Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 401 of 427
Found at i:116313165 original size:13 final size:13
Alignment explanation
Indices: 116313149--116313176 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
116313139 AGAAAAAACC
116313149 TACGGAAGAGAAA
1 TACGGAAGAGAAA
116313162 TACGGAAGAGAAA
1 TACGGAAGAGAAA
116313175 TA
1 TA
116313177 AAGGAAACAA
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:0.54, C:0.07, G:0.29, T:0.11
Consensus pattern (13 bp):
TACGGAAGAGAAA
Found at i:116317924 original size:2 final size:2
Alignment explanation
Indices: 116317917--116317949 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
116317907 TATAAGTATC
116317917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116317950 CATAGAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116325497 original size:205 final size:205
Alignment explanation
Indices: 116325145--116325548 Score: 808
Period size: 205 Copynumber: 2.0 Consensus size: 205
116325135 AGGTGCTAAG
116325145 ATTGTTTTCTATGCTTTTCTTTGCATTGCCTTTAGAAGTTGAAGCTTAAAAGGAGGAAAAGAAAA
1 ATTGTTTTCTATGCTTTTCTTTGCATTGCCTTTAGAAGTTGAAGCTTAAAAGGAGGAAAAGAAAA
116325210 AGAAAATAAGGTTTGTTAAGTCACAATAAAGTATAATATAAACAGGCATGCAATTTCTCGCATAA
66 AGAAAATAAGGTTTGTTAAGTCACAATAAAGTATAATATAAACAGGCATGCAATTTCTCGCATAA
116325275 CCAAAGTGATAAAGAGTAGAAACTTCAGTTGCTCATACAAATGCAAAGAGAATTGAAGGATGTTG
131 CCAAAGTGATAAAGAGTAGAAACTTCAGTTGCTCATACAAATGCAAAGAGAATTGAAGGATGTTG
116325340 TCAAAGGTGC
196 TCAAAGGTGC
116325350 ATTGTTTTCTATGCTTTTCTTTGCATTGCCTTTAGAAGTTGAAGCTTAAAAGGAGGAAAAGAAAA
1 ATTGTTTTCTATGCTTTTCTTTGCATTGCCTTTAGAAGTTGAAGCTTAAAAGGAGGAAAAGAAAA
116325415 AGAAAATAAGGTTTGTTAAGTCACAATAAAGTATAATATAAACAGGCATGCAATTTCTCGCATAA
66 AGAAAATAAGGTTTGTTAAGTCACAATAAAGTATAATATAAACAGGCATGCAATTTCTCGCATAA
116325480 CCAAAGTGATAAAGAGTAGAAACTTCAGTTGCTCATACAAATGCAAAGAGAATTGAAGGATGTTG
131 CCAAAGTGATAAAGAGTAGAAACTTCAGTTGCTCATACAAATGCAAAGAGAATTGAAGGATGTTG
116325545 TCAA
196 TCAA
116325549 CGTTATATCT
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 199 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (205 bp):
ATTGTTTTCTATGCTTTTCTTTGCATTGCCTTTAGAAGTTGAAGCTTAAAAGGAGGAAAAGAAAA
AGAAAATAAGGTTTGTTAAGTCACAATAAAGTATAATATAAACAGGCATGCAATTTCTCGCATAA
CCAAAGTGATAAAGAGTAGAAACTTCAGTTGCTCATACAAATGCAAAGAGAATTGAAGGATGTTG
TCAAAGGTGC
Found at i:116333269 original size:61 final size:61
Alignment explanation
Indices: 116333190--116333305 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
116333180 TTTTTAAATT
* * * * *
116333190 TTTAGAGTTAAGACTAAATTGATAGATTTTGTAAATATTGAAGG-TCAAATTTATTTATTTA
1 TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATTGAAGGCT-AAATTTATTTATTTA
* *
116333251 TTTAGAATTAAAATTAAATTGACAAATTTTGTAAACATTGATGGCTAAATTTATT
1 TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATTGAAGGCTAAATTTATT
116333306 AAATATTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 46 0.98
62 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (61 bp):
TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATTGAAGGCTAAATTTATTTATTTA
Found at i:116333956 original size:9 final size:9
Alignment explanation
Indices: 116333942--116333971 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
116333932 TTCTTTCAGA
116333942 AAAAAAAAG
1 AAAAAAAAG
116333951 AAAAAAAAG
1 AAAAAAAAG
*
116333960 AAAAACAAG
1 AAAAAAAAG
116333969 AAA
1 AAA
116333972 CAAGAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:116339832 original size:19 final size:19
Alignment explanation
Indices: 116339795--116339861 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
116339785 ATTTTAAATT
*
116339795 AAAAATATTAATTACTATA
1 AAAAATATTAATTATTATA
*
116339814 AAAAATATTAATTTTTATA
1 AAAAATATTAATTATTATA
*
116339833 GTTTAAAAATATTAATTGTTATA
1 ----AAAAATATTAATTATTATA
116339856 AAAAAT
1 AAAAAT
116339862 TATCAGTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 23 0.56
23 18 0.44
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAAATATTAATTATTATA
Found at i:116345621 original size:26 final size:25
Alignment explanation
Indices: 116345575--116345623 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
116345565 AGATGCTTTT
*
116345575 AAGTAAAAACAAAGGTTATTTATTA
1 AAGTAAAAACAAAGGTAATTTATTA
116345600 AAGTAAAAACACAAGCG-AATTTAT
1 AAGTAAAAACA-AAG-GTAATTTAT
116345624 CCCTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 9 0.43
27 1 0.05
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (25 bp):
AAGTAAAAACAAAGGTAATTTATTA
Found at i:116348689 original size:54 final size:54
Alignment explanation
Indices: 116348607--116348729 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
116348597 TGGGTCATGT
116348607 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
1 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
*
116348661 CAAGTCCTGCATGGACAATATTGTGAAAGAATCATGCCAGGATTGTGGTAACGA
1 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
* *
116348715 AAAGT-TTGCATGGAC
1 CAAGTCCTGCATGGAC
116348730 TTACACCTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 9 0.14
54 57 0.86
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (54 bp):
CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
Found at i:116357970 original size:15 final size:15
Alignment explanation
Indices: 116357950--116357980 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
116357940 GACCCCAATC
116357950 AAATTCAAAAATCAA
1 AAATTCAAAAATCAA
116357965 AAATTCAAAAATCAA
1 AAATTCAAAAATCAA
116357980 A
1 A
116357981 TTACCTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATTCAAAAATCAA
Found at i:116367166 original size:53 final size:53
Alignment explanation
Indices: 116367085--116367235 Score: 212
Period size: 53 Copynumber: 2.8 Consensus size: 53
116367075 CTTACACGGT
* * *
116367085 TCACATATCATACCGAAGCCATATCCCAGATATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
*
116367140 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
116367193 TCACATTGCACCGATGCCATAGCCCATCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
116367236 GCACACTTGT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 81 0.92
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:116368848 original size:34 final size:34
Alignment explanation
Indices: 116368807--116368875 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
116368797 ATTTATGAAA
116368807 TTTTTAGTACAATATTTGTTTTTTTTTTGCACAT
1 TTTTTAGTACAATATTTGTTTTTTTTTTGCACAT
116368841 TTTTTAGTACAATATTTGTTTTTTTTTTGCACAT
1 TTTTTAGTACAATATTTGTTTTTTTTTTGCACAT
116368875 T
1 T
116368876 GGAAAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (34 bp):
TTTTTAGTACAATATTTGTTTTTTTTTTGCACAT
Found at i:116368887 original size:32 final size:34
Alignment explanation
Indices: 116368812--116368889 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
116368802 TGAAATTTTT
****
116368812 AGTACAATATTTGTTTTTTTTTTGCACATTTTTT
1 AGTACAATATTTGTTTTTTTTTTGCACATTGGAA
116368846 AGTACAATATTTGTTTTTTTTTTGCACATTGGAA
1 AGTACAATATTTGTTTTTTTTTTGCACATTGGAA
116368880 AG-A-AATATTT
1 AGTACAATATTT
116368890 AATTTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 7 0.17
33 1 0.03
34 32 0.80
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.54
Consensus pattern (34 bp):
AGTACAATATTTGTTTTTTTTTTGCACATTGGAA
Found at i:116369720 original size:18 final size:18
Alignment explanation
Indices: 116369693--116369728 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
116369683 ACAACATTTG
* *
116369693 TATAATATTATTGAAATA
1 TATAAAATTATTAAAATA
116369711 TATAAAATTATTAAAATA
1 TATAAAATTATTAAAATA
116369729 AAACTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATAAAATTATTAAAATA
Found at i:116378703 original size:9 final size:9
Alignment explanation
Indices: 116378689--116378717 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
116378679 TATATATATA
116378689 TTTACTTTT
1 TTTACTTTT
116378698 TTTAC-TTT
1 TTTACTTTT
116378706 TTTACTTTT
1 TTTACTTTT
116378715 TTT
1 TTT
116378718 CTTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTACTTTT
Found at i:116378811 original size:18 final size:17
Alignment explanation
Indices: 116378760--116378807 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
116378750 TTTTTTAAGT
*
116378760 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
116378778 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
116378796 TTTATATTATTA
1 TTTATATTATTA
116378808 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:116378866 original size:21 final size:22
Alignment explanation
Indices: 116378837--116378882 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
116378827 TATATATTTA
116378837 AAATGTTTTATAATATT-TTTTT
1 AAATGTTTTA-AATATTATTTTT
*
116378859 AAAT-TTTTAATTATTATTTTT
1 AAATGTTTTAAATATTATTTTT
116378880 AAA
1 AAA
116378883 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATGTTTTAAATATTATTTTT
Found at i:116378885 original size:23 final size:24
Alignment explanation
Indices: 116378796--116378890 Score: 74
Period size: 23 Copynumber: 4.1 Consensus size: 24
116378786 ACTTATTTAA
* * *
116378796 TTTATATTATTAATTTTAAAAAAG
1 TTTATATTATTATTTTTAAAATAT
* * * *
116378820 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAATAT
*
116378843 TTTATAATATT-TTTTT-AAAT-T
1 TTTATATTATTATTTTTAAAATAT
116378864 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
116378888 TTT
1 TTT
116378891 TTAACTTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
20 5 0.09
21 10 0.18
22 4 0.07
23 25 0.45
24 12 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:116379657 original size:10 final size:10
Alignment explanation
Indices: 116379639--116379702 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
116379629 TAAAATTTAA
116379639 AAAAT-ATTT
1 AAAATCATTT
116379648 AAAATCATTT
1 AAAATCATTT
*
116379658 AAAAT-ATTAA
1 AAAATCATT-T
*
116379668 AAAATTATTT
1 AAAATCATTT
*
116379678 TAAATCATTT
1 AAAATCATTT
*
116379688 TAAATCATTT
1 AAAATCATTT
*
116379698 TAAAT
1 AAAAT
116379703 GTTTTATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 8 0.17
10 37 0.77
11 3 0.06
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATCATTT
Found at i:116379671 original size:30 final size:28
Alignment explanation
Indices: 116379629--116379692 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 28
116379619 AAATTCTATG
116379629 TAAAATTTAAAAAATATTTAAAATCATT
1 TAAAATTTAAAAAATATTTAAAATCATT
*
116379657 TAAAATATTAAAAAATTATTTTAAATCATT
1 TAAAAT-TTAAAAAA-TATTTAAAATCATT
*
116379687 TTAAAT
1 TAAAAT
116379693 CATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 6 0.19
29 8 0.25
30 18 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTAAAATCATT
Found at i:116379755 original size:31 final size:34
Alignment explanation
Indices: 116379708--116379796 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
116379698 TAAATGTTTT
116379708 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
116379740 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
*
116379774 A-ATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
116379797 AAAATACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 12 0.25
34 13 0.27
35 2 0.04
36 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:116379787 original size:13 final size:13
Alignment explanation
Indices: 116379761--116379802 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
116379751 ATATATTTTT
116379761 AATATTTATAAAA
1 AATATTTATAAAA
116379774 AATATATTATAAAA
1 AATAT-TTATAAAA
*
116379788 CAT-TTT-TAAAA
1 AATATTTATAAAA
116379799 AATA
1 AATA
116379803 CATTTCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTATAAAA
Found at i:116381670 original size:19 final size:18
Alignment explanation
Indices: 116381626--116381677 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 18
116381616 AATAATAAAA
116381626 ATATATATTT-AA--TAT
1 ATATATATTTAAATTTAT
*
116381641 ATATATTTTTAAAATTTAT
1 ATATATATTT-AAATTTAT
*
116381660 ATTTATATTTAAATTTAT
1 ATATATATTTAAATTTAT
116381678 TAATAGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 9 0.30
17 2 0.07
18 8 0.27
19 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATATTTAAATTTAT
Found at i:116381859 original size:23 final size:23
Alignment explanation
Indices: 116381801--116381859 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
116381791 AATAATACTT
* * *
116381801 AAAA-TTTTAAAAAATATATTAT
1 AAAATTTTTAAAATATACATTAC
116381823 AAAATATTTT-AAATATACATTAC
1 AAAAT-TTTTAAAATATACATTAC
116381846 AAAATTTTTAAAAT
1 AAAATTTTTAAAAT
116381860 TAATAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 19 0.61
24 4 0.13
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTTTTAAAATATACATTAC
Found at i:116381870 original size:21 final size:22
Alignment explanation
Indices: 116381800--116381871 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 22
116381790 AAATAATACT
* * *
116381800 TAAAATTTTAAAAAATATATTA
1 TAAAATTTTTAAAATTACATTA
116381822 TAAAATATTTT-AAATATACATTA
1 TAAAAT-TTTTAAAAT-TACATTA
* *
116381845 CAAAATTTTTAAAATTA-ATAA
1 TAAAATTTTTAAAATTACATTA
116381866 TAAAAT
1 TAAAAT
116381872 AAATAAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 8 0.20
22 15 0.37
23 18 0.44
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAATTTTTAAAATTACATTA
Found at i:116381885 original size:13 final size:12
Alignment explanation
Indices: 116381855--116381905 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
116381845 CAAAATTTTT
* *
116381855 AAAATTAATAAT
1 AAAATAAATAAA
116381867 AAAATAAATAAA
1 AAAATAAATAAA
116381879 CAAAATAAAATAAGA
1 -AAAAT-AAATAA-A
116381894 AAAA-AAATAAA
1 AAAATAAATAAA
116381905 A
1 A
116381906 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 2 0.06
12 16 0.47
13 5 0.15
14 10 0.29
15 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:116381915 original size:17 final size:17
Alignment explanation
Indices: 116381864--116381906 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
116381854 TAAAATTAAT
116381864 AATAAAATAA-ATAAACAA
1 AATAAAATAAGA-AAA-AA
116381882 AATAAAATAAGAAAAAA
1 AATAAAATAAGAAAAAA
116381899 AATAAAAT
1 AATAAAAT
116381907 TTAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 13 0.54
19 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (17 bp):
AATAAAATAAGAAAAAA
Found at i:116381981 original size:27 final size:28
Alignment explanation
Indices: 116381951--116382014 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
116381941 TTTAAAAAAA
* * *
116381951 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTTCTTAAATG
*
116381978 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
116382005 TATTTAAAAA
1 TATTTAAAAA
116382015 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:116382022 original size:26 final size:26
Alignment explanation
Indices: 116381951--116382016 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
116381941 TTTAAAAAAA
* *
116381951 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
116381978 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
116382004 GTATTTAAAAATT
1 -TATTTAAAAATT
116382017 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:116382220 original size:20 final size:19
Alignment explanation
Indices: 116382192--116382235 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
116382182 ATAAAATAAT
*
116382192 ATTTAATATATATTTTTTAA
1 ATTTAATATATA-TATTTAA
* *
116382212 ATTTTATATTTATATTTAA
1 ATTTAATATATATATTTAA
116382231 ATTTA
1 ATTTA
116382236 TTAATAGTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTAATATATATATTTAA
Found at i:116382281 original size:2 final size:2
Alignment explanation
Indices: 116382270--116382301 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
116382260 TGTGACTAGT
116382270 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116382302 TAATTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116382510 original size:37 final size:37
Alignment explanation
Indices: 116382434--116382510 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
116382424 TAATAATTTC
* * * *
116382434 AAAACTAATTTGAAAAATATATTTTTAAAATTTATAA
1 AAAACTAATTTCAAAAATATATATATAAAAGTTATAA
* *
116382471 AAAATTAATTTCACAAATATATATATATAAAGTTA-AA
1 AAAACTAATTTCAAAAATATATATATA-AAAGTTATAA
116382508 AAA
1 AAA
116382511 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
37 27 0.82
38 6 0.18
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (37 bp):
AAAACTAATTTCAAAAATATATATATAAAAGTTATAA
Found at i:116382560 original size:22 final size:21
Alignment explanation
Indices: 116382515--116382555 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
116382505 AAAAAATATT
116382515 TTTAAAAATAATAATTAAAAA
1 TTTAAAAATAATAATTAAAAA
116382536 TTTAAAAA-AAT-ATTATAAAA
1 TTTAAAAATAATAATTA-AAAA
116382556 CATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAATAATAATTAAAAA
Found at i:116382562 original size:23 final size:22
Alignment explanation
Indices: 116382514--116382587 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
116382504 TAAAAAATAT
*
116382514 TTTTAAAAATAATAAT-TAAAAA
1 TTTTAAAAA-AATATTATAAAAA
116382536 -TTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAA-A
* * * **
116382558 TTTTAAATATATATTACAAATT
1 TTTTAAAAAAATATTATAAAAA
116382580 TTTTAAAA
1 TTTTAAAA
116382588 TTAATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.12
21 13 0.31
22 8 0.19
23 16 0.38
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAATATTATAAAAA
Found at i:116382630 original size:36 final size:37
Alignment explanation
Indices: 116382590--116382663 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
116382580 TTTTAAAATT
*
116382590 AATAATAT-AAA-TTAAATAAGGAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAA-AAAGAAAA-AAATCTAAGAA
116382626 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
116382663 A
1 A
116382664 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 17 0.50
38 5 0.15
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.22
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:116382635 original size:18 final size:18
Alignment explanation
Indices: 116382585--116382636 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
116382575 AAATTTTTTA
*
116382585 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
116382603 AAATAAGGAAAATAAATT
1 AAATAAATAATATAAATT
116382621 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
116382637 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:116382693 original size:9 final size:9
Alignment explanation
Indices: 116382679--116382711 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
116382669 AAAATATAAG
116382679 AAAAAAAGT
1 AAAAAAAGT
116382688 -AAAAAAGT
1 AAAAAAAGT
116382696 AAAAAAAGT
1 AAAAAAAGT
116382705 AAAAAAA
1 AAAAAAA
116382712 AAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:116382699 original size:7 final size:8
Alignment explanation
Indices: 116382680--116382710 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
116382670 AAATATAAGA
116382680 AAAAAAGT
1 AAAAAAGT
116382688 AAAAAAGT
1 AAAAAAGT
116382696 AAAAAAAGT
1 -AAAAAAGT
116382705 AAAAAA
1 AAAAAA
116382711 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:116382716 original size:17 final size:17
Alignment explanation
Indices: 116382679--116382717 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
116382669 AAAATATAAG
**
116382679 AAAAAAAGTAAAAAAGT
1 AAAAAAAGTAAAAAAAA
116382696 AAAAAAAGTAAAAAAAA
1 AAAAAAAGTAAAAAAAA
116382713 AAAAA
1 AAAAA
116382718 TATAAGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAAGTAAAAAAAA
Found at i:116384283 original size:4 final size:4
Alignment explanation
Indices: 116384265--116384297 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
116384255 GAAGTGGAAG
*
116384265 AGAA TGAA A-AA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
116384298 TTAAAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (4 bp):
AGAA
Found at i:116386619 original size:164 final size:163
Alignment explanation
Indices: 116386348--116386668 Score: 543
Period size: 164 Copynumber: 2.0 Consensus size: 163
116386338 TTGTTTTCCT
* * * *
116386348 ATAATTTTAACTGTATATATGCAAGGCATTAGCTTTTGATTGTTTCAACCATTATATTTATCGAT
1 ATAATTTTAACTGCATATATGCAAGACATTAGCTTTTGATTGTTTCAACCATTAGATTGATCGAT
* * *
116386413 TATGTCTTTAGTACTTAATTATTATGTGTCAGCTTCATTAGTATGGGATGGCAATAATGATTTTT
66 TATGTCTTTACTACTTAATTATTACGTGTCAGCTTCATTAGTATGGGATGCCAATAATGA-TTTT
*
116386478 TTTATGTGTATGAATGCAAATTTTTATGCCGATA
130 TTTATGTGTATGAATGCAAATGTTTATGCCGATA
*
116386512 ATAATTTTAACTGCATATATGCAAGACATTAGCTTTTGATTGTTTCAACCATTAGATTGATTGAT
1 ATAATTTTAACTGCATATATGCAAGACATTAGCTTTTGATTGTTTCAACCATTAGATTGATCGAT
*
116386577 TATGTCTTTACTACTTAATTATTACGTGTCAGTTTCATTAGTATGGGATGCCAATAATGATTTTT
66 TATGTCTTTACTACTTAATTATTACGTGTCAGCTTCATTAGTATGGGATGCCAATAATGATTTTT
116386642 TTATGTGTATGAATGCAAATGTTTATG
131 TTATGTGTATGAATGCAAATGTTTATG
116386669 TGACTGCTTG
Statistics
Matches: 147, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
163 31 0.21
164 116 0.79
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (163 bp):
ATAATTTTAACTGCATATATGCAAGACATTAGCTTTTGATTGTTTCAACCATTAGATTGATCGAT
TATGTCTTTACTACTTAATTATTACGTGTCAGCTTCATTAGTATGGGATGCCAATAATGATTTTT
TTATGTGTATGAATGCAAATGTTTATGCCGATA
Found at i:116389382 original size:7 final size:7
Alignment explanation
Indices: 116389361--116389404 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
116389351 TGTTTGACAT
116389361 TGATGATA
1 TGAT-ATA
*
116389369 TGGTATA
1 TGATATA
116389376 TGATATA
1 TGATATA
116389383 TGATATA
1 TGATATA
116389390 TGATATA
1 TGATATA
116389397 TGATATA
1 TGATATA
116389404 T
1 T
116389405 ACATACATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
7 31 0.91
8 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (7 bp):
TGATATA
Found at i:116392676 original size:6 final size:6
Alignment explanation
Indices: 116392665--116392692 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
116392655 GTCAATTAAT
116392665 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
116392693 CATTGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:116393012 original size:6 final size:6
Alignment explanation
Indices: 116393001--116393028 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
116392991 GTCAATTAAT
116393001 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
116393029 CATTGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:116407377 original size:126 final size:126
Alignment explanation
Indices: 116407152--116407409 Score: 392
Period size: 126 Copynumber: 2.0 Consensus size: 126
116407142 ACAAATGCAT
* * * **
116407152 ATTACTGAATTGATGATCTAAAAGCGGGTAAGCAGGTGAGGCACTTCCCGAATTTGCTGCTAAGG
1 ATTACTCAACTGATGATCCAAAAGCGGGTAAGCAGGTGAAACACTTCCCGAATTTGCTGCTAAGG
* * *
116407217 AACTTGTACTGTCTTGCCTGTTATGACCAGAGAAGCTATTGTGTGTAGAGAGGAGCTCAGA
66 AACTTGTACTGTCTTGCCGGTTATGACCAGAGAAGCTAATGTGTGTAGAGAGAAGCTCAGA
* *
116407278 ATTACTCAACTGATGATCCAAACGCGGGTAAAG-AGGTGAAACACTTCCCGTATTTGCTGCTAAG
1 ATTACTCAACTGATGATCCAAAAGCGGGT-AAGCAGGTGAAACACTTCCCGAATTTGCTGCTAAG
* *
116407342 GAACTTGTACTGTCTTGCCGGTTATGACCAGAGAAGCTAATGTGTGTGGAGAGAAGTTCAGA
65 GAACTTGTACTGTCTTGCCGGTTATGACCAGAGAAGCTAATGTGTGTAGAGAGAAGCTCAGA
116407404 ATTACT
1 ATTACT
116407410 TTCAGGAGGA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 116 0.97
127 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (126 bp):
ATTACTCAACTGATGATCCAAAAGCGGGTAAGCAGGTGAAACACTTCCCGAATTTGCTGCTAAGG
AACTTGTACTGTCTTGCCGGTTATGACCAGAGAAGCTAATGTGTGTAGAGAGAAGCTCAGA
Found at i:116407484 original size:42 final size:42
Alignment explanation
Indices: 116407415--116407499 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
116407405 TTACTTTCAG
* * *
116407415 GAGGAGTATATTGTCCAGGTTGTTGATAAGAGGAGGATGATT
1 GAGGAGGATATTGTCCAGGCTGCTGATAAGAGGAGGATGATT
* *
116407457 GAGGAGGATATTGTGCAGGCTGCTGATAAGTGGAGGATGATT
1 GAGGAGGATATTGTCCAGGCTGCTGATAAGAGGAGGATGATT
116407499 G
1 G
116407500 CGGGTTACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.28
Consensus pattern (42 bp):
GAGGAGGATATTGTCCAGGCTGCTGATAAGAGGAGGATGATT
Found at i:116415004 original size:46 final size:46
Alignment explanation
Indices: 116414952--116415127 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
116414942 TATTTGGGCA
116414952 TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
116414998 TTCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
116415043 CATTTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** * *
116415091 CCCGAGCTAGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
116415128 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.31
Consensus pattern (46 bp):
TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:116415107 original size:93 final size:93
Alignment explanation
Indices: 116414948--116415120 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
116414938 AGGATATTTG
* ** *
116414948 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAGCTCGTTGAG
1 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAGTTGAG
116415013 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
116415041 GGCATTTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAGTTGAG
1 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAGTTGAG
116415106 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
116415121 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (93 bp):
GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:116422895 original size:3 final size:3
Alignment explanation
Indices: 116422887--116422942 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
116422877 ATCAAAAATG
116422887 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
116422935 GAA GAA GA
1 GAA GAA GA
116422943 TGATGATCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:116430032 original size:45 final size:42
Alignment explanation
Indices: 116429955--116430039 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
116429945 TTACTTTCAG
*
116429955 GAGGAGGATATTGTGCAGGTTGTTGATAAGAGGATGATGATT
1 GAGGAGGATATTGTGCAGGCTGTTGATAAGAGGATGATGATT
*
116429997 GAGGAGGATATTGTGCAGGCTGTTGATAAGTA-GAGGATGATT
1 GAGGAGGATATTGTGCAGGCTGTTGATAAG-AGGATGATGATT
116430039 G
1 G
116430040 CGGATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.39, T:0.29
Consensus pattern (42 bp):
GAGGAGGATATTGTGCAGGCTGTTGATAAGAGGATGATGATT
Found at i:116443492 original size:22 final size:21
Alignment explanation
Indices: 116443460--116443500 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
116443450 CTCCCTGTTC
*
116443460 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
116443482 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
116443501 TATTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.10, T:0.68
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:116443507 original size:9 final size:9
Alignment explanation
Indices: 116443488--116443519 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
116443478 TTGTTTCTCT
116443488 TTTTCATTTC
1 TTTT-ATTTC
116443498 TTTTATTTC
1 TTTTATTTC
116443507 TTTTATTTC
1 TTTTATTTC
116443516 TTTT
1 TTTT
116443520 TTTATTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTC
Found at i:116450456 original size:105 final size:105
Alignment explanation
Indices: 116450271--116450480 Score: 321
Period size: 105 Copynumber: 2.0 Consensus size: 105
116450261 CGTTTTATCT
* * * *
116450271 TCTAAAAGTTGTGAGTCATGTTTATTAACTATTATTCTCAACAAAGTGTCCCTATAAGAGACCAA
1 TCTAAAAATTGTGAGTCATGTTTAATAACTATTACTCTCAACAAAGTGTCCCTATAAAAGACCAA
* * * *
116450336 CTTTCTACTAAAATCGTCGCTGACAACGAACTTTATAATC
66 CTTTCTACCAAAATCGTAGCTGACAACAAACCTTATAATC
* *
116450376 TCTAAAAATTGTGAGTCATGTTTAATAACTATTGCTCTCAATAAAGTGTCCCTATAAAAGACCAA
1 TCTAAAAATTGTGAGTCATGTTTAATAACTATTACTCTCAACAAAGTGTCCCTATAAAAGACCAA
*
116450441 CTTTCTACCAGAATCGTAGCTGACAACAAACCTTATAATC
66 CTTTCTACCAAAATCGTAGCTGACAACAAACCTTATAATC
116450481 ATGAACTCCT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (105 bp):
TCTAAAAATTGTGAGTCATGTTTAATAACTATTACTCTCAACAAAGTGTCCCTATAAAAGACCAA
CTTTCTACCAAAATCGTAGCTGACAACAAACCTTATAATC
Found at i:116457099 original size:30 final size:31
Alignment explanation
Indices: 116457063--116457121 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
116457053 AAATTGGTTC
**
116457063 TTTAAAAATTGTAATTAATTAGA-CTTTTAA
1 TTTAAAAATAATAATTAATTAGATCTTTTAA
*
116457093 TTTAAAAATAATAATTAATTGGATCTTTT
1 TTTAAAAATAATAATTAATTAGATCTTTT
116457122 GAACCGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTAAAAATAATAATTAATTAGATCTTTTAA
Found at i:116466306 original size:2 final size:2
Alignment explanation
Indices: 116466295--116466326 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
116466285 AATCACAAAA
116466295 AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116466327 TTAGCTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:116467289 original size:3 final size:3
Alignment explanation
Indices: 116467281--116467332 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
116467271 GTTACTGGGA
116467281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116467329 AAT A
1 AAT A
116467333 TATTACTACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:116470055 original size:18 final size:18
Alignment explanation
Indices: 116470032--116470070 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
116470022 AATTATTTAA
*
116470032 AAAATTAAAAATATAACT
1 AAAATTAAAAATATAAAT
* *
116470050 AAAATTAGAATTATAAAT
1 AAAATTAAAAATATAAAT
116470068 AAA
1 AAA
116470071 TCTAAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATTAAAAATATAAAT
Found at i:116474262 original size:6 final size:6
Alignment explanation
Indices: 116474251--116474325 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
116474241 CAAATAAATG
** *
116474251 AAAGAA AAAGAA ATCGAA AAAGAGA CAAAGCAA AAACGAA ACAG-A AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGA-A -AAAG-AA AAA-GAA AAAGAA AAAGAA
* *
116474302 AAAG-G AAAGAA AAAGAG AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
116474326 GAAAGGAGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 8 0.15
6 30 0.57
7 8 0.15
8 6 0.11
9 1 0.02
ACGTcount: A:0.72, C:0.07, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:116474309 original size:12 final size:11
Alignment explanation
Indices: 116474283--116474325 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
116474273 AGACAAAGCA
*
116474283 AAAACGAAACAG
1 AAAA-GAAAAAG
116474295 AAAAGAAAAAG
1 AAAAGAAAAAG
*
116474306 GAAAGAAAAAG
1 AAAAGAAAAAG
116474317 AGAAAGAAA
1 A-AAAGAAA
116474326 GAAAGGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:116474310 original size:11 final size:12
Alignment explanation
Indices: 116474296--116474325 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
116474286 ACGAAACAGA
116474296 AAAGAAAAAG-G
1 AAAGAAAAAGAG
116474307 AAAGAAAAAGAG
1 AAAGAAAAAGAG
116474319 AAAGAAA
1 AAAGAAA
116474326 GAAAGGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAG
Found at i:116474336 original size:15 final size:16
Alignment explanation
Indices: 116474295--116474338 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
116474285 AACGAAACAG
*
116474295 AAAAGAAAAAGGAAAGA
1 AAAAGAGAAA-GAAAGA
116474312 AAAAGAGAAAGAAAG-
1 AAAAGAGAAAGAAAGA
*
116474327 AAAGGAGAAAGA
1 AAAAGAGAAAGA
116474339 CAAGGCTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 5 0.20
17 9 0.36
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAAGAGAAAGAAAGA
Found at i:116474706 original size:20 final size:20
Alignment explanation
Indices: 116474669--116474706 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
116474659 ATGGAATTTG
*
116474669 TATGAAAATATAAGATTAAT
1 TATGAAAATATAAAATTAAT
116474689 TATGAAGAATA-AAAATTA
1 TATGAA-AATATAAAATTA
116474707 GTATCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAT
Found at i:116475096 original size:2 final size:2
Alignment explanation
Indices: 116475089--116475124 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
116475079 TATAAGTGAT
116475089 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116475125 ATTTGATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116479554 original size:14 final size:14
Alignment explanation
Indices: 116479535--116479569 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
116479525 ATCTGTGTCA
**
116479535 TAATTAATTTTTAT
1 TAATTAATTTAAAT
116479549 TAATTAATTTAAAT
1 TAATTAATTTAAAT
116479563 TAATTAA
1 TAATTAA
116479570 GAAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TAATTAATTTAAAT
Found at i:116493984 original size:2 final size:2
Alignment explanation
Indices: 116493972--116494009 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
116493962 AATCATTAAA
*
116493972 AT AT CAT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116494010 ATAATTTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:116494010 original size:10 final size:10
Alignment explanation
Indices: 116493968--116494010 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
116493958 ATTCAATCAT
116493968 TAAA-ATATCA
1 TAAATATAT-A
*
116493978 TATATATATA
1 TAAATATATA
*
116493988 TATATATATA
1 TAAATATATA
116493998 TAAATATATA
1 TAAATATATA
116494008 TAA
1 TAA
116494011 TAATTTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 26 0.87
11 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAATATATA
Found at i:116496932 original size:25 final size:26
Alignment explanation
Indices: 116496887--116496940 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
116496877 ACTTTTACCT
* *
116496887 GGAAGAGAAGATGAAGTACGGAAGAA
1 GGAAAAGAAGATGAAGAACGGAAGAA
116496913 GGAAAAGAA-ATGAAGAACGGAAGAA
1 GGAAAAGAAGATGAAGAACGGAAGAA
116496938 GGA
1 GGA
116496941 GAATGAGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.54, C:0.04, G:0.37, T:0.06
Consensus pattern (26 bp):
GGAAAAGAAGATGAAGAACGGAAGAA
Found at i:116497009 original size:6 final size:6
Alignment explanation
Indices: 116496998--116497031 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
116496988 CCAAACAACC
116496998 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAA
1 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAA
116497032 ATGGGAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:116497139 original size:18 final size:18
Alignment explanation
Indices: 116497116--116497151 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
116497106 CCCCTGTATC
116497116 AGTTCAACTAGATTTTAA
1 AGTTCAACTAGATTTTAA
116497134 AGTTCAACTAGATTTTAA
1 AGTTCAACTAGATTTTAA
116497152 GTGCTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
AGTTCAACTAGATTTTAA
Found at i:116497304 original size:26 final size:26
Alignment explanation
Indices: 116497253--116497305 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
116497243 AAAATTATTC
* **
116497253 ATCTCTTCTTTTTTTATTTTTCTTTT
1 ATCTCTTCTTTTTTTAATGATCTTTT
*
116497279 ATCTCTTCTTTTTTTCAATGATTTTTT
1 ATCTCTTCTTTTTTT-AATGATCTTTT
116497306 TTCATTTGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (26 bp):
ATCTCTTCTTTTTTTAATGATCTTTT
Found at i:116497764 original size:17 final size:17
Alignment explanation
Indices: 116497744--116497777 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
116497734 AGGTTTAGGT
116497744 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
116497761 TTAATTATTTTAATTAA
1 TTAAAAATTTTAATTAA
116497778 AAATCTATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:116498218 original size:18 final size:18
Alignment explanation
Indices: 116498195--116498234 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
116498185 GCATAAATTT
* **
116498195 TTTTCAGATTTATTAAAA
1 TTTTCAAATTTAACAAAA
116498213 TTTTCAAATTTAACAAAA
1 TTTTCAAATTTAACAAAA
116498231 TTTT
1 TTTT
116498235 TAACTTATAT
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:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTCAAATTTAACAAAA
Found at i:116505193 original size:19 final size:18
Alignment explanation
Indices: 116505165--116505203 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
116505155 ATTATAAAAT
116505165 AATTCAAAATAATTTATAA
1 AATTCAAAAT-ATTTATAA
*
116505184 AATTCTAAATATTTATAA
1 AATTCAAAATATTTATAA
116505202 AA
1 AA
116505204 ATCCTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:116505204 original size:19 final size:19
Alignment explanation
Indices: 116505165--116505218 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
116505155 ATTATAAAAT
*
116505165 AATTCAAAATAATTTAT-AA
1 AATTCTAAAT-ATTTATAAA
116505184 AATTCTAAATATTTATAAA
1 AATTCTAAATATTTATAAA
*
116505203 AATCCTAAA-ATTTATA
1 AATTCTAAATATTTATA
116505219 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 13 0.41
19 19 0.59
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCTAAATATTTATAAA
Found at i:116505234 original size:11 final size:11
Alignment explanation
Indices: 116505218--116505248 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
116505208 TAAAATTTAT
116505218 ATTTTAAAAAA
1 ATTTTAAAAAA
116505229 ATTTT-AAAAA
1 ATTTTAAAAAA
116505239 ATTTTAAAAA
1 ATTTTAAAAA
116505249 TCTAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:116505236 original size:25 final size:27
Alignment explanation
Indices: 116505152--116505237 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 27
116505142 TTTCAACAAC
* * *
116505152 AAAATTATAAAATAATTCAAAATAATTTAT
1 AAAATTCT-AAAT-ATTTAAAAAAATTT-T
* **
116505182 AAAATTCTAAATATTTATAAAAATCCT
1 AAAATTCTAAATATTTAAAAAAATTTT
*
116505209 AAAATT-TATAT-TTTAAAAAAATTTT
1 AAAATTCTAAATATTTAAAAAAATTTT
116505234 AAAA
1 AAAA
116505238 AATTTTAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
25 15 0.33
26 4 0.09
27 7 0.15
28 9 0.20
29 4 0.09
30 7 0.15
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAATTCTAAATATTTAAAAAAATTTT
Found at i:116505247 original size:9 final size:9
Alignment explanation
Indices: 116505225--116505296 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
116505215 TATATTTTAA
116505225 AAAAATTTT
1 AAAAATTTT
116505234 AAAAAATTTT
1 -AAAAATTTT
*
116505244 AAAAA-TCT
1 AAAAATTTT
*
116505252 AAACAATATAT
1 AAA-AAT-TTT
*
116505263 AATGAAA-GTT
1 AA--AAATTTT
116505273 -AAAATTTT
1 AAAAATTTT
116505281 AAAAATTTT
1 AAAAATTTT
116505290 AAAAATT
1 AAAAATT
116505297 AATAATTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
7 3 0.06
8 7 0.14
9 23 0.46
10 10 0.20
11 4 0.08
12 2 0.04
13 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATTTT
Found at i:116508132 original size:15 final size:15
Alignment explanation
Indices: 116508077--116508133 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
116508067 TTTATACTAC
*
116508077 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
116508092 AATATATCTATAATTATA
1 AAAATAT-T-T-ATTATT
116508110 ATAAATATTTATTATT
1 A-AAATATTTATTATT
116508126 AAAATATT
1 AAAATATT
116508134 AATATTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 12 0.36
16 7 0.21
17 2 0.06
18 7 0.21
19 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:116508137 original size:21 final size:21
Alignment explanation
Indices: 116508088--116508144 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
116508078 AAACATTTAT
* *
116508088 TATTAATATATCTATAATTATAA
1 TATTAATAT-T-TATTATTAAAA
116508111 TA--AATATTTATTATTAAAA
1 TATTAATATTTATTATTAAAA
116508130 TATTAATATTTATTA
1 TATTAATATTTATTA
116508145 CTTTTAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 11 0.37
20 1 0.03
21 16 0.53
23 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAATATTTATTATTAAAA
Found at i:116524124 original size:28 final size:28
Alignment explanation
Indices: 116524090--116524145 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
116524080 TTAAATTCTG
116524090 TTACTTTGATTCACATACTCATAATTTA
1 TTACTTTGATTCACATACTCATAATTTA
116524118 TTACTTTGATTCACATACTCATAATTTA
1 TTACTTTGATTCACATACTCATAATTTA
116524146 CTAACATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (28 bp):
TTACTTTGATTCACATACTCATAATTTA
Found at i:116530735 original size:42 final size:42
Alignment explanation
Indices: 116530666--116530751 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
116530656 ATCGATGTCT
* *
116530666 CATATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCA
1 CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
* * *
116530708 CATATCGATGCCATATCTCTGATATGGTCTTACACAAAATCA
1 CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
116530750 CA
1 CA
116530752 CAACCCTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
Found at i:116537697 original size:42 final size:42
Alignment explanation
Indices: 116537628--116537713 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
116537618 ATCGATGTCT
* *
116537628 CATATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCA
1 CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
* * *
116537670 CATATCGATGCCATATCTCTGATATGGTCTTACACAAAATCA
1 CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
116537712 CA
1 CA
116537714 CAACCCTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
Found at i:116544660 original size:42 final size:42
Alignment explanation
Indices: 116544591--116544676 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
116544581 ATCGATGTCT
* *
116544591 CATATCGATGCCATGTCCTAGACATGGTCTTACACGAAATCA
1 CATATCGATGCCATATCCTAGACATGGTCTTACACAAAATCA
*
116544633 CATATCGATGCCATATCTCT-GATATGGTCTTACACAAAATCA
1 CATATCGATGCCATATC-CTAGACATGGTCTTACACAAAATCA
116544675 CA
1 CA
116544677 CAACCCTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (42 bp):
CATATCGATGCCATATCCTAGACATGGTCTTACACAAAATCA
Found at i:116555614 original size:42 final size:42
Alignment explanation
Indices: 116555545--116555630 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
116555535 ATCGATGTCT
* *
116555545 CATATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCA
1 CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
* * *
116555587 CATATCGATGCCATATCTCTGATATGGTCTTACACAAAATCA
1 CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
116555629 CA
1 CA
116555631 CAACCCTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CATATCGATGCCATATCCCAGACATGGTCTTACACAAAATCA
Found at i:116567422 original size:20 final size:20
Alignment explanation
Indices: 116567397--116567434 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
116567387 CAGTCTGGGA
116567397 TTTTATTA-ATTTTCTACTAC
1 TTTTATTATATTTT-TACTAC
116567417 TTTTATTATATTTTTACT
1 TTTTATTATATTTTTACT
116567435 TAAAACTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATTATATTTTTACTAC
Found at i:116582640 original size:14 final size:14
Alignment explanation
Indices: 116582612--116582662 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
116582602 ATCGTTACAT
116582612 ATAAATAA-GTAATA
1 ATAAATAATGT-ATA
116582626 ATAAATAATGTATA
1 ATAAATAATGTATA
* *
116582640 ATTTAAATTATTTATA
1 A--TAAATAATGTATA
116582656 ATAAATA
1 ATAAATA
116582663 CGGTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 17 0.55
15 2 0.06
16 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (14 bp):
ATAAATAATGTATA
Found at i:116583568 original size:29 final size:30
Alignment explanation
Indices: 116583509--116583587 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
116583499 ATCTCAAAGG
* *
116583509 TATACATAAATTTTGATTTAATGCGTAATTA
1 TATACATAAACTTTAATTTAATGCG-AATTA
*
116583540 TATACATAAACTTTAATTTGATGC-AATTA
1 TATACATAAACTTTAATTTAATGCGAATTA
* *
116583569 TACATATGAAACTTTAATT
1 TATACAT-AAACTTTAATT
116583588 GTAGTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 10 0.24
30 11 0.26
31 21 0.50
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (30 bp):
TATACATAAACTTTAATTTAATGCGAATTA
Found at i:116592269 original size:17 final size:18
Alignment explanation
Indices: 116592228--116592270 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
116592218 TGTATTTACT
116592228 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
116592246 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
116592263 TATTATAT
1 TATTATAT
116592271 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:116592281 original size:18 final size:17
Alignment explanation
Indices: 116592258--116592294 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
116592248 ATATAAAGTA
*
116592258 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
116592276 AATTATAATATATTAAT
1 AATTATAATATATTAAT
116592293 AA
1 AA
116592295 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:116594313 original size:8 final size:8
Alignment explanation
Indices: 116594300--116594328 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
116594290 TTATGTTTAG
116594300 TATATTAT
1 TATATTAT
116594308 TATATTAT
1 TATATTAT
116594316 TATATTAT
1 TATATTAT
116594324 TATAT
1 TATAT
116594329 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:116595667 original size:15 final size:15
Alignment explanation
Indices: 116595647--116595703 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
116595637 TGATGAATTT
116595647 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
116595662 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
116595677 ATTGAATTTATATTG
1 ATTGAATTTATATTG
116595692 ATTGAA-TTATAT
1 ATTGAATTTATAT
116595704 AATATTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:116596123 original size:21 final size:21
Alignment explanation
Indices: 116596088--116596183 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
116596078 AGGCACTTTA
116596088 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
116596111 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
116596132 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
116596153 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
116596174 TGTGTCGTAT
1 TGTGTCGTAT
116596184 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:116596158 original size:42 final size:42
Alignment explanation
Indices: 116596075--116596183 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
116596065 GGCTTTATCG
* *
116596075 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
116596119 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
116596161 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
116596184 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:116599674 original size:11 final size:11
Alignment explanation
Indices: 116599658--116599690 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
116599648 TAAATTATAA
116599658 TAATTATATTG
1 TAATTATATTG
*
116599669 TAATTATATTA
1 TAATTATATTG
116599680 T-ATTATATTG
1 TAATTATATTG
116599690 T
1 T
116599691 GAAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (11 bp):
TAATTATATTG
Found at i:116599681 original size:16 final size:16
Alignment explanation
Indices: 116599639--116599686 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
116599629 GTTATAAATT
* *
116599639 TAATTATGTTAAATTA
1 TAATTATATTATATTA
*
116599655 TAA-TA-ATTATATTG
1 TAATTATATTATATTA
116599669 TAATTATATTATATTA
1 TAATTATATTATATTA
116599685 TA
1 TA
116599687 TTGTGAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
TAATTATATTATATTA
Found at i:116599686 original size:21 final size:20
Alignment explanation
Indices: 116599650--116599690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
116599640 AATTATGTTA
116599650 AATTATAATAATTATATTGT
1 AATTATAATAATTATATTGT
*
116599670 AATTATATTATATTATATTGT
1 AATTATAATA-ATTATATTGT
116599691 GAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
AATTATAATAATTATATTGT
Found at i:116600136 original size:2 final size:2
Alignment explanation
Indices: 116600129--116600156 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
116600119 TATTATTAAC
116600129 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116600157 ATAAAGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116600254 original size:12 final size:12
Alignment explanation
Indices: 116600223--116600256 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
116600213 AAACAGGGGG
116600223 AAAGGAAAGAAGA
1 AAAGGAAA-AAGA
116600236 AAA-GAAAAAGA
1 AAAGGAAAAAGA
116600247 AAAGGAAAAA
1 AAAGGAAAAA
116600257 CTGGGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.35
12 10 0.50
13 3 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGGAAAAAGA
Found at i:116601095 original size:13 final size:14
Alignment explanation
Indices: 116601074--116601113 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
116601064 ATTTGATTGG
116601074 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
116601087 AATATGAATTAAAT
1 AAAATGAATTAAAT
116601101 AAAAGTGAATTAA
1 AAAA-TGAATTAA
116601114 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:116603229 original size:30 final size:29
Alignment explanation
Indices: 116603173--116603250 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
116603163 TCTAAATATC
* *
116603173 TAAATAAATAAAAAACTATATTTAAAGTA
1 TAAATAAATAAAAAAATATATTTAAAGCA
116603202 TAAATAAATAAATAATAATAT-TTTAAAGCA
1 TAAATAAATAAA-AA-AATATATTTAAAGCA
116603232 TAAAATAAAATACAAAAAA
1 T-AAAT-AAATA-AAAAAA
116603251 AAAAAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 12 0.29
30 11 0.26
31 10 0.24
32 7 0.17
33 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (29 bp):
TAAATAAATAAAAAAATATATTTAAAGCA
Found at i:116603372 original size:16 final size:16
Alignment explanation
Indices: 116603351--116603381 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
116603341 GTGCTCTCCC
116603351 CTCCCCTCTCTCCTTT
1 CTCCCCTCTCTCCTTT
116603367 CTCCCCTCTCTCCTT
1 CTCCCCTCTCTCCTT
116603382 CTCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCCCCTCTCTCCTTT
Found at i:116604551 original size:21 final size:21
Alignment explanation
Indices: 116604510--116604554 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
116604500 TTTAATGTCG
*
116604510 TATTTTTACATATCACATATA
1 TATTTCTACATATCACATATA
*
116604531 TATTTCTA-ATATCATAT-TA
1 TATTTCTACATATCACATATA
116604550 TATTT
1 TATTT
116604555 TCATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 7 0.32
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTCTACATATCACATATA
Found at i:116607809 original size:21 final size:22
Alignment explanation
Indices: 116607778--116607818 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
116607768 ATATAAGTAC
116607778 AATAACAATAATGGTAATAAAA
1 AATAACAATAATGGTAATAAAA
*
116607800 AATAA-AATAATTGTAATAA
1 AATAACAATAATGGTAATAA
116607819 TAGCACGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (22 bp):
AATAACAATAATGGTAATAAAA
Found at i:116608029 original size:12 final size:12
Alignment explanation
Indices: 116607985--116608032 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
116607975 TGTTCATGCG
*
116607985 TAAATATAAAGA
1 TAAATATAAACA
**
116607997 TAGGTATAATACA
1 TAAATATAA-ACA
116608010 TAAAATATAAACA
1 T-AAATATAAACA
116608023 TAAATATAAA
1 TAAATATAAA
116608033 GAGAGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 16 0.55
13 7 0.24
14 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (12 bp):
TAAATATAAACA
Found at i:116608560 original size:12 final size:13
Alignment explanation
Indices: 116608542--116608571 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
116608532 CGCTTTTTTT
116608542 TATTTTTTTTAAA
1 TATTTTTTTTAAA
116608555 TATTTTTTTTAAA
1 TATTTTTTTTAAA
116608568 TATT
1 TATT
116608572 CTTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTTTTTAAA
Found at i:116608602 original size:50 final size:53
Alignment explanation
Indices: 116608538--116608642 Score: 119
Period size: 53 Copynumber: 2.0 Consensus size: 53
116608528 GGTACGCTTT
** *
116608538 TTTTTATTTTTTTTAAATATT-TTT-TT-TAAATA-TTCTTATTATTACTATTA
1 TTTTTATTCCTTTT-AATATTGTTTATTATAAATATTTATTATTATTACTATTA
* * *
116608588 TTTTTATTCCTTTTATTATTGTTTATTATCAATATTTATTATTATTGCTATTA
1 TTTTTATTCCTTTTAATATTGTTTATTATAAATATTTATTATTATTACTATTA
116608641 TT
1 TT
116608643 GCTATTATCT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
49 5 0.11
50 15 0.33
51 2 0.04
52 5 0.11
53 18 0.40
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (53 bp):
TTTTTATTCCTTTTAATATTGTTTATTATAAATATTTATTATTATTACTATTA
Found at i:116608706 original size:12 final size:12
Alignment explanation
Indices: 116608691--116608738 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
116608681 TATTTCTCTC
116608691 TTTATATTTATG
1 TTTATATTTATG
116608703 TTTATATTTTATG
1 TTTATA-TTTATG
** *
116608716 TATTATACCTATC
1 T-TTATATTTATG
116608729 TTTATATTTA
1 TTTATATTTA
116608739 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:116608928 original size:21 final size:22
Alignment explanation
Indices: 116608904--116608944 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
116608894 TAACGTGCTA
116608904 TTATTACAATTATT-TTATTTT
1 TTATTACAATTATTGTTATTTT
*
116608925 TTATTACCATTATTGTTATT
1 TTATTACAATTATTGTTATT
116608945 GTACTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTACAATTATTGTTATTTT
Found at i:116611615 original size:47 final size:47
Alignment explanation
Indices: 116611506--116611616 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
116611496 CCGGGATAAG
*
116611506 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
116611553 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
116611600 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
116611617 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:116618869 original size:47 final size:47
Alignment explanation
Indices: 116618760--116618870 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
116618750 CCGGGATAAG
*
116618760 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
116618807 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
116618854 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
116618871 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:116629741 original size:43 final size:44
Alignment explanation
Indices: 116629687--116629778 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 44
116629677 GCCTCAGCGA
* * * *
116629687 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTAAAGTCGCAGTGG
* * * *
116629730 AGCAGACTGAAGTTACAAGTCTCATCTCCTTAAAGTCGTAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTAAAGTCGCAGTGG
116629774 AGCAG
1 AGCAG
116629779 GCTAAATGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 29 0.73
44 11 0.28
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTAAAGTCGCAGTGG
Found at i:116630199 original size:42 final size:44
Alignment explanation
Indices: 116630142--116630261 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
116630132 AATTTTCAAA
* *
116630142 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
* * * **
116630184 -ATCTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAG
1 CCT-TAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
*
116630228 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
116630262 AAATCAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 4 0.07
44 28 0.46
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
Found at i:116630709 original size:12 final size:12
Alignment explanation
Indices: 116630692--116630716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116630682 ACCCAAAACC
116630692 CTTAGCCCAAAA
1 CTTAGCCCAAAA
116630704 CTTAGCCCAAAA
1 CTTAGCCCAAAA
116630716 C
1 C
116630717 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:116631379 original size:9 final size:9
Alignment explanation
Indices: 116631354--116631403 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
116631344 GAGCTTTGTT
*
116631354 TTATTTTTT
1 TTATTTTTA
116631363 TTA-TTTTA
1 TTATTTTTA
116631371 TTATTTTTA
1 TTATTTTTA
*
116631380 CTATTATTTA
1 TTATT-TTTA
*
116631390 -TATTATTA
1 TTATTTTTA
116631398 TTATTT
1 TTATTT
116631404 CTCATGTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 10 0.29
9 20 0.59
10 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTTTTA
Found at i:116631384 original size:17 final size:14
Alignment explanation
Indices: 116631352--116631403 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
116631342 GAGAGCTTTG
116631352 TTTTATTTTTTTTA
1 TTTTATTTTTTTTA
*
116631366 TTTTATTATTTTTA
1 TTTTATTTTTTTTA
* * *
116631380 CTATTATTTATATTA
1 -TTTTATTTTTTTTA
116631395 TTATTATTT
1 TT-TTATTT
116631404 CTCATGTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTTTTTTA
Found at i:116631399 original size:15 final size:15
Alignment explanation
Indices: 116631381--116631572 Score: 57
Period size: 15 Copynumber: 11.5 Consensus size: 15
116631371 TTATTTTTAC
116631381 TATTATTTATATTAT
1 TATTATTTATATTAT
*
116631396 TATTATTTCTCATGTACATAT
1 TATTA-TT-T-A--TA-TTAT
116631417 TATTATTTATATTAT
1 TATTATTTATATTAT
116631432 TATTATATTATATATACCCT
1 TATTAT-TTATAT-TA---T
* *
116631452 CTCCATTTTTTTTA-TAT
1 -T--ATTATTTATATTAT
*
116631469 TATTA-CTATCATTAT
1 TATTATTTAT-ATTAT
* * *
116631484 TGTTACTTCTATTAT
1 TATTATTTATATTAT
* *
116631499 TTTTATTTCTGACTACTAT
1 TATTA-TT-T-A-TATTAT
116631518 TATTATATATATATGTAT
1 TATTAT-T-TATAT-TAT
* *
116631536 TATTGTTTGTATTAT
1 TATTATTTATATTAT
116631551 TATTA-TTATTATTAT
1 TATTATTTA-TATTAT
116631566 TATTATT
1 TATTATT
116631573 ATCACCCTTA
Statistics
Matches: 131, Mismatches: 21, Indels: 49
0.65 0.10 0.24
Matches are distributed among these distances:
13 2 0.02
14 6 0.05
15 48 0.37
16 19 0.15
17 8 0.06
18 12 0.09
19 12 0.09
20 7 0.05
21 9 0.07
22 4 0.03
23 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:116631521 original size:3 final size:3
Alignment explanation
Indices: 116631515--116631754 Score: 73
Period size: 3 Copynumber: 77.0 Consensus size: 3
116631505 TTCTGACTAC
*
116631515 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * ** * * * *
116631563 TAT TAT TAT TAT CAC CCT TAT TGT TAT TAC T-T TACT TTT GTAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT
* * * ** *
116631609 AAT ATAT TAT TAA TAT TACT TA- TAT T-T TCAT TAT TTT TGC TAT TAC
1 TAT -TAT TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* *
116631655 TAT TAT TAT TAT ATAT TAGT GTA- TAT TTT TAT GTAT ATAT ATAT TTT
1 TAT TAT TAT TAT -TAT TA-T -TAT TAT TAT TAT -TAT -TAT -TAT TAT
* * * *
116631702 TA- TAT ATAG TAT TAT TATT TAC T-T TAC T-T TAA TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
116631746 TAT CAT TAT
1 TAT TAT TAT
116631755 ATCTAACCCA
Statistics
Matches: 174, Mismatches: 42, Indels: 42
0.67 0.16 0.16
Matches are distributed among these distances:
2 12 0.07
3 119 0.68
4 41 0.24
5 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:116632696 original size:20 final size:20
Alignment explanation
Indices: 116632673--116632738 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 20
116632663 AAAGTAAAGT
116632673 AAATAATAATACTATATATA
1 AAATAATAATACTATATATA
*
116632693 AAAT-AT-ATA-TATACAT-
1 AAATAATAATACTATATATA
*
116632709 AAA-AATATACACTA-ATATA
1 AAATAATA-ATACTATATATA
*
116632728 TAATAATAATA
1 AAATAATAATA
116632739 GTAATAGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 13
0.66 0.09 0.25
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 8 0.23
19 8 0.23
20 8 0.23
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATAATACTATATATA
Found at i:116632703 original size:13 final size:15
Alignment explanation
Indices: 116632675--116632738 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 15
116632665 AGTAAAGTAA
116632675 ATAATAATACTATAT
1 ATAATAATACTATAT
116632690 ATAA-AATA-TATAT
1 ATAATAATACTATAT
*
116632703 ATACATAA-A-AATAT
1 ATA-ATAATACTATAT
* *
116632717 ACACTAATA-TATA-
1 ATAATAATACTATAT
116632730 ATAATAATA
1 ATAATAATA
116632739 GTAATAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 18 0.45
14 16 0.40
15 6 0.15
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAATACTATAT
Found at i:116632833 original size:95 final size:96
Alignment explanation
Indices: 116632727--116632908 Score: 225
Period size: 95 Copynumber: 1.9 Consensus size: 96
116632717 ACACTAATAT
*
116632727 ATAATAATAATAGTAATAGCAAA-AATAATGAAA-ATATA-AGTAATATTAATAATA-TA-TTAG
1 ATAATAATAATAATAATA-CAAACAATAAT-AAATATATATA-T-ATA-TAATAATAGTAGTTAG
* *
116632787 -AATACAAAAGTAA-AGTAATAACAATAGGGGTGATA
61 AAATA-AAAAATAATAGAAATAACAATAGGGGTGATA
*
116632822 ATAATAATAATAATAATACAAACAATAATACATATATATATATATAATAATAGTAGTTAGAAATA
1 ATAATAATAATAATAATACAAACAATAATAAATATATATATATATAATAATAGTAGTTAGAAATA
116632887 AAAAATAATAGAAATAACAATA
66 AAAAATAATAGAAATAACAATA
116632909 ATGATAGTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
93 8 0.11
94 11 0.14
95 40 0.53
96 17 0.22
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (96 bp):
ATAATAATAATAATAATACAAACAATAATAAATATATATATATATAATAATAGTAGTTAGAAATA
AAAAATAATAGAAATAACAATAGGGGTGATA
Found at i:116632834 original size:12 final size:13
Alignment explanation
Indices: 116632819--116632873 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
116632809 AATAGGGGTG
116632819 ATAATAATA-ATA
1 ATAATAATACATA
116632831 ATAATAATACA-A
1 ATAATAATACATA
*
116632843 ACAATAATACAT-
1 ATAATAATACATA
*
116632855 AT-ATATATATATA
1 ATAATA-ATACATA
116632868 ATAATA
1 ATAATA
116632874 GTAGTTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 3 0.09
12 26 0.74
13 3 0.09
14 3 0.09
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAATACATA
Done.