment explanation
Indices: 2000541--2000640 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 29
2000531 GAGGTAGTGG
2000541 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
2000570 GGGTGTGGGGGTGATGGAGGTAGTGGATGGTTTAGTA
1 --------GGGTGATGGAGGTAGTGGATGGTTTAGTA
* *
2000607 GGGTGATGGAGTTAGTGG-TCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
2000636 GGGTG
1 GGGTG
2000641 TTTAATTTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.02
29 30 0.50
37 29 0.48
ACGTcount: A:0.16, C:0.01, G:0.52, T:0.31
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:2000587 original size:37 final size:37
Alignment explanation
Indices: 2000537--2000611 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
2000527 GATGGAGGTA
2000537 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
2000574 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
2000611 G
1 G
2000612 ATGGAGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:2002474 original size:46 final size:44
Alignment explanation
Indices: 2002370--2002477 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
2002360 TGTCTTTGAC
** * * *
2002370 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2002414 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2002460 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2002478 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2009856 original size:46 final size:44
Alignment explanation
Indices: 2009752--2009859 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
2009742 TGTCTTTGAC
** * * *
2009752 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2009796 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2009842 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2009860 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2012674 original size:26 final size:26
Alignment explanation
Indices: 2012637--2012687 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2012627 TATTATATAC
* *
2012637 ATTTTAAGCTATTATATGTATTATTT
1 ATTTTAAGCTATCATACGTATTATTT
2012663 ATTTT-AGTCTATCATACGTATTATT
1 ATTTTAAG-CTATCATACGTATTATT
2012688 ACGAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (26 bp):
ATTTTAAGCTATCATACGTATTATTT
Found at i:2013112 original size:15 final size:15
Alignment explanation
Indices: 2013095--2013124 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2013085 ATTTTAAATA
2013095 TTTACATATTATATAT
1 TTTACAT-TTATATAT
2013111 TTTACATTTATATA
1 TTTACATTTATATA
2013125 CATTATGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTACATTTATATAT
Found at i:2015439 original size:14 final size:14
Alignment explanation
Indices: 2015420--2015446 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2015410 TTGTTTAAAT
2015420 AAATCATTATTTTG
1 AAATCATTATTTTG
2015434 AAATCATTATTTT
1 AAATCATTATTTT
2015447 ATTTTACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATCATTATTTTG
Found at i:2017232 original size:131 final size:131
Alignment explanation
Indices: 2016876--2017235 Score: 343
Period size: 131 Copynumber: 2.7 Consensus size: 131
2016866 CGAAGATGAG
* * * * * * *
2016876 ATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTTGA-TTGTT
1 ATTCGATGTTTGGCAATTCG-AGAATCGAGCCCTATCGTGCTGGGTTGCGATTT-TTCATTTGCT
* * * ** * *
2016940 TAAAATAATCAAATATCCCTTCAAAATTTCACTAATGTCTTCTAAAAATATTTTAAAACAAAGGT
64 CAAAACAATCGAATATCCCTTCGGAATTTCACTCATGTCTTCTAAAAATATTTTAAAACAAAGGC
2017005 GAT
129 GAT
* * ** * * ** *
2017008 ACTCGGTGTTTGATAATTCGAGAATC-ATGTCCTATCGTGCTGGGTTGTGATTCCTCGTTTGCTC
1 ATTCGATGTTTGGCAATTCGAGAATCGA-GCCCTATCGTGCTGGGTTGCGATTTTTCATTTGCTC
* * * * *
2017072 AAAACAATCGAATATTCCTTTAGG-TTTTCACTCATGT-TTATTAAAAA-ATTTTCAAAACGAAG
65 AAAACAATCGAATA-TCCCTTCGGAATTTCACTCATGTCTT-CTAAAAATATTTT-AAAACAAAG
2017134 GCGAT
127 GCGAT
* * *
2017139 GTTCGATGTTTGGCAATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTCA
1 ATTCGATGTTTGGCAATTCGAGAATCGAGCCCTATCGTGCTGGGTTGCGATTTTTCATTTGCTCA
*
2017204 AAACAATCGAAGATCCCTTCGGAATTTCACTC
66 AAACAATCGAATATCCCTTCGGAATTTCACTC
2017236 GTATTTTCTA
Statistics
Matches: 177, Mismatches: 44, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
130 15 0.08
131 141 0.80
132 21 0.12
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (131 bp):
ATTCGATGTTTGGCAATTCGAGAATCGAGCCCTATCGTGCTGGGTTGCGATTTTTCATTTGCTCA
AAACAATCGAATATCCCTTCGGAATTTCACTCATGTCTTCTAAAAATATTTTAAAACAAAGGCGA
T
Found at i:2024742 original size:5 final size:5
Alignment explanation
Indices: 2024716--2024770 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
2024706 ATGTGTTAAA
* *
2024716 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATT ATATT ATA-T
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATATT ATATT ATATT
2024767 ATAT
1 ATAT
2024771 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
4 4 0.09
5 31 0.72
6 8 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:2033513 original size:13 final size:11
Alignment explanation
Indices: 2033485--2033527 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
2033475 TAGTTAAAAT
2033485 TATTTTATTAA
1 TATTTTATTAA
2033496 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
2033509 TA-TTTATTAT
1 TATTTTATTAA
2033519 TATTTTATT
1 TATTTTATT
2033528 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:2033516 original size:23 final size:23
Alignment explanation
Indices: 2033488--2033531 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2033478 TTAAAATTAT
2033488 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
2033511 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
2033532 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:2052558 original size:23 final size:23
Alignment explanation
Indices: 2052514--2052558 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2052504 AATTTCTATA
*
2052514 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
2052537 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
2052559 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:2057584 original size:21 final size:21
Alignment explanation
Indices: 2057558--2057598 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2057548 AGACAAGCGA
* *
2057558 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2057579 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2057599 TTGAGCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2072096 original size:63 final size:62
Alignment explanation
Indices: 2071997--2072122 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
2071987 AAAATAAACG
*
2071997 TCACACTCAATAATGAATCTATTCATTTTGGTTTTTTTCTTTTATATCATAAATGATGTGACT
1 TCACACTCAATAATGAATCTATTCATTTTGG-TTTTTTCTTTTATATCATAAATGATATGACT
*
2072060 TCACACTCAATAATGAATCTATTCATTTTTGTTTTTTCTTTTATATCATAAATGATATGACT
1 TCACACTCAATAATGAATCTATTCATTTTGGTTTTTTCTTTTATATCATAAATGATATGACT
2072122 T
1 T
2072123 TTGACCGACA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 31 0.51
63 30 0.49
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.48
Consensus pattern (62 bp):
TCACACTCAATAATGAATCTATTCATTTTGGTTTTTTCTTTTATATCATAAATGATATGACT
Found at i:2075001 original size:12 final size:12
Alignment explanation
Indices: 2074984--2075009 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2074974 TCTATAAACC
2074984 GATTAAAGGGTA
1 GATTAAAGGGTA
2074996 GATTAAAGGGTA
1 GATTAAAGGGTA
2075008 GA
1 GA
2075010 CTTAGTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (12 bp):
GATTAAAGGGTA
Found at i:2078199 original size:20 final size:21
Alignment explanation
Indices: 2078167--2078206 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2078157 TGGGGAAATT
2078167 CAAAATAAATAAT-AATAAAA
1 CAAAATAAATAATAAATAAAA
2078187 CAAAA-AAAGTAATAAATAAA
1 CAAAATAAA-TAATAAATAAA
2078207 TAAATCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 9 0.50
21 6 0.33
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (21 bp):
CAAAATAAATAATAAATAAAA
Found at i:2081766 original size:23 final size:25
Alignment explanation
Indices: 2081726--2081780 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
2081716 AATTATTATT
*
2081726 TAAA-TTTAAATATTGAA-TTTAGA
1 TAAACTTTAAATATAGAATTTTAGA
*
2081749 TAAACTTTAAATA-AGAATTTTATA
1 TAAACTTTAAATATAGAATTTTAGA
2081773 TAAACTTT
1 TAAACTTT
2081781 TTTTTCTACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (25 bp):
TAAACTTTAAATATAGAATTTTAGA
Found at i:2082150 original size:41 final size:41
Alignment explanation
Indices: 2082103--2082187 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
2082093 TGATTTATGC
2082103 TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
1 TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
*
2082144 TATCCCCATTATTGAAAAATTATTCATTAATTAAATTTGGA
1 TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
2082185 TAT
1 TAT
2082188 AATTCTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (41 bp):
TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
Found at i:2083391 original size:29 final size:30
Alignment explanation
Indices: 2083338--2083420 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 30
2083328 GGCCCTAGAG
*
2083338 TTTTTAAAAATTTAATTAGGTCC-TTAAAA
1 TTTTTAAAAATTTAATTAGGACCTTTAAAA
*
2083367 TTTTTAAAAATTCTCATTA-GACCTTTAAAAA
1 TTTTTAAAAATT-TAATTAGGACCTTT-AAAA
***
2083398 TTAAAAAAAAATTTAATTAGGAC
1 TT-TTTAAAAATTTAATTAGGAC
2083421 TCCCAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 15 0.35
30 7 0.16
31 11 0.26
32 10 0.23
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (30 bp):
TTTTTAAAAATTTAATTAGGACCTTTAAAA
Found at i:2092378 original size:49 final size:50
Alignment explanation
Indices: 2092289--2092533 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
2092279 ACTATTGTGA
*
2092289 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * * * * *
2092338 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TGT
* * ** ** *
2092389 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
*
2092439 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-AT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAATGT
* * * *
2092488 GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
2092534 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 79 0.49
50 45 0.28
51 37 0.23
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
Found at i:2094113 original size:92 final size:88
Alignment explanation
Indices: 2093992--2094215 Score: 231
Period size: 93 Copynumber: 2.5 Consensus size: 88
2093982 TTTAAAGGTG
* ** * *
2093992 CAAAAA-GCCCTCAAACTATTTAAAAAAAAAAGCAATTAAGTCCTTTTCTTTTTTTGC-CTTCAT
1 CAAAAAGGCCCTCAAACT-TTT-ACAAAAAAAGCAATTAAG-CCCCTACTTTTTTTGCAC-TCAA
* *
2094055 TTAGGGTACTTGAACTTTTAAAATACAT
62 TT-GAGTACTTGAACTTTCAAAATACAT
*
2094083 CAAAAAGGCCCTCAAACCTTTTCACAAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTCACTCA
1 CAAAAAGGCCCTCAAA-CTTTT-AC---AAAAAAAGCAATTAAGCCCCTACTTTTTTTGCACTCA
*
2094148 ATTGAGTACTTGAACTTTCAAAATGCAT
61 ATTGAGTACTTGAACTTTCAAAATACAT
* *
2094176 CAAAAAGACCCTCAAGC-TTT-CAAAAAAAGCAATTAAGCCC
1 CAAAAAGGCCCTCAAACTTTTACAAAAAAAGCAATTAAGCCC
2094216 AAACTAATTG
Statistics
Matches: 115, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
86 19 0.17
89 1 0.01
91 9 0.08
92 14 0.12
93 38 0.33
94 17 0.15
95 17 0.15
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (88 bp):
CAAAAAGGCCCTCAAACTTTTACAAAAAAAGCAATTAAGCCCCTACTTTTTTTGCACTCAATTGA
GTACTTGAACTTTCAAAATACAT
Found at i:2094164 original size:93 final size:95
Alignment explanation
Indices: 2094013--2094190 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 95
2094003 CAAACTATTT
** * * * *
2094013 AAAAAAAAAAGCAATTAAGTCCTTTTCTTTTTTTGCCTTCATTTAGGGTACTTGAACTTTTAAAA
1 AAAAAAAAAAGCAATTAAGTCCCCTACTTTTTTTGCCTTCAATTAGAGTACTTGAACTTTCAAAA
*
2094078 TACATCAAAAAGGCCCTCAAACCTTTTCAC
66 TACATCAAAAAGACCCTCAAACCTTTTCAC
*
2094108 AAAAAAAAAAGCAATTAAG-CCCCTACTTTTTTTTCAC-TCAATT-GAGTACTTGAACTTTCAAA
1 AAAAAAAAAAGCAATTAAGTCCCCTACTTTTTTTGC-CTTCAATTAGAGTACTTGAACTTTCAAA
*
2094170 ATGCATCAAAAAGACCCTCAA
65 ATACATCAAAAAGACCCTCAA
2094191 GCTTTCAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 36 0.49
94 17 0.23
95 20 0.27
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (95 bp):
AAAAAAAAAAGCAATTAAGTCCCCTACTTTTTTTGCCTTCAATTAGAGTACTTGAACTTTCAAAA
TACATCAAAAAGACCCTCAAACCTTTTCAC
Found at i:2095594 original size:22 final size:21
Alignment explanation
Indices: 2095560--2095603 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2095550 TTGAATAAAA
* *
2095560 TTTATAATTTTATTCATTAAT
1 TTTATAATATTATTAATTAAT
2095581 TTTACTAATATTATTAATTAAT
1 TTTA-TAATATTATTAATTAAT
2095603 T
1 T
2095604 ATAAACTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATAATATTATTAATTAAT
Found at i:2096846 original size:18 final size:18
Alignment explanation
Indices: 2096816--2096895 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 18
2096806 AATATTTTAC
2096816 TTTTTTA-AA-TTATATA
1 TTTTTTATAATTTATATA
2096832 TTTTTTATAATTTATAT-
1 TTTTTTATAATTTATATA
*
2096849 GTTTTTA-AACTTT-TATGA
1 TTTTTTATAA-TTTATAT-A
* *
2096867 ATTTTTATATATTTATTTTA
1 TTTTTTATA-ATTTA-TATA
2096887 TTTTTTATA
1 TTTTTTATA
2096896 TTTTTAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
16 12 0.24
17 11 0.22
18 12 0.24
19 4 0.08
20 10 0.20
21 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTTATAATTTATATA
Found at i:2096881 original size:36 final size:33
Alignment explanation
Indices: 2096817--2096882 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
2096807 ATATTTTACT
*
2096817 TTTTTAAATTATATATTTTTTATAATTTATATG
1 TTTTTAAATTATATAATTTTTATAATTTATATG
*
2096850 TTTTTAAACTTTTATGAATTTTTATATATTTAT
1 TTTTTAAA-TTATAT-AATTTTTATA-ATTTAT
2096883 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.29
34 5 0.18
35 9 0.32
36 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (33 bp):
TTTTTAAATTATATAATTTTTATAATTTATATG
Found at i:2104604 original size:16 final size:15
Alignment explanation
Indices: 2104580--2104613 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2104570 TCAATTCGAT
*
2104580 TTTGCTTTTTGTTGAC
1 TTTGATTTTTGTTG-C
2104596 TTTGATTTTTGTTGC
1 TTTGATTTTTGTTGC
2104611 TTT
1 TTT
2104614 TACTATTCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.06, C:0.09, G:0.18, T:0.68
Consensus pattern (15 bp):
TTTGATTTTTGTTGC
Found at i:2106682 original size:16 final size:17
Alignment explanation
Indices: 2106663--2106695 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2106653 TAATCCTTAT
2106663 TAATTTTAATT-ATATA
1 TAATTTTAATTGATATA
*
2106679 TAATTTTGATTGATATA
1 TAATTTTAATTGATATA
2106696 ATAACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TAATTTTAATTGATATA
Found at i:2116924 original size:2 final size:2
Alignment explanation
Indices: 2116919--2116963 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
2116909 AGAAAAAAGA
* * * *
2116919 AT AT AT AT AC AT AT AC AT AT AT AC AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2116961 AT A
1 AT A
2116964 AATAAACGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:2116940 original size:8 final size:8
Alignment explanation
Indices: 2116919--2116963 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
2116909 AGAAAAAAGA
*
2116919 ATATATAT
1 ATATATAC
*
2116927 ACATATAC
1 ATATATAC
2116935 ATATATAC
1 ATATATAC
2116943 ATATATAC
1 ATATATAC
*
2116951 ATATATAT
1 ATATATAC
2116959 ATATA
1 ATATA
2116964 AATAAACGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATATAC
Found at i:2126048 original size:19 final size:19
Alignment explanation
Indices: 2126016--2126069 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
2126006 TTATGATTTT
**
2126016 TTTATATATTTTTTATAAG
1 TTTATATAAATTTTATAAG
* *
2126035 TTTATATAAATTTTAATGAT
1 TTTATATAAATTTT-ATAAG
2126055 TTTA-ATAAATTTTAT
1 TTTATATAAATTTTAT
2126070 TAACTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.07
19 21 0.70
20 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTATATAAATTTTATAAG
Found at i:2126191 original size:16 final size:19
Alignment explanation
Indices: 2126156--2126195 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
2126146 TAGAAAAAAC
2126156 TATAATTTTACTAGATTTT
1 TATAATTTTACTAGATTTT
2126175 TATAA-TTTA-TA-ATTTT
1 TATAATTTTACTAGATTTT
2126191 TATAA
1 TATAA
2126196 GTTGATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 2 0.10
18 4 0.19
19 5 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAATTTTACTAGATTTT
Found at i:2126192 original size:9 final size:9
Alignment explanation
Indices: 2126156--2126291 Score: 52
Period size: 10 Copynumber: 14.6 Consensus size: 9
2126146 TAGAAAAAAC
2126156 TATAA-TTT
1 TATAATTTT
2126164 TACTAGATTTT
1 TA-TA-ATTTT
2126175 TATAA--TT
1 TATAATTTT
2126182 TATAATTTT
1 TATAATTTT
**
2126191 TATAAGTTGA
1 TATAA-TTTT
2126201 TATCAATTTT
1 TAT-AATTTT
*
2126211 TAT-GTTTT
1 TATAATTTT
*
2126219 TTTAATATGTAT
1 TATAAT-T-T-T
2126231 T-TAATATTT
1 TATAAT-TTT
*
2126240 GATAATTTT
1 TATAATTTT
2126249 CT-T-ATTTT
1 -TATAATTTT
2126257 TATAATTTTTT
1 TATAA--TTTT
*
2126268 TACAATTTT
1 TATAATTTT
*
2126277 TAATTATTTT
1 T-ATAATTTT
2126287 TATAA
1 TATAA
2126292 AAAAATTATA
Statistics
Matches: 97, Mismatches: 13, Indels: 35
0.67 0.09 0.24
Matches are distributed among these distances:
7 8 0.08
8 14 0.14
9 25 0.26
10 26 0.27
11 22 0.23
12 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:2126657 original size:6 final size:7
Alignment explanation
Indices: 2126639--2126665 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2126629 GGGAACCGAG
2126639 TAAAAAA
1 TAAAAAA
2126646 TAAAAAA
1 TAAAAAA
2126653 TAAAAAA
1 TAAAAAA
2126660 TAAAAA
1 TAAAAA
2126666 GGTAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:2131902 original size:16 final size:16
Alignment explanation
Indices: 2131881--2131918 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2131871 AGCTTAACCC
2131881 ATTTTTAAGTTA-ATA
1 ATTTTTAAGTTATATA
*
2131896 ATGTTTTATGTTATATA
1 AT-TTTTAAGTTATATA
2131913 ATTTTT
1 ATTTTT
2131919 TTTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (16 bp):
ATTTTTAAGTTATATA
Found at i:2132035 original size:15 final size:16
Alignment explanation
Indices: 2132017--2132059 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
2132007 TAAAGTGACT
2132017 ATATATAAAATT-TTA
1 ATATATAAAATTATTA
2132032 ATATATAAAATTATTA
1 ATATATAAAATTATTA
*
2132048 A-ATATTAAATTA
1 ATATATAAAATTA
2132060 AAAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATAAAATTATTA
Found at i:2137251 original size:28 final size:28
Alignment explanation
Indices: 2137219--2137272 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2137209 TTTTATGAAC
* * *
2137219 TTTTTATATATTTTTTAAAATTTTAATT
1 TTTTTAAACATTTTTAAAAATTTTAATT
2137247 TTTTTAAACATTTTTAAAAATTTTAA
1 TTTTTAAACATTTTTAAAAATTTTAA
2137273 ATTATTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTAAACATTTTTAAAAATTTTAATT
Found at i:2139532 original size:11 final size:11
Alignment explanation
Indices: 2139516--2139541 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2139506 AGTCTGAAAT
2139516 ATAATAAATAA
1 ATAATAAATAA
2139527 ATAATAAATAA
1 ATAATAAATAA
2139538 ATAA
1 ATAA
2139542 GAACTACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:2144110 original size:18 final size:17
Alignment explanation
Indices: 2144089--2144130 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
2144079 TTGTTTTTAT
2144089 TTTTTTAATATTAATCTC
1 TTTTTTAATATTAAT-TC
* *
2144107 TTTTATAATATTTATTC
1 TTTTTTAATATTAATTC
2144124 TTTTTTA
1 TTTTTTA
2144131 TATAATGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAATATTAATTC
Found at i:2144131 original size:19 final size:18
Alignment explanation
Indices: 2144088--2144132 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
2144078 TTTGTTTTTA
2144088 TTTTTT-TAATATTAATC
1 TTTTTTATAATATTAATC
* *
2144105 TCTTTTATAATATTTATTC
1 TTTTTTATAATA-TTAATC
2144124 TTTTTTATA
1 TTTTTTATA
2144133 TAATGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 5 0.22
19 13 0.57
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTATAATATTAATC
Found at i:2145859 original size:10 final size:10
Alignment explanation
Indices: 2145844--2145868 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2145834 TAAATTTATT
2145844 ATTATAATTA
1 ATTATAATTA
2145854 ATTATAATTA
1 ATTATAATTA
2145864 ATTAT
1 ATTAT
2145869 TATTTATCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTATAATTA
Found at i:2151675 original size:36 final size:37
Alignment explanation
Indices: 2151630--2151711 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
2151620 TAAATTTAAA
*
2151630 ATATTAAATGTA-TGTTTAGAAATAATAT-ATAATAA-
1 ATATGAAATGTATTGTTTA-AAATAATATAATAATAAT
* *
2151665 ATAATGAAATGTATTGTTTAAAATTATTTAATAATAAT
1 AT-ATGAAATGTATTGTTTAAAATAATATAATAATAAT
2151703 ATATGAAAT
1 ATATGAAAT
2151712 ATGTATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 2 0.05
36 16 0.40
37 20 0.50
38 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (37 bp):
ATATGAAATGTATTGTTTAAAATAATATAATAATAAT
Found at i:2152486 original size:43 final size:43
Alignment explanation
Indices: 2152422--2152503 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
2152412 GTAACCTTGC
* **
2152422 AACAAAAAAAAATTAATATTATAATGCATCTAAATTTAACAGT
1 AACAAAAAAAAATTAACATTATAATAAATCTAAATTTAACAGT
* * *
2152465 AACAAAAAAAATTTGACATTATAATAAATTTAAATTTAA
1 AACAAAAAAAAATTAACATTATAATAAATCTAAATTTAA
2152504 AAAAAAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (43 bp):
AACAAAAAAAAATTAACATTATAATAAATCTAAATTTAACAGT
Found at i:2159680 original size:3 final size:3
Alignment explanation
Indices: 2159672--2159700 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2159662 TTCCTTTTAA
2159672 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2159701 TTGTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2161381 original size:30 final size:29
Alignment explanation
Indices: 2161315--2161373 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2161305 AAATTAATAC
*
2161315 ATAATAAAATTATATTTTAATATTTTAAA
1 ATAATAAAATTATAATTTAATATTTTAAA
* *
2161344 ATAATAAAATTTTAATTTAATCTTTTAAA
1 ATAATAAAATTATAATTTAATATTTTAAA
2161373 A
1 A
2161374 ATTATAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAATAAAATTATAATTTAATATTTTAAA
Found at i:2171698 original size:31 final size:31
Alignment explanation
Indices: 2171663--2171723 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
2171653 GTAGCCCTCA
2171663 ACTTTTACATATTATATCAATTTAATCATAT
1 ACTTTTACATATTATATCAATTTAATCATAT
2171694 ACTTTTACATATTATATCAATTTAATCATA
1 ACTTTTACATATTATATCAATTTAATCATA
2171724 CTTTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (31 bp):
ACTTTTACATATTATATCAATTTAATCATAT
Found at i:2171717 original size:17 final size:17
Alignment explanation
Indices: 2171666--2171717 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2171656 GCCCTCAACT
2171666 TTTACATATTATATCAA
1 TTTACATATTATATCAA
*
2171683 TTTA-ATCA-TATA-C-T
1 TTTACAT-ATTATATCAA
2171697 TTTACATATTATATCAA
1 TTTACATATTATATCAA
2171714 TTTA
1 TTTA
2171718 ATCATACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 7 0.25
17 9 0.32
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTACATATTATATCAA
Found at i:2171819 original size:19 final size:20
Alignment explanation
Indices: 2171792--2171845 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
2171782 AAATTCAAAG
2171792 AAATA-TTTAAAAATAAAT-
1 AAATATTTTAAAAATAAATA
* *
2171810 AAATATTTTAAATATATATA
1 AAATATTTTAAAAATAAATA
2171830 AAATAATTTTTAAAAA
1 AAAT-A-TTTTAAAAA
2171846 CATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 11 0.38
20 4 0.14
21 1 0.03
22 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATTTTAAAAATAAATA
Found at i:2171830 original size:23 final size:23
Alignment explanation
Indices: 2171804--2171892 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 23
2171794 ATATTTAAAA
2171804 ATAAATAAATATTTTAAATATAT
1 ATAAATAAATATTTTAAATATAT
* *
2171827 ATAAA-ATAAT-TTTTAAAAACAT
1 ATAAATA-AATATTTTAAATATAT
* *
2171849 AAAAATATATATTTTCAAA-A-AT
1 ATAAATAAATATTTT-AAATATAT
* *
2171871 ATATATTAATAATTTTAAATAT
1 ATAAATAAAT-ATTTTAAATAT
2171893 TTACTATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
22 28 0.55
23 20 0.39
24 3 0.06
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAATAAATATTTTAAATATAT
Found at i:2171835 original size:24 final size:24
Alignment explanation
Indices: 2171806--2171875 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 24
2171796 ATTTAAAAAT
*
2171806 AAATAAATATTTTAAATATATATA
1 AAATAAATATTTTAAAAATATATA
*
2171830 AAAT-AAT-TTTTAAAAACATA-A
1 AAATAAATATTTTAAAAATATATA
*
2171851 AAATATATATTTTCAAAAATATATA
1 AAATAAATATTTT-AAAAATATATA
2171876 TTAATAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.13
22 13 0.34
23 7 0.18
24 12 0.32
25 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATAAATATTTTAAAAATATATA
Found at i:2171948 original size:30 final size:30
Alignment explanation
Indices: 2171912--2171972 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
2171902 ATATTTATTA
* *
2171912 TATTTGTGTT-TATTATTATATTTTTGAATT
1 TATTTGT-TTGTATTAATATATTTTTAAATT
*
2171942 TATTTGTTTGTTTTAATATATTTTTAAATT
1 TATTTGTTTGTATTAATATATTTTTAAATT
2171972 T
1 T
2171973 TATTATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (30 bp):
TATTTGTTTGTATTAATATATTTTTAAATT
Found at i:2174196 original size:7 final size:7
Alignment explanation
Indices: 2174184--2174209 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2174174 GAATTGGGTT
2174184 GAATATA
1 GAATATA
2174191 GAATATA
1 GAATATA
2174198 GAATATA
1 GAATATA
2174205 GAATA
1 GAATA
2174210 AATGTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (7 bp):
GAATATA
Found at i:2180066 original size:19 final size:20
Alignment explanation
Indices: 2180020--2180057 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2180010 TATTACTCAA
2180020 ATTAAAATAGATTAAAACAC
1 ATTAAAATAGATTAAAACAC
*
2180040 ATTTAAATA-ATTAAAACA
1 ATTAAAATAGATTAAAACA
2180058 TGTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (20 bp):
ATTAAAATAGATTAAAACAC
Found at i:2192778 original size:4 final size:4
Alignment explanation
Indices: 2192769--2192800 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2192759 CCTTAGATGC
2192769 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2192801 GTGAATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:2194661 original size:25 final size:24
Alignment explanation
Indices: 2194633--2194686 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
2194623 CTTTGCAATG
2194633 TTATATGTT-GGGATGAAATTAGAAA
1 TTATATGTTAGGGATGAAATT-G-AA
*
2194658 TTAT-TTTTAAGGGATGAAATTGAA
1 TTATATGTT-AGGGATGAAATTGAA
2194682 TTATA
1 TTATA
2194687 ACTTTTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
24 9 0.36
25 5 0.20
26 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (24 bp):
TTATATGTTAGGGATGAAATTGAA
Found at i:2198082 original size:33 final size:33
Alignment explanation
Indices: 2198042--2198107 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2198032 ATTTCATTGC
*
2198042 TGCAATTAAGGACCAACACAGCCTTGCCTAGAT
1 TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
2198075 TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
1 TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
2198108 AAAAAAGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
Found at i:2198469 original size:25 final size:25
Alignment explanation
Indices: 2198435--2198484 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2198425 AGTCACTAAA
2198435 GGTTTTAAAATTAAATATTTTAGTC
1 GGTTTTAAAATTAAATATTTTAGTC
2198460 GGTTTTAAAATTAAATATTTTAGTC
1 GGTTTTAAAATTAAATATTTTAGTC
2198485 CCTTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
GGTTTTAAAATTAAATATTTTAGTC
Found at i:2201915 original size:18 final size:18
Alignment explanation
Indices: 2201865--2201912 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
2201855 AATTAAAACT
2201865 AAAACTAAAATTTATTAAA
1 AAAACT-AAATTTATTAAA
* *
2201884 GAAACTACATTTATTAAA
1 AAAACTAAATTTATTAAA
2201902 AAAAC-AAATTT
1 AAAACTAAATTT
2201913 TATAAGGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAACTAAATTTATTAAA
Found at i:2203653 original size:19 final size:20
Alignment explanation
Indices: 2203631--2203670 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2203621 AATTGTAATG
2203631 TTATATATG-AATTTTGATT
1 TTATATATGAAATTTTGATT
*
2203650 TTATATATGAAATTTTTATT
1 TTATATATGAAATTTTGATT
2203670 T
1 T
2203671 GAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTATATATGAAATTTTGATT
Found at i:2203666 original size:21 final size:18
Alignment explanation
Indices: 2203631--2203670 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
2203621 AATTGTAATG
2203631 TTATATATGAATTTTGATT
1 TTATATATGAATTTT-ATT
2203650 TTATATATGAAATTTTTATT
1 TTATATATG-AA-TTTTATT
2203670 T
1 T
2203671 GAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTATATATGAATTTTATT
Found at i:2203892 original size:29 final size:30
Alignment explanation
Indices: 2203855--2203916 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
2203845 CAATTAAACT
2203855 TTCACGTA-T-ATTATTACACTAAATCAAAA
1 TTCACGTATTAATTA-TACACTAAATCAAAA
* *
2203884 TTCATGTATTAAATTATACATTAAATCAAAA
1 TTCACGTATT-AATTATACACTAAATCAAAA
2203915 TT
1 TT
2203917 TATATCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.25
30 1 0.04
31 16 0.57
32 4 0.14
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (30 bp):
TTCACGTATTAATTATACACTAAATCAAAA
Found at i:2203947 original size:18 final size:18
Alignment explanation
Indices: 2203913--2203945 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2203903 ATTAAATCAA
2203913 AATTTATATCTAGTTTTG
1 AATTTATATCTAGTTTTG
2203931 AATTT-TATCTA-TTTT
1 AATTTATATCTAGTTTT
2203946 TTTCTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (18 bp):
AATTTATATCTAGTTTTG
Found at i:2210209 original size:32 final size:32
Alignment explanation
Indices: 2210173--2210233 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
2210163 TGATAAATCA
*
2210173 TAATTTCTTCAAGGGTTTGTATTAATCAATTC
1 TAATTTCTTCAAGGATTTGTATTAATCAATTC
* *
2210205 TAATTTCTTTAATGATTTGTATTAATCAA
1 TAATTTCTTCAAGGATTTGTATTAATCAA
2210234 CCTCTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (32 bp):
TAATTTCTTCAAGGATTTGTATTAATCAATTC
Found at i:2216166 original size:11 final size:12
Alignment explanation
Indices: 2216142--2216170 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2216132 ACTTAAATGA
2216142 AATTTTTTGAAT
1 AATTTTTTGAAT
2216154 AATTTTTTG-AT
1 AATTTTTTGAAT
2216165 AATTTT
1 AATTTT
2216171 GTAACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (12 bp):
AATTTTTTGAAT
Found at i:2221150 original size:3 final size:3
Alignment explanation
Indices: 2221097--2221137 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
2221087 ATGTGCCCCT
* * *
2221097 CCA CCA CCA CCG CCG CCA CCA CTA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
2221138 TCCAGAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.27, C:0.66, G:0.05, T:0.02
Consensus pattern (3 bp):
CCA
Found at i:2221187 original size:12 final size:12
Alignment explanation
Indices: 2221172--2221321 Score: 53
Period size: 12 Copynumber: 12.8 Consensus size: 12
2221162 ATACCCAGAG
*
2221172 CCACTTCCTCCT
1 CCACTTCCACCT
2221184 CCACTTCCACCT
1 CCACTTCCACCT
2221196 CCA--T--ATCCT
1 CCACTTCCA-CCT
2221205 CCAGC-TCCACCT
1 CCA-CTTCCACCT
** *
2221217 CCACCACCACCA
1 CCACTTCCACCT
* *
2221229 CCACTACCACCA
1 CCACTTCCACCT
* **
2221241 CCTCCACCACCT
1 CCACTTCCACCT
*
2221253 CCA-TGTCCACCA
1 CCACT-TCCACCT
*
2221265 CC-CTTACCAGCT
1 CCACTT-CCACCT
** ** *
2221277 CCACCACCTTCA
1 CCACTTCCACCT
*
2221289 CCACTTCCACTT
1 CCACTTCCACCT
*
2221301 CCACTTCCACTT
1 CCACTTCCACCT
2221313 CCACTTCCA
1 CCACTTCCA
2221322 TATCCTCCAG
Statistics
Matches: 104, Mismatches: 24, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
8 1 0.01
9 6 0.06
10 1 0.01
11 3 0.03
12 91 0.88
13 2 0.02
ACGTcount: A:0.21, C:0.56, G:0.02, T:0.21
Consensus pattern (12 bp):
CCACTTCCACCT
Found at i:2221204 original size:21 final size:21
Alignment explanation
Indices: 2221180--2221219 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2221170 AGCCACTTCC
2221180 TCCTCCA-CTTCCACCTCCATA
1 TCCTCCAGC-TCCACCTCCATA
2221201 TCCTCCAGCTCCACCTCCA
1 TCCTCCAGCTCCACCTCCA
2221220 CCACCACCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.17, C:0.55, G:0.03, T:0.25
Consensus pattern (21 bp):
TCCTCCAGCTCCACCTCCATA
Found at i:2221223 original size:9 final size:9
Alignment explanation
Indices: 2221211--2221255 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
2221201 TCCTCCAGCT
2221211 CCACCTCCA
1 CCACCTCCA
*
2221220 CCACCACCA
1 CCACCTCCA
2221229 CCA-CTACCA
1 CCACCT-CCA
2221238 CCACCTCCA
1 CCACCTCCA
2221247 CCACCTCCA
1 CCACCTCCA
2221256 TGTCCACCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 1 0.03
9 29 0.91
10 2 0.06
ACGTcount: A:0.27, C:0.64, G:0.00, T:0.09
Consensus pattern (9 bp):
CCACCTCCA
Found at i:2221266 original size:3 final size:3
Alignment explanation
Indices: 2221211--2221251 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
2221201 TCCTCCAGCT
* * *
2221211 CCA CCT CCA CCA CCA CCA CCA CTA CCA CCA CCT CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
2221252 TCCATGTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.27, C:0.66, G:0.00, T:0.07
Consensus pattern (3 bp):
CCA
Found at i:2221298 original size:6 final size:6
Alignment explanation
Indices: 2221289--2221321 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2221279 ACCACCTTCA
2221289 CCACTT CCACTT CCACTT CCACTT CCACTT CCA
1 CCACTT CCACTT CCACTT CCACTT CCACTT CCA
2221322 TATCCTCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.52, G:0.00, T:0.30
Consensus pattern (6 bp):
CCACTT
Found at i:2221370 original size:9 final size:9
Alignment explanation
Indices: 2221337--2221378 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2221327 TCCAGCTCCG
2221337 CCTCCACCA
1 CCTCCACCA
*
2221346 CCACCACC-
1 CCTCCACCA
*
2221354 GCTACCACCA
1 CCT-CCACCA
2221364 CCTCCACCA
1 CCTCCACCA
2221373 CCTCCA
1 CCTCCA
2221379 TGTCCACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 24 0.89
10 2 0.07
ACGTcount: A:0.24, C:0.64, G:0.02, T:0.10
Consensus pattern (9 bp):
CCTCCACCA
Found at i:2221537 original size:120 final size:118
Alignment explanation
Indices: 2221097--2221563 Score: 397
Period size: 120 Copynumber: 3.9 Consensus size: 118
2221087 ATGTGCCCCT
* * * * ** * **
2221097 CCACCACCACCGCCGCCACCACTACCACCACCACCACCACCTCCAGAACCACCATTGCCAGAACC
1 CCACCACCACCACCGCCACCACCACCTCCACCACCTCCA--TCCACCACCACCATTACCAGCTCC
* ** * * * *
2221162 A-TACCCAGAGCCACTTCCTCCTCCACTTCCACCTCCATATCCTCCAGCTCCACCT
64 ACCA-CCAGCTCCACTTCCACTTCCACTTCCACTTCCATATCCTCCAGCTCCACCG
* * ** *
2221217 CCACCACCACCACCACTACCACCACCTCCACCACCTCCAT-GTCCACCACCCTTACCAGCTCCAC
1 CCACCACCACCACCGCCACCACCACCTCCACCACCTCCATCCACCACCACCATTACCAGCTCCAC
* * *
2221281 CACCTTCACCACTTCCACTTCCACTTCCACTTCCACTTCCATATCCTCCAGCTCCGCCT
66 CA-C--CA--GC-TCCACTTCCACTTCCACTTCCACTTCCATATCCTCCAGCTCCACCG
*
2221340 CCACCACCACCACCGCTACCACCACCTCCACCACCTCCATGTCCACCACCACCATTACCAGCTCC
1 CCACCACCACCACCGCCACCACCACCTCCACCACCTCCA--TCCACCACCACCATTACCAGCTCC
** *
2221405 ACCACCTTCTCCACTTCCACTTCCGCTTCCACTTCCATATCCTCCAGCTCCACCGG
64 ACCACCAGCTCCACTTCCACTTCCACTTCCACTTCCATATCCTCCAGCTCCACC-G
* * * * * * *
2221461 CACTACCGCCACCTCCGCCACCACC-CTTACCTCCACCTCCA-CCACCTCCTCCATTTCCAGCTC
1 C-C-ACCACCACCACCGCCACCACCACCT-CCACCACCTCCATCCACCACCACCATTACCAGCTC
* * *
2221524 CACTACCAGCTCCACCT-C-CTTCACCACCTCCACTTCCATA
63 CACCACCAGCTCCACTTCCACTT--CCACTTCCACTTCCATA
2221564 CCCAGAAGCT
Statistics
Matches: 287, Mismatches: 45, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
117 15 0.05
118 7 0.02
119 1 0.00
120 125 0.44
121 2 0.01
122 3 0.01
123 109 0.38
125 2 0.01
126 23 0.08
ACGTcount: A:0.22, C:0.55, G:0.05, T:0.18
Consensus pattern (118 bp):
CCACCACCACCACCGCCACCACCACCTCCACCACCTCCATCCACCACCACCATTACCAGCTCCAC
CACCAGCTCCACTTCCACTTCCACTTCCACTTCCATATCCTCCAGCTCCACCG
Found at i:2221656 original size:129 final size:129
Alignment explanation
Indices: 2221506--2221746 Score: 401
Period size: 129 Copynumber: 1.9 Consensus size: 129
2221496 CCTCCACCAC
* * *
2221506 CTCCTCCATTTCCAGCTCCACTACCAGCTCCACCTCCTTCACCACCTCCACTTCCATACCCAGAA
1 CTCCTCCATATCCAGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATACCCAGAA
* *
2221571 GCTCCACCTGCACTACCTCCGCCACCACCATTACCACCACCTCCTCCTCCTCCATGTCCACCTG
66 GCTCCACCTGCACTACCTCCGCCACCACCACTACCACCACCACCTCCTCCTCCATGTCCACCTG
* *
2221635 CTCCTCCATATCCGGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATATCCAGAA
1 CTCCTCCATATCCAGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATACCCAGAA
* *
2221700 GCTCCACCTGCACTACCTCCGCCTCCACCACTACCACTACCACCTCC
66 GCTCCACCTGCACTACCTCCGCCACCACCACTACCACCACCACCTCC
2221747 ATGTCCACCA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 103 1.00
ACGTcount: A:0.21, C:0.52, G:0.06, T:0.21
Consensus pattern (129 bp):
CTCCTCCATATCCAGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATACCCAGAA
GCTCCACCTGCACTACCTCCGCCACCACCACTACCACCACCACCTCCTCCTCCATGTCCACCTG
Found at i:2221778 original size:42 final size:42
Alignment explanation
Indices: 2221732--2221813 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
2221722 CTCCACCACT
* * * *
2221732 ACCACTACCACCTCCA-TGTCCACCAGCACCTCCATTTCCAAC
1 ACCACCACCACCTCCACT-ACCACCACCACCTCCATATCCAAC
**
2221774 ACCACCACCTTCTCCACTACCACCACCACCTCCATATCCA
1 ACCACCACCACCTCCACTACCACCACCACCTCCATATCCA
2221814 GCACTAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.27, C:0.52, G:0.02, T:0.18
Consensus pattern (42 bp):
ACCACCACCACCTCCACTACCACCACCACCTCCATATCCAAC
Done.