Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 27 of 187
Found at i:7818867 original size:50 final size:50
Alignment explanation
Indices: 7818741--7819032 Score: 259
Period size: 50 Copynumber: 5.7 Consensus size: 50
7818731 TGATAATACA
* * * ** *
7818741 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATAT-CGG
* * **
7818790 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** * *
7818840 TACCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** *
7818890 TGCCAGCGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * *
7818940 TGCCAACGCCATGTGCCAGACATGGTCTTACATGAGACCTCTCATAATCTCATTGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
7818996 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
7819033 TCTCATTCCC
Statistics
Matches: 198, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
48 5 0.03
49 35 0.18
50 121 0.61
51 1 0.01
52 1 0.01
53 1 0.01
56 34 0.17
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:7824120 original size:32 final size:32
Alignment explanation
Indices: 7824070--7824132 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
7824060 AAAACTTTTT
*
7824070 TAAATTTTTTTATATTTTTATAATTTTTGAAA
1 TAAATTTGTTTATATTTTTATAATTTTTGAAA
* *
7824102 TAAATTTGTTTAGT-TTTTTTTTATTTTTGAA
1 TAAATTTGTTTA-TATTTTTATAATTTTTGAA
7824133 GTTTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (32 bp):
TAAATTTGTTTATATTTTTATAATTTTTGAAA
Found at i:7825269 original size:67 final size:67
Alignment explanation
Indices: 7825161--7825290 Score: 242
Period size: 67 Copynumber: 1.9 Consensus size: 67
7825151 TTTTCAATTC
7825161 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTG
7825226 CA
66 CA
* *
7825228 AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCC
7825291 AGTAATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTG
CA
Found at i:7829976 original size:25 final size:25
Alignment explanation
Indices: 7829907--7829993 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
7829897 CAAGCATGTA
* * *
7829907 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCATACGAGCTATAT
* **
7829932 AATGGGAAGCTCATGTGAGCTA-AGT
1 AACGGGAAGCTCATACGAGCTATA-T
*
7829957 AACGGGAAGCTCATACGAGCTGTAT
1 AACGGGAAGCTCATACGAGCTATAT
* *
7829982 ATCAGGAAGCTC
1 AACGGGAAGCTC
7829994 TTGCGAGCCA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
AACGGGAAGCTCATACGAGCTATAT
Found at i:7830000 original size:25 final size:25
Alignment explanation
Indices: 7829936--7830019 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
7829926 CCATATAATG
** * * *
7829936 GGAAGCTCATGTGAGCTAAGTAACG
1 GGAAGCTCATACGAGCCAAGTATCA
**
7829961 GGAAGCTCATACGAGCTGTA-TATCA
1 GGAAGCTCATACGAGC-CAAGTATCA
* *
7829986 GGAAGCTCTTGCGAGCCAAGTATCA
1 GGAAGCTCATACGAGCCAAGTATCA
7830011 GGAAGCTCA
1 GGAAGCTCA
7830020 AGAGAGCTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCAAGTATCA
Found at i:7831581 original size:22 final size:21
Alignment explanation
Indices: 7831555--7831624 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
7831545 CTCTTTATTT
*
7831555 TTTAGCACATTAGTGCTCTCTG
1 TTTAGCACCTT-GTGCTCTCTG
7831577 TTTAGCACGCTTGTGCTCT-TCG
1 TTTAGCAC-CTTGTGCTCTCT-G
* *
7831599 TATAGCACCTTGGTGCTCTCCG
1 TTTAGCACCTT-GTGCTCTCTG
7831621 TTTA
1 TTTA
7831625 CTTGTGCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 4 0.10
22 34 0.85
23 2 0.05
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
TTTAGCACCTTGTGCTCTCTG
Found at i:7833882 original size:42 final size:41
Alignment explanation
Indices: 7833836--7833976 Score: 174
Period size: 42 Copynumber: 3.4 Consensus size: 41
7833826 AGATGAACGA
*
7833836 AAACCCATAAGGGTTAAATTGAACCTTAAAAGAGCTGAATGG
1 AAACCCATAAGGGTTAAACTGAA-CTTAAAAGAGCTGAATGG
* * * * *
7833878 AAACCCATAAGGGCTAAAGTGAAGCTCAAAAGAGTTGAACGG
1 AAACCCATAAGGGTTAAACTGAA-CTTAAAAGAGCTGAATGG
* * *
7833920 AAACCCATAAGGGTTAAACTGAAGTTCAAAAAAGCTTAATGG
1 AAACCCATAAGGGTTAAACTGAACTT-AAAAGAGCTGAATGG
7833962 AAACCCATAAGGGTT
1 AAACCCATAAGGGTT
7833977 GAACGGAAAC
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 1 0.01
42 83 0.99
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACTGAACTTAAAAGAGCTGAATGG
Found at i:7833986 original size:21 final size:21
Alignment explanation
Indices: 7833793--7833991 Score: 66
Period size: 21 Copynumber: 9.5 Consensus size: 21
7833783 GTGCTAATTA
*
7833793 GAAACCCGTAAGGGTTGAAC-
1 GAAACCCATAAGGGTTGAACG
* *
7833813 GAAAGCTCAT-AGGAGATGAACG
1 GAAA-CCCATAAGG-GTTGAACG
* * **
7833835 AAAACCCATAAGGGTTAAATT
1 GAAACCCATAAGGGTTGAACG
* * * * *
7833856 G-AACCTTAAAAGAGCTGAATG
1 GAAACC-CATAAGGGTTGAACG
* *
7833877 GAAACCCATAAGGGCT-AAAG
1 GAAACCCATAAGGGTTGAACG
* * * *
7833897 TGAAGCTCAAAAGAGTTGAACG
1 -GAAACCCATAAGGGTTGAACG
* *
7833919 GAAACCCATAAGGGTTAAACT
1 GAAACCCATAAGGGTTGAACG
** * * * * *
7833940 GAAGTTCAAAAAAGCTT-AATG
1 GAA-ACCCATAAGGGTTGAACG
7833961 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGGGTTGAACG
*
7833982 GAAACTCATA
1 GAAACCCATA
7833992 TGAGTTAATG
Statistics
Matches: 121, Mismatches: 48, Indels: 19
0.64 0.26 0.10
Matches are distributed among these distances:
20 21 0.17
21 80 0.66
22 20 0.17
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.18
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAACG
Found at i:7833997 original size:84 final size:84
Alignment explanation
Indices: 7833793--7833997 Score: 245
Period size: 84 Copynumber: 2.4 Consensus size: 84
7833783 GTGCTAATTA
* * * *
7833793 GAAACCCGTAAGGGTTGAAC-GAAAGCTCATAGGAGATGAACGAAAACCCATAAGGGTTAAATTG
1 GAAACCCATAAGGGTTGAACGGAAA-CTCATAAGAGTTGAACGAAAACCCATAAGGGTTAAACTG
*
7833857 AACCTTAAAAGAGCTGAATG
65 AACCTTAAAAAAGCTGAATG
* * * * *
7833877 GAAACCCATAAGGGCT-AAAGTGAAGCTCAAAAGAGTTGAACGGAAACCCATAAGGGTTAAACTG
1 GAAACCCATAAGGGTTGAACG-GAAACTCATAAGAGTTGAACGAAAACCCATAAGGGTTAAACTG
* *
7833941 AA-GTTCAAAAAAGCTTAATG
65 AACCTT-AAAAAAGCTGAATG
*
7833961 GAAACCCATAAGGGTTGAACGGAAACTCATATGAGTT
1 GAAACCCATAAGGGTTGAACGGAAACTCATAAGAGTT
7833998 AATGGAAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
83 4 0.04
84 90 0.90
85 6 0.06
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.19
Consensus pattern (84 bp):
GAAACCCATAAGGGTTGAACGGAAACTCATAAGAGTTGAACGAAAACCCATAAGGGTTAAACTGA
ACCTTAAAAAAGCTGAATG
Found at i:7834119 original size:24 final size:24
Alignment explanation
Indices: 7834086--7834147 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
7834076 ATTTGCCATT
* *
7834086 AATTCATCCTTTGCTTTTACCGTC
1 AATTCATCCTTTGCATGTACCGTC
*
7834110 AATTCTTCCTTTGCATGTACCGTC
1 AATTCATCCTTTGCATGTACCGTC
7834134 AATTCATCCTTTGC
1 AATTCATCCTTTGC
7834148 CACAGAACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.44
Consensus pattern (24 bp):
AATTCATCCTTTGCATGTACCGTC
Found at i:7834262 original size:45 final size:45
Alignment explanation
Indices: 7834207--7834294 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
7834197 ATTCAATTTC
*
7834207 ATAATTTAACAATATTCCATTTTTCAACAACATGCTAAATACATG
1 ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATG
* * *
7834252 ATAATTTAACAATGTTCTATTTTTCAACAATATACTAAATACA
1 ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACA
7834295 AAATATCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (45 bp):
ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATG
Found at i:7841222 original size:47 final size:47
Alignment explanation
Indices: 7841153--7841250 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
7841143 AAGGTCCTTT
7841153 CATTCTTCTTTCCCCTTTCCCCCTCTTTACTTACTCTCCAACTGCAA
1 CATTCTTCTTTCCCCTTTCCCCCTCTTTACTTACTCTCCAACTGCAA
7841200 CATTCTTCTTTCCCCTTTCCCCCTCTTTACTTACTCTCCAACTGCAA
1 CATTCTTCTTTCCCCTTTCCCCCTCTTTACTTACTCTCCAACTGCAA
7841247 CATT
1 CATT
7841251 TGTAGAATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.15, C:0.42, G:0.02, T:0.41
Consensus pattern (47 bp):
CATTCTTCTTTCCCCTTTCCCCCTCTTTACTTACTCTCCAACTGCAA
Found at i:7844976 original size:43 final size:42
Alignment explanation
Indices: 7844928--7845023 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
7844918 AATGAAATAA
*
7844928 TGAAGAAGAAGAAGA-AGA-ATGGAGGGTTTAATTTAGGGATTTT
1 TGAAGAAGAA-AA-ATAGATATGG-GGGTTTAATTTAAGGATTTT
* *
7844971 TGAAGAAGAAAAATGGATTTGGGGGTTTAATTTAAGGATTTT
1 TGAAGAAGAAAAATAGATATGGGGGTTTAATTTAAGGATTTT
7845013 TGAAGAAGAAA
1 TGAAGAAGAAA
7845024 CATAAATTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.02
42 34 0.71
43 13 0.27
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (42 bp):
TGAAGAAGAAAAATAGATATGGGGGTTTAATTTAAGGATTTT
Found at i:7845038 original size:42 final size:42
Alignment explanation
Indices: 7844951--7845040 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
7844941 GAAGAATGGA
* ** *
7844951 GGGTTTAATTTAGGGATTTTTGAAGAAGAAAAATGGATTTGG
1 GGGTTTAATTTAAGGATTTTTGAAGAAGAAAAATAAATTTAG
*
7844993 GGGTTTAATTTAAGGATTTTTGAAGAAGAAACATAAATTTAG
1 GGGTTTAATTTAAGGATTTTTGAAGAAGAAAAATAAATTTAG
7845035 GGGTTT
1 GGGTTT
7845041 GGATAGACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.01, G:0.28, T:0.37
Consensus pattern (42 bp):
GGGTTTAATTTAAGGATTTTTGAAGAAGAAAAATAAATTTAG
Found at i:7845158 original size:32 final size:32
Alignment explanation
Indices: 7845122--7845193 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 32
7845112 AGGGGGATGG
*
7845122 GGTTTGGGCTTTG-GGGGAAA-ATAGAGTAAAAA
1 GGTTTGGGCTTTGAAGGGAAATA-AG-GTAAAAA
*
7845154 GGTTTGGGCTTTGAAGGGAAATAAGGTAAAAG
1 GGTTTGGGCTTTGAAGGGAAATAAGGTAAAAA
7845186 GGTTTGGG
1 GGTTTGGG
7845194 TTGGTATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 27 0.75
33 8 0.22
34 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.40, T:0.26
Consensus pattern (32 bp):
GGTTTGGGCTTTGAAGGGAAATAAGGTAAAAA
Found at i:7849770 original size:11 final size:11
Alignment explanation
Indices: 7849754--7849779 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7849744 TCGGGAGGCA
7849754 AAGGTAGAACG
1 AAGGTAGAACG
7849765 AAGGTAGAACG
1 AAGGTAGAACG
7849776 AAGG
1 AAGG
7849780 AAGAGGCGAC
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:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (11 bp):
AAGGTAGAACG
Found at i:7854101 original size:2 final size:2
Alignment explanation
Indices: 7854094--7854120 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7854084 TCTTTGAATC
7854094 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 A
7854121 AATTGTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7856687 original size:25 final size:25
Alignment explanation
Indices: 7856653--7856701 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
7856643 ATATTTGTCG
7856653 CCAGAATAGGGTTTCAAAGCATTAC
1 CCAGAATAGGGTTTCAAAGCATTAC
7856678 CCAGAATAGGGTTTCAAAGCATTA
1 CCAGAATAGGGTTTCAAAGCATTA
7856702 ACTCATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
CCAGAATAGGGTTTCAAAGCATTAC
Found at i:7859333 original size:12 final size:13
Alignment explanation
Indices: 7859316--7859344 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7859306 GCCTATTTTT
7859316 AATAAATAAA-TA
1 AATAAATAAACTA
7859328 AATAAATAAACTA
1 AATAAATAAACTA
7859341 AATA
1 AATA
7859345 TATTGAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAAACTA
Found at i:7861205 original size:24 final size:24
Alignment explanation
Indices: 7861160--7861231 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 24
7861150 AAACTTTGCG
7861160 TTTC-TTCTTTCTTTCCCTTTTC-TT
1 TTTCTTTCTTTCTTT--CTTTTCGTT
7861184 TTTCTTTCTTTCTTTCTGTTTCGTT
1 TTTCTTTCTTTCTTTCT-TTTCGTT
7861209 TGGCTTCTTTCTTTCTTTCTTTT
1 T---TTCTTTCTTTCTTTCTTTT
7861232 TTTATTACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.05
24 8 0.19
25 13 0.31
27 3 0.07
28 16 0.38
ACGTcount: A:0.00, C:0.24, G:0.06, T:0.71
Consensus pattern (24 bp):
TTTCTTTCTTTCTTTCTTTTCGTT
Found at i:7874473 original size:16 final size:16
Alignment explanation
Indices: 7874434--7874466 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7874424 CATTTGGTTT
7874434 GCTATAATAGAATAGA
1 GCTATAATAGAATAGA
*
7874450 GCTATAATGGAATAGA
1 GCTATAATAGAATAGA
7874466 G
1 G
7874467 GTGTAATAGT
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:0.06, G:0.24, T:0.24
Consensus pattern (16 bp):
GCTATAATAGAATAGA
Found at i:7874729 original size:20 final size:20
Alignment explanation
Indices: 7874704--7874741 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7874694 AATTATTGTT
7874704 AAATATAATTTAATAAAAAA
1 AAATATAATTTAATAAAAAA
7874724 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
7874742 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATATAATTTAATAAAAAA
Found at i:7874787 original size:58 final size:57
Alignment explanation
Indices: 7874647--7874788 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 57
7874637 TAAATTTTAA
* * * *
7874647 TAATATTA-TTAATATAAATAATAA-ATAATTTAATCATATTTTAACATAATTATTGT
1 TAATATAATTTAATA-AAATAATAATATAATTTAATAAAATTTTAACATAATTATTCT
* *
7874703 TAAATATAATTTAATAAAA-AAAAATATAATTTAATAAAATTTTTAATATAATTATTCT
1 T-AATATAATTTAATAAAATAATAATATAATTTAATAAAA-TTTTAACATAATTATTCT
* *
7874761 T-ATATGAATTTACTAAAATCATAATATA
1 TAATAT-AATTTAATAAAATAATAATATA
7874789 TAATACTATA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
56 9 0.13
57 32 0.45
58 30 0.42
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (57 bp):
TAATATAATTTAATAAAATAATAATATAATTTAATAAAATTTTAACATAATTATTCT
Found at i:7883809 original size:87 final size:86
Alignment explanation
Indices: 7883663--7883926 Score: 322
Period size: 87 Copynumber: 3.1 Consensus size: 86
7883653 AGATCAGTGA
* * *
7883663 AGATCGAAAACAAAGTTTTTCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGGCAGATCTTGC
1 AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
7883728 CTTTCTGCATTGACAGCAAAGC
66 CTTCCTGCATTGACAGC-AAGC
* * * * *
7883750 AGATCGGAAACAAAGTCTTGCCTCTATCAGTTGCAGTGAAGCTGGTTAAAGATAGCAGATCTTAC
1 AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
7883815 CTTCCTGCGTT-A-A-C-AGC
66 CTTCCTGCATTGACAGCAAGC
* *
7883832 AGATCGAAAACAAAGCCTTGTCC-CCATCGGTTGCAGTGGAGTTGGTTAAAGATAGCAGATCTTG
1 AGATCGAAAACAAAGTCTTG-CCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* * * *
7883896 CCCTCCTACATCGACAGTGAAGC
65 CCTTCCTGCATTGACAG-CAAGC
7883919 AGATCGAA
1 AGATCGAA
7883927 GATTACAAGT
Statistics
Matches: 149, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
82 65 0.44
83 3 0.02
84 2 0.01
85 1 0.01
86 1 0.01
87 77 0.52
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (86 bp):
AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTGACAGCAAGC
Found at i:7884180 original size:131 final size:130
Alignment explanation
Indices: 7883936--7884289 Score: 441
Period size: 131 Copynumber: 2.7 Consensus size: 130
7883926 AGATTACAAG
* * * * *
7883936 TCCTATATCCCTGGCCAGTAGTGGAATAGGTTGGAAATTACAAATTTTGTTTCCCTGAA-CAGTA
1 TCCTAT-TCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCT-AAGCAGTA
* * * ** *
7884000 GCGGAGCAGATCAAAGACGAAAAATCTTATCTTCTCCAGGAGCAGGGAAACAGATTTAAGCCACA
64 GCGGAGCAGATCGAAGACGGAAAATCTTATCTTCCCCAACAGCAAGGAAACAGATTTAAGCCACA
7884065 CA
129 CA
* *
7884067 TCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTGTCCCTAAGCAGCAG
1 TCCTAT-TCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAG
** *
7884132 CGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAACAGTAAGGAAACAGATTTAAGCCACAC
65 CGGAGCAGATCGAAGACGGAAAATCTTATCTTCCCCAACAGCAAGGAAACAGATTTAAGCCACAC
*
7884197 G
130 A
* * *
7884198 TCCTA-----TGACCAGCAGTGGAATAGGTTGGAAATTATAGATCTTGTCTCCTTAAGCAATAGC
1 TCCTATTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* *
7884258 GAAGCAGATCGAAGACGGTAAATCTTATCTTC
66 GGAGCAGATCGAAGACGGAAAATCTTATCTTC
7884290 AAGTGTAAGG
Statistics
Matches: 197, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
125 79 0.40
130 2 0.01
131 116 0.59
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (130 bp):
TCCTATTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
GGAGCAGATCGAAGACGGAAAATCTTATCTTCCCCAACAGCAAGGAAACAGATTTAAGCCACACA
Found at i:7884443 original size:44 final size:44
Alignment explanation
Indices: 7884377--7884478 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
7884367 GAAAATGGTG
*
7884377 AATCTTATCTCCCTGATGTTACAGTAGAGCAGATTGAAGCCAAA
1 AATCTTATCTCCCTGATGTTACAGCAGAGCAGATTGAAGCCAAA
* * * **
7884421 AATCTTATCTCCTTGA-GATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGATG-TTACAGCAGAGCAGATTGAAGCCAAA
*
7884465 AATCCTATCTCCCT
1 AATCTTATCTCCCT
7884479 AAGATTATAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 48 0.98
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGATGTTACAGCAGAGCAGATTGAAGCCAAA
Found at i:7884610 original size:142 final size:142
Alignment explanation
Indices: 7884406--7885260 Score: 1460
Period size: 142 Copynumber: 6.0 Consensus size: 142
7884396 TACAGTAGAG
* * * * *
7884406 CAGATTGAAGCCAAAAATCTTATCTCCTTG-AGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 CAGATTGAAGCCACAAATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATTGAGGCCAATAATCC
* * *
7884470 TATCTCCCTAAGATTATAGTGAAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAGTTACAGTA
65 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
7884535 GAGTAGATCGCAT
130 GAGTAGATCGCAT
* * * *
7884548 TAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGGCCAGTAATCCT
1 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
*
7884613 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
7884678 AGTAGATCGCAT
131 AGTAGATCGCAT
*
7884690 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGATGCCAATAATCCT
1 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
*
7884755 ATCTCCTTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
7884820 AGTAGATCGCAT
131 AGTAGATCGCAT
*
7884832 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGATGCCAATAATCCT
1 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
*
7884897 ATCTCCTTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
7884962 AGTAGATCGCAT
131 AGTAGATCGCAT
7884974 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
1 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
* *
7885039 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAG
66 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
7885104 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
7885116 CAGATTGAAGCCACAAATCTTATCTCCCTGAGGTTACAGCGGAGTAGATTGAGGCCAGTAATCCT
1 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
* **
7885181 ATCTCCCTGAGATTACAGTGGAGAAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
7885246 GGTAGATCGCAT
131 AGTAGATCGCAT
7885258 CAG
1 CAG
7885261 GTCTTATCTC
Statistics
Matches: 683, Mismatches: 29, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
142 681 1.00
143 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAGGCCAATAATCCT
ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:7884758 original size:44 final size:43
Alignment explanation
Indices: 7884690--7885242 Score: 231
Period size: 44 Copynumber: 11.9 Consensus size: 43
7884680 TAGATCGCAT
7884690 CAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAG
1 CAGATTGAAGCCA-AAATCTTATCTCCCTGAAGTTACAGCGGAG
* * * *
7884734 CAGATTGATGCCAATAATCCTATCT-CCTTAAGATTACAGTGGAG
1 CAGATTGAAGCCAA-AATCTTATCTCCCTGAAG-TTACAGCGGAG
* *** * *
7884778 CGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCCAAA--ATCTTATCTCCCTGAAGTTAC---AGCG--GA--G
7884829 CATCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAG
1 ---CAGATTGAAGCCA-AAATCTTATCTCCCTGAAGTTACAGCGGAG
* * * *
7884876 CAGATTGATGCCAATAATCCTATCT-CCTTAAGATTACAGTGGAG
1 CAGATTGAAGCCAA-AATCTTATCTCCCTGAAG-TTACAGCGGAG
* *** * *
7884920 CGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCCAAA--ATCTTATCTCCCTGAAGTTAC---AGCG--GA--G
7884971 CATCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTACAGCGGAG
1 ---CAGATTGAAGCCA-AAATCTTATCTCCCTGAAGTTACAGCGGAG
* * *
7885018 CAGATTGAGGCCAATAATCCTATCTCCCTG-AGATTACAGTGGAG
1 CAGATTGAAGCCAA-AATCTTATCTCCCTGAAG-TTACAGCGGAG
* *** * * *
7885062 CGGATT-AAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCCAAA--ATCTTATCTCCCTGAAGTTAC---AGCG--GA--G
*
7885113 CATCAGATTGAAGCCACAAATCTTATCTCCCTGAGGTTACAGCGGAG
1 ---CAGATTGAAGCCA-AAATCTTATCTCCCTGAAGTTACAGCGGAG
* * * * *
7885160 TAGATTGAGGCCAGTAATCCTATCTCCCTG-AGATTACAGTGGAG
1 CAGATTGAAGCCA-AAATCTTATCTCCCTGAAG-TTACAGCGGAG
* *** *
7885204 AAGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAG
1 CAGATTGAAGCCAAA--ATCTTATCTCCCTGAAGTTACAG
7885243 TAGGGTAGAT
Statistics
Matches: 383, Mismatches: 71, Indels: 110
0.68 0.13 0.20
Matches are distributed among these distances:
42 4 0.01
43 29 0.08
44 211 0.55
45 13 0.03
47 12 0.03
49 12 0.03
51 12 0.03
54 75 0.20
55 9 0.02
56 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
CAGATTGAAGCCAAAATCTTATCTCCCTGAAGTTACAGCGGAG
Found at i:7885410 original size:50 final size:50
Alignment explanation
Indices: 7885339--7885616 Score: 254
Period size: 50 Copynumber: 5.6 Consensus size: 50
7885329 AGTGGAACTA
* * * * * *
7885339 ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTGCAGTTAAAAAG
* * * * * *
7885389 ATTAAAGCTACAACAGCGAATCTTACCTCCCAGACAGTGTAG-TGAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTGCAGTTAAAAAG
* * * * * * *
7885438 ATTAAAGCCACAACGGTGAATCTTTCCTCCCTGACATTACGGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTGCAGTTAAAAAG
* * * * **
7885488 ATTAAAGCTACAACAGCGAATCTTACATTCCCAGGCAGTGCAGTGAAGCAG
1 ATTAAAGCCACAACAGCGAATCTTAC-TTCCCAGACATTGCAGTTAAAAAG
* *
7885539 ATTAAAGCCACAACAGCGAATCATACTTCCCTA-ACATTGCAGTTGAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCC-AGACATTGCAGTTAAAAAG
* **
7885589 ATTAAAGCCACGATGGCGAATCTTACTT
1 ATTAAAGCCACAACAGCGAATCTTACTT
7885617 TCCAAAAGTT
Statistics
Matches: 177, Mismatches: 48, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
49 38 0.21
50 99 0.56
51 40 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (50 bp):
ATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTGCAGTTAAAAAG
Found at i:7885588 original size:101 final size:99
Alignment explanation
Indices: 7885339--7885616 Score: 367
Period size: 99 Copynumber: 2.8 Consensus size: 99
7885329 AGTGGAACTA
* * *
7885339 ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTAAAAAGATTAAAGCTACAACA
1 ATTAAAGCCACAACGGTGAATCTTACTTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAACA
* *
7885404 GCGAATCTTACCTCCCAGACAGTGTAGTGAACAG
66 GCGAATCTTACTTCCCAGACAGTGCAGTGAACAG
* * *
7885438 ATTAAAGCCACAACGGTGAATCTTTCCTCCCTGACATTACGGTTAAAAAGATTAAAGCTACAACA
1 ATTAAAGCCACAACGGTGAATCTTACTTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAACA
*
7885503 GCGAATCTTACATTCCCAGGCAGTGCAGTGAAGCAG
66 GCGAATCTTAC-TTCCCAGACAGTGCAGTGAA-CAG
* * * * * * * * **
7885539 ATTAAAGCCACAACAGCGAATCATACTTCCCTAACATTGCAGTTGAAAAGATTAAAGCCACGATG
1 ATTAAAGCCACAACGGTGAATCTTACTTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAACA
7885604 GCGAATCTTACTT
66 GCGAATCTTACTT
7885617 TCCAAAAGTT
Statistics
Matches: 156, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
99 71 0.46
100 19 0.12
101 66 0.42
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (99 bp):
ATTAAAGCCACAACGGTGAATCTTACTTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAACA
GCGAATCTTACTTCCCAGACAGTGCAGTGAACAG
Found at i:7886457 original size:9 final size:10
Alignment explanation
Indices: 7886432--7886456 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7886422 AAGAATCAAA
7886432 GAAAAATATC
1 GAAAAATATC
7886442 GAAAAATATC
1 GAAAAATATC
7886452 GAAAA
1 GAAAA
7886457 TGACTGAAGT
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:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (10 bp):
GAAAAATATC
Found at i:7897112 original size:28 final size:27
Alignment explanation
Indices: 7897081--7897135 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
7897071 TATTTTTAAG
*
7897081 AATTAAAATTAAAT-AGTAATTATAAAAT
1 AATTAAAATAAAATAAGT--TTATAAAAT
*
7897109 AATTATAATAAAATAAGTTTATAAAAT
1 AATTAAAATAAAATAAGTTTATAAAAT
7897136 GTTATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 12 0.50
29 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
AATTAAAATAAAATAAGTTTATAAAAT
Found at i:7903145 original size:14 final size:14
Alignment explanation
Indices: 7903126--7903165 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7903116 TTGATTGTCA
7903126 GTAAAATATTTTTC
1 GTAAAATATTTTTC
* *
7903140 GTAAAATAATTTTG
1 GTAAAATATTTTTC
*
7903154 GGAAAATATTTT
1 GTAAAATATTTT
7903166 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (14 bp):
GTAAAATATTTTTC
Found at i:7907883 original size:23 final size:23
Alignment explanation
Indices: 7907856--7907901 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
7907846 ATGCAAGATT
7907856 AGATATGA-TATGTAAATCTTAGA
1 AGATATGATTATGT-AATCTTAGA
*
7907879 AGATATGATTCTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
7907902 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:7909764 original size:22 final size:25
Alignment explanation
Indices: 7909750--7909802 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
7909740 GAAGTCAAGC
7909750 GAGCC-ATATCAGGAAGCTCATAAA
1 GAGCCTATATCAGGAAGCTCATAAA
*
7909774 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGAAGCTCATAAA
7909799 GAGC
1 GAGC
7909803 TACGATATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
GAGCCTATATCAGGAAGCTCATAAA
Found at i:7916217 original size:3 final size:3
Alignment explanation
Indices: 7916209--7916244 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7916199 GAAACTAGAG
* *
7916209 ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7916245 TCTCACTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
ATT
Found at i:7923895 original size:15 final size:15
Alignment explanation
Indices: 7923865--7923907 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7923855 TAGAAAAATA
7923865 AAATAAAAGAGA-AAG
1 AAATAAAAGA-ATAAG
*
7923880 AATTAAAAGAATAAG
1 AAATAAAAGAATAAG
*
7923895 AAATAATAGAATA
1 AAATAAAAGAATA
7923908 GATAGAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (15 bp):
AAATAAAAGAATAAG
Found at i:7926999 original size:39 final size:39
Alignment explanation
Indices: 7926956--7927035 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
7926946 AACAGCAGCC
*
7926956 TTTGAAGAATCAGTTGCCACATTAACCTCTCCCTCAGAT
1 TTTGAAGAACCAGTTGCCACATTAACCTCTCCCTCAGAT
*
7926995 TTTGAAGAACCAGTTGCCACATTAACTTCTCCCTCAGAT
1 TTTGAAGAACCAGTTGCCACATTAACCTCTCCCTCAGAT
7927034 TT
1 TT
7927036 AGGCACGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (39 bp):
TTTGAAGAACCAGTTGCCACATTAACCTCTCCCTCAGAT
Found at i:7930313 original size:22 final size:21
Alignment explanation
Indices: 7930276--7930318 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7930266 AACAGAATCA
*
7930276 GCTTTTGCAGTACAACAATACT
1 GCTTTTGCAATACAAC-ATACT
*
7930298 GCTTTTGCAATGCAACATACT
1 GCTTTTGCAATACAACATACT
7930319 TAAATTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (21 bp):
GCTTTTGCAATACAACATACT
Found at i:7936746 original size:13 final size:13
Alignment explanation
Indices: 7936730--7936759 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7936720 ATTGTCATGT
7936730 AATTGTTTTTCTG
1 AATTGTTTTTCTG
7936743 AATTGTTTTTCTG
1 AATTGTTTTTCTG
7936756 AATT
1 AATT
7936760 TAGCTGATTG
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:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:7937805 original size:157 final size:157
Alignment explanation
Indices: 7937639--7937948 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
7937629 ATAAGAATAT
*
7937639 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
7937704 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
7937769 TAATAATTTACCAAAACAAATTTTTGG
131 TAATAATTTACCAAAACAAATTTTTGG
* *
7937796 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
7937861 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
7937926 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
7937949 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTTTGG
Found at i:7938099 original size:16 final size:16
Alignment explanation
Indices: 7938078--7938145 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
7938068 GATTTGCTAT
7938078 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7938094 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
7938110 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
7938126 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
7938142 TACA
1 TACA
7938146 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7938206 original size:16 final size:16
Alignment explanation
Indices: 7938185--7938218 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7938175 TGATTCGCTC
7938185 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
7938201 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
7938217 TA
1 TA
7938219 ATAGCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:7938471 original size:16 final size:16
Alignment explanation
Indices: 7938434--7938475 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7938424 TTAATCATAT
*
7938434 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
7938450 TT-AAATATATTATAA
1 TTAAAATATATTATAA
7938465 TTAAAATATAT
1 TTAAAATATAT
7938476 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:7938482 original size:14 final size:15
Alignment explanation
Indices: 7938443--7938484 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7938433 TTTAAACATA
*
7938443 ATTATTATTAAATAT
1 ATTATAATTAAATAT
7938458 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
7938472 A-TATAATTTAATA
1 ATTATAATTAAATA
7938485 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:7938593 original size:16 final size:16
Alignment explanation
Indices: 7938549--7938595 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7938539 TACTATAAAA
*
7938549 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
7938565 TATTATT-AAATATAT
1 TATAATTAAAATATAT
7938580 TATAATTAAAATATAT
1 TATAATTAAAATATAT
7938596 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:7938722 original size:14 final size:15
Alignment explanation
Indices: 7938673--7938724 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7938663 ATAAAATATA
7938673 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
7938688 TATTAAATATATTAT
1 AATTAAATATATTAT
7938703 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
7938716 AATTTAATA
1 AATTAAATA
7938725 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:7938842 original size:14 final size:15
Alignment explanation
Indices: 7938793--7938844 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7938783 ATAAAATATA
7938793 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
7938808 TATTAAATATATTAT
1 AATTAAATATATTAT
7938823 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
7938836 AATTTAATA
1 AATTAAATA
7938845 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:7938980 original size:120 final size:120
Alignment explanation
Indices: 7938437--7938969 Score: 989
Period size: 120 Copynumber: 4.4 Consensus size: 120
7938427 ATCATATTTA
7938437 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
7938502 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
7938557 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
7938622 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
7938677 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
7938742 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
7938797 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
7938862 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAA-TT
* * *
7938917 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
7938970 TAAAATAATT
Statistics
Matches: 406, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
119 3 0.01
120 401 0.99
121 2 0.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:7939056 original size:24 final size:25
Alignment explanation
Indices: 7939010--7939057 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
7939000 TATGAATTTG
7939010 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
7939036 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
7939058 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:7939061 original size:92 final size:92
Alignment explanation
Indices: 7938965--7939193 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
7938955 TGATTTAATA
* * *
7938965 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
7939027 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
7939057 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
7939122 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
7939147 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
7939194 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:7944264 original size:21 final size:21
Alignment explanation
Indices: 7944240--7944280 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7944230 GTTGCAACAA
7944240 AGTTAGAGATTTTGGTTGGCG
1 AGTTAGAGATTTTGGTTGGCG
7944261 AGTTAGAGATTTTGGTTGGC
1 AGTTAGAGATTTTGGTTGGC
7944281 CAAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.37, T:0.39
Consensus pattern (21 bp):
AGTTAGAGATTTTGGTTGGCG
Found at i:7945715 original size:23 final size:23
Alignment explanation
Indices: 7945689--7945741 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
7945679 TAAACAAATT
7945689 TAATTTCCAGCAGACAATCAAAA
1 TAATTTCCAGCAGACAATCAAAA
7945712 TAATTTCCAGCAGACAATCAAAA
1 TAATTTCCAGCAGACAATCAAAA
*
7945735 CAATTTC
1 TAATTTC
7945742 AGAACAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (23 bp):
TAATTTCCAGCAGACAATCAAAA
Found at i:7945760 original size:22 final size:21
Alignment explanation
Indices: 7945727--7945772 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7945717 TCCAGCAGAC
* *
7945727 AATCAAAACAATTTCAGAACA
1 AATCAAAACAATATCAAAACA
7945748 AATCAAGAACAATATCAAAACA
1 AATCAA-AACAATATCAAAACA
7945770 AAT
1 AAT
7945773 GCAACAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.17
Consensus pattern (21 bp):
AATCAAAACAATATCAAAACA
Found at i:7946680 original size:32 final size:34
Alignment explanation
Indices: 7946639--7946702 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
7946629 CTTTTCGATT
* *
7946639 TTCTTTTAA-GAGAATGGTTTTATAAT-GTGACA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
7946671 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
7946703 AATTATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.32
33 15 0.54
34 4 0.14
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (34 bp):
TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
Found at i:7949720 original size:19 final size:19
Alignment explanation
Indices: 7949698--7949767 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
7949688 TTTTAATATG
7949698 ATATTTAAAATTTTTTATT
1 ATATTTAAAATTTTTTATT
* * *
7949717 ATATTT-GAATTTTTAAAT
1 ATATTTAAAATTTTTTATT
* *
7949735 A-ATTTAATATGTTTTATTT
1 ATATTTAAAATTTTTTA-TT
7949754 ATATTTAATAATTT
1 ATATTTAA-AATTT
7949768 GAATAATAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
17 4 0.11
18 16 0.43
19 8 0.22
20 6 0.16
21 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
ATATTTAAAATTTTTTATT
Found at i:7949773 original size:37 final size:36
Alignment explanation
Indices: 7949700--7949774 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 36
7949690 TTAATATGAT
* *
7949700 ATTTAAAATTTTTTATTATATTTGAATTTTTAAATA
1 ATTTAAAATGTTTTATTATATTTGAATATTTAAATA
* *
7949736 ATTTAATATGTTTTATTTATATTT-AATAATTTGAATA
1 ATTTAAAATGTTTTA-TTATATTTGAAT-ATTTAAATA
7949773 AT
1 AT
7949775 AAATTAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (36 bp):
ATTTAAAATGTTTTATTATATTTGAATATTTAAATA
Found at i:7949802 original size:13 final size:13
Alignment explanation
Indices: 7949769--7949802 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7949759 TAATAATTTG
*
7949769 AATAATAAATTAA
1 AATAATTAATTAA
7949782 AA-AATTAATTAA
1 AATAATTAATTAA
7949794 AATAATTAA
1 AATAATTAA
7949803 AAATGTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATTAATTAA
Found at i:7949817 original size:24 final size:25
Alignment explanation
Indices: 7949785--7949832 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
7949775 AAATTAAAAA
7949785 ATTAATT-AAAATAATTAAAAATGT
1 ATTAATTAAAAATAATTAAAAATGT
*
7949809 ATTATTTAAAAAATAATTAAAAAT
1 ATTAATT-AAAAATAATTAAAAAT
7949833 TAAACGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
26 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATTAAAAATAATTAAAAATGT
Found at i:7954098 original size:16 final size:16
Alignment explanation
Indices: 7954077--7954108 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7954067 CGGAGTCACA
7954077 ATTGAAAAAGGACCTT
1 ATTGAAAAAGGACCTT
*
7954093 ATTGAAAAGGGACCTT
1 ATTGAAAAAGGACCTT
7954109 GTTAGATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (16 bp):
ATTGAAAAAGGACCTT
Found at i:7955276 original size:12 final size:12
Alignment explanation
Indices: 7955260--7955320 Score: 68
Period size: 12 Copynumber: 4.8 Consensus size: 12
7955250 AAAATATTTC
*
7955260 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
7955273 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
7955285 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
*
7955299 AAAAAGAAAAAG
1 AAAAAGAAAAGG
7955311 AAAAAGAAAA
1 AAAAAGAAAA
7955321 AGTAAAAGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
12 24 0.55
13 10 0.23
14 10 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:7955291 original size:7 final size:6
Alignment explanation
Indices: 7955272--7955328 Score: 78
Period size: 6 Copynumber: 9.2 Consensus size: 6
7955262 AAAAAAAGAG
*
7955272 GAAAAA GAAAAG GAAAAA GGAAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA -G-AAAAA GAAAAA GAAAAA GAAAAA GAAAAA
*
7955322 GTAAAA G
1 GAAAAA G
7955329 GAGAGGCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
6 39 0.85
7 2 0.04
8 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:7956799 original size:44 final size:44
Alignment explanation
Indices: 7956747--7957577 Score: 264
Period size: 44 Copynumber: 19.2 Consensus size: 44
7956737 GATAGTGGGA
*
7956747 AGCAGATTAAAGTCGACAATCCTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * *
7956791 AGCGGATTAAAATC-ACAGATCTTATC-CCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCC-CTAAAGTTGCAGTGG
*** * * * *
7956834 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTACAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * *
7956875 AGCAGACT-AAGT-AAGCAAGTCTTATC-CTTCTAAAGTTACAGT-G
1 AGCAGATTAAAGTCGA-CAA-TCTTATCTC-CCTAAAGTTGCAGTGG
* * * *
7956918 AGGCAGACTGAAGAT-GGCAAATCTTATCTTCCTAAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTAAAGTTGCAGTGG
* * *
7956964 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * * * * *
7957008 AGCGGATTAAAAT-TACAAATCTTATCTCTCTGAAGTTACAG-AG
1 AGCAGATTAAAGTCGAC-AATCTTATCTCCCTAAAGTTGCAGTGG
*** * * * *
7957051 AGCAGATCGCA-TC--TAGTCTTATCTCCCTTAAGTTGCGGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * *
7957092 A-CAAGACT-AAGT-AAGCAAGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAAAGTCGA-CAA-TCTTATCTC-CCTAAAGTTGCAGTGG
* * * * *
7957135 AGGCAGACTGAAGAT-GGCAAATCTTATCTTCCTAAAGTTGCGGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTAAAGTTGCAGTGG
* * *
7957181 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * * * * *
7957225 AGCGGATTAAAAT-TACAGATCTTACCTCTCTAAAGTTACAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTAAAGTTGCAGTGG
*** * * * * *
7957268 AGCAGATCGCA-TC--TAGTCTTATCTTCCTGAAGTTGCGGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * **
7957309 A-CAAGACT-AAGT-AAGCAAGTCTTATC-CTCCTGAAGTTATAGT-G
1 AGC-AGATTAAAGTCGA-CAA-TCTTATCTC-CCTAAAGTTGCAGTGG
* * * * *
7957352 AGGCAGACTGAAGAT-GGCAAATCTTATCTCCCTGAAGTTGCAGTAG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTAAAGTTGCAGTGG
* * * * * *
7957398 AACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * * * *
7957442 AGCGGATTAAAATC-ACAGATCTTATCTCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTAAAGTTGCAGTGG
*** * * * * *
7957485 AGCAGATCGCA-TC--TAGTCTTATATCCCTGAAGTTGCAGTAG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
* * ** *
7957526 AGCAGACTAAGGAAG-CAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAA-TCTTATCTCCCTAAAGTTGCAGTGG
*
7957570 AGTAGATT
1 AGCAGATT
7957578 GAAGCACTAA
Statistics
Matches: 585, Mismatches: 144, Indels: 116
0.69 0.17 0.14
Matches are distributed among these distances:
40 78 0.13
41 33 0.06
42 6 0.01
43 57 0.10
44 294 0.50
45 101 0.17
46 16 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCAGATTAAAGTCGACAATCTTATCTCCCTAAAGTTGCAGTGG
Found at i:7957130 original size:217 final size:217
Alignment explanation
Indices: 7956747--7957568 Score: 1335
Period size: 217 Copynumber: 3.8 Consensus size: 217
7956737 GATAGTGGGA
* *
7956747 AGCAGATTAAAGTCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * *
7956812 TTATCCCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAG
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
7956877 CAGACTAAGTAAGCAAGTCTTATCCTTCTAAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
131 CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
7956942 TATCTTCCTAAAGTTGCAGTGG
196 TATCTTCCTAAAGTTGCAGTGG
* *
7956964 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTACAAATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* *
7957029 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTTAAGTTGCGGTGGA-
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
7957093 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
131 C-AGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
*
7957158 TTATCTTCCTAAAGTTGCGGTGG
195 TTATCTTCCTAAAGTTGCAGTGG
*
7957181 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * * *
7957246 TTACCTCTCTAAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTTCCTGAAGTTGCGGTGGA-
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
7957310 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTATAGTGAGGCAGACTGAAGATGGCAAATC
131 C-AGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
* * *
7957375 TTATCTCCCTGAAGTTGCAGTAG
195 TTATCTTCCTAAAGTTGCAGTGG
* * *
7957398 AACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * *
7957463 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATATCCCTGAAGTTGCAGTAGAG
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
7957528 CAGACTAAGGAAGCAAGTCTTAT-CTCCCTGAAGTTGCAGTG
131 CAGACTAAGTAAGCAAGTCTTATCCT-CCTGAAGTTACAGTG
7957569 GAGTAGATTG
Statistics
Matches: 566, Mismatches: 36, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
216 3 0.01
217 562 0.99
218 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
TATCTTCCTAAAGTTGCAGTGG
Found at i:7957601 original size:128 final size:128
Alignment explanation
Indices: 7957373--7957610 Score: 277
Period size: 128 Copynumber: 1.9 Consensus size: 128
7957363 AGATGGCAAA
* * **
7957373 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATATCCCTGAAGTTGCAGTAGAACAGACTAAAGAAGATAATCCTATCTCCCTGAAGTTGCA
* * * *
7957438 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 GTAGAGCAGATTAAAAGCACAGATCCTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCTAG
* * * *
7957501 TCTTATATCCCTGAAGTTGCAGTAGAGCAGACTAAGGAAGCA-AGTCTTATCTCCCTGAAGTTGC
1 TCTTATATCCCTGAAGTTGCAGTAGAACAGACTAAAGAAG-ATAATCCTATCTCCCTGAAGTTGC
* * *
7957565 AGTGGAGTAGATT-GAAGCACTA-ATTCCTATAC-CTCTGAAGATGCAG
65 AGTAGAGCAGATTAAAAGCAC-AGA-TCCTAT-CTCTCTGAAGATGCAG
7957611 TAGGAAGGAA
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
127 6 0.07
128 83 0.91
129 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (128 bp):
TCTTATATCCCTGAAGTTGCAGTAGAACAGACTAAAGAAGATAATCCTATCTCCCTGAAGTTGCA
GTAGAGCAGATTAAAAGCACAGATCCTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCTAG
Found at i:7957809 original size:19 final size:19
Alignment explanation
Indices: 7957785--7957897 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
7957775 AATTTTTGAG
7957785 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
7957804 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
7957823 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
7957844 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
7957863 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7957882 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
7957898 ATATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7957830 original size:40 final size:40
Alignment explanation
Indices: 7957786--7957892 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
7957776 ATTTTTGAGG
*
7957786 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
**
7957826 ATATGCAATCTTAGATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
7957866 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
7957893 TTAGAATATA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 23 0.36
40 41 0.64
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
Found at i:7959309 original size:98 final size:98
Alignment explanation
Indices: 7959176--7959372 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
7959166 TTAAAAATAA
* * *
7959176 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
7959241 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
7959274 TAAAGGAAATATTCCGAGTTTGAGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
7959339 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
7959372 T
1 T
7959373 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:7962866 original size:21 final size:21
Alignment explanation
Indices: 7962840--7962880 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7962830 ACGGGGTATC
*
7962840 GAGACCTCGATTTTATAAATT
1 GAGACCTCAATTTTATAAATT
*
7962861 GAGACCTTAATTTTATAAAT
1 GAGACCTCAATTTTATAAAT
7962881 CGAGTCATAA
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:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
GAGACCTCAATTTTATAAATT
Found at i:7964190 original size:42 final size:42
Alignment explanation
Indices: 7964121--7964226 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
7964111 GAGTTGCAGT
* * * * *
7964121 TTAACCCTTCTGGGTTTTAGTTTAGCTCTTCTGAGCTTCAAA
1 TTAACCCTTATGGGTTTTCGTTCAGCTCCTATGAGCTTCAAA
* ***
7964163 TTAACCCTTATGGGTTTCCGTTCAGCTCCTATGAGCTTCCGT
1 TTAACCCTTATGGGTTTTCGTTCAGCTCCTATGAGCTTCAAA
*
7964205 TTAACCCTTACGGGTTTTCGTT
1 TTAACCCTTATGGGTTTTCGTT
7964227 TAGAATTTAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.42
Consensus pattern (42 bp):
TTAACCCTTATGGGTTTTCGTTCAGCTCCTATGAGCTTCAAA
Found at i:7965475 original size:9 final size:9
Alignment explanation
Indices: 7965461--7965555 Score: 84
Period size: 9 Copynumber: 10.2 Consensus size: 9
7965451 TTTGGTTAAA
7965461 AATTACCCG
1 AATTACCCG
*
7965470 AATTACCTG
1 AATTACCCG
7965479 AATTACCCG
1 AATTACCCG
*
7965488 -ATTAACCG
1 AATTACCCG
*
7965496 AATTAACCG
1 AATTACCCG
* *
7965505 AATTAACTG
1 AATTACCCG
*
7965514 AATTACCCAAA
1 AATTACCC--G
*
7965525 AATTACCCAAA
1 AATTACCC--G
7965536 AATTACCCG
1 AATTACCCG
7965545 AATTACCCG
1 AATTACCCG
7965554 AA
1 AA
7965556 AATTTACCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
8 7 0.09
9 49 0.65
11 19 0.25
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:7965530 original size:11 final size:11
Alignment explanation
Indices: 7965514--7965569 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
7965504 GAATTAACTG
7965514 AATTACCCAAA
1 AATTACCCAAA
7965525 AATTACCCAAA
1 AATTACCCAAA
*
7965536 AATTACCC--G
1 AATTACCCAAA
7965545 AATTACCCGAAA
1 AATTACCC-AAA
*
7965557 ATTTACCCAAA
1 AATTACCCAAA
7965568 AA
1 AA
7965570 GTTCGGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 8 0.21
11 23 0.61
12 7 0.18
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.20
Consensus pattern (11 bp):
AATTACCCAAA
Found at i:7965548 original size:20 final size:21
Alignment explanation
Indices: 7965525--7965564 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7965515 ATTACCCAAA
7965525 AATTACCC-AAAAATTACCCG
1 AATTACCCGAAAAATTACCCG
*
7965545 AATTACCCGAAAATTTACCC
1 AATTACCCGAAAAATTACCC
7965565 AAAAAGTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.30, G:0.05, T:0.23
Consensus pattern (21 bp):
AATTACCCGAAAAATTACCCG
Found at i:7969496 original size:54 final size:52
Alignment explanation
Indices: 7969432--7969590 Score: 197
Period size: 54 Copynumber: 3.1 Consensus size: 52
7969422 GTATTGTCGA
7969432 CTACATGATTTTTTGTAAATTATTGTATATTTAACTAACCCCATAATTAAAATT
1 CTACATGATTTTTTGTAAATTATTGTATATTTAACTAA-CCCATAATT-AAATT
*
7969486 CTACATGATTTTTTGTAAATTATTGTATATTT-A--AA---AT-ATGTGAATT
1 CTACATGATTTTTTGTAAATTATTGTATATTTAACTAACCCATAAT-TAAATT
7969532 GCTACATGATTTTTTTGTAAATTATTGTATATTTAACTAACTCCATAATTTAAATT
1 -CTACATGA-TTTTTTGTAAATTATTGTATATTTAACTAAC-CCATAA-TTAAATT
7969588 CTA
1 CTA
7969591 AATTTTATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 23
0.78 0.02 0.20
Matches are distributed among these distances:
46 6 0.07
47 11 0.12
48 24 0.26
49 1 0.01
51 4 0.04
53 1 0.01
54 32 0.35
55 5 0.05
56 6 0.07
57 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (52 bp):
CTACATGATTTTTTGTAAATTATTGTATATTTAACTAACCCATAATTAAATT
Found at i:7978421 original size:18 final size:19
Alignment explanation
Indices: 7978394--7978431 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
7978384 TTTATAGTTT
7978394 TAAATGATTTTTGGG-TAAA
1 TAAATGA-TTTTGGGTTAAA
7978413 TAAAT-ATTTTGGGTTAAA
1 TAAATGATTTTGGGTTAAA
7978431 T
1 T
7978432 TAGAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
TAAATGATTTTGGGTTAAA
Found at i:7983886 original size:24 final size:25
Alignment explanation
Indices: 7983859--7983910 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
7983849 ATTTTGTTAG
*
7983859 TTATTATTATT-TTATTCATTTA-TT
1 TTATTATTATTAATATT-ATTTAGTT
*
7983883 TTATTTTTATTAATATTATTTAGTT
1 TTATTATTATTAATATTATTTAGTT
7983908 TTA
1 TTA
7983911 GTTTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TTATTATTATTAATATTATTTAGTT
Found at i:7983904 original size:19 final size:18
Alignment explanation
Indices: 7983860--7983910 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
7983850 TTTTGTTAGT
*
7983860 TATTA-TTATTTTATTCA
1 TATTATTTATTTTATTAA
7983877 T-TTATTTTATTTTTATTAA
1 TATTA-TTTA-TTTTATTAA
7983896 TATTATTTAGTTTTA
1 TATTATTTA-TTTTA
7983911 GTTTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 3 0.11
17 1 0.04
18 3 0.11
19 18 0.64
20 3 0.11
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TATTATTTATTTTATTAA
Found at i:7983909 original size:20 final size:19
Alignment explanation
Indices: 7983859--7983903 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
7983849 ATTTTGTTAG
*
7983859 TTATTATTA-TTTTATTCAT
1 TTATT-TTATTTTTATTAAT
7983878 TTATTTTATTTTTATTAAT
1 TTATTTTATTTTTATTAAT
7983897 ATTATTT
1 -TTATTT
7983904 AGTTTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTATTTTTATTAAT
Found at i:7993460 original size:18 final size:17
Alignment explanation
Indices: 7993432--7993466 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7993422 ATTATTAAGA
*
7993432 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7993449 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7993467 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7993604 original size:18 final size:17
Alignment explanation
Indices: 7993576--7993610 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7993566 ATTATTAAGA
*
7993576 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7993593 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7993611 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7993821 original size:44 final size:45
Alignment explanation
Indices: 7993772--7993866 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
7993762 TTACACCTCT
* *
7993772 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
* ** *
7993816 ATTACATTCAACCAAATAGTTGATTTACTATTACACCTCTATTCT
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
7993861 ATTACA
1 ATTACA
7993867 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:7996711 original size:14 final size:14
Alignment explanation
Indices: 7996692--7996721 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7996682 TCTCGTATTC
7996692 GAGTCTTGTGGATG
1 GAGTCTTGTGGATG
7996706 GAGTCTTGTGGATG
1 GAGTCTTGTGGATG
7996720 GA
1 GA
7996722 AAAACAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.43, T:0.33
Consensus pattern (14 bp):
GAGTCTTGTGGATG
Found at i:7997193 original size:2 final size:2
Alignment explanation
Indices: 7997181--7997219 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7997171 AACCTAAACA
*
7997181 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7997220 ACGTGAGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:7999163 original size:21 final size:21
Alignment explanation
Indices: 7999138--7999181 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7999128 ATCTTCGAGG
7999138 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
7999159 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
7999180 AT
1 AT
7999182 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:7999187 original size:19 final size:19
Alignment explanation
Indices: 7999137--7999192 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
7999127 AATCTTCGAG
7999137 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7999156 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
7999177 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
7999193 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7999199 original size:22 final size:23
Alignment explanation
Indices: 7999171--7999215 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7999161 ATGCAATCTT
*
7999171 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
*
7999193 AGATATGATTTTGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
7999216 TATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:8003897 original size:15 final size:15
Alignment explanation
Indices: 8003849--8003890 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8003839 ATGCATGAAT
8003849 AATAAT-ACAAGTAAC
1 AATAATAACAA-TAAC
*
8003864 CAT-ATAACAATAAC
1 AATAATAACAATAAC
8003878 AATAATAACAATA
1 AATAATAACAATA
8003891 GCGATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAATAACAATAAC
Found at i:8009234 original size:16 final size:15
Alignment explanation
Indices: 8009213--8009242 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8009203 CTATCTAACT
8009213 CAAAATAAAGATTTAA
1 CAAAATAAA-ATTTAA
8009229 CAAAATAAAATTTA
1 CAAAATAAAATTTA
8009243 GATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
CAAAATAAAATTTAA
Found at i:8009461 original size:23 final size:22
Alignment explanation
Indices: 8009424--8009488 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 22
8009414 TTGTACAATA
* *
8009424 AATTTAATTATTATTAGATTAAT
1 AATTTAATAAATATTA-ATTAAT
*
8009447 AATTTAATAAATATTATTTAAT
1 AATTTAATAAATATTAATTAAT
8009469 ATATAATTAATATAATATTA
1 A-AT--TTAATA-AATATTA
8009489 TTTTATAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 6 0.17
23 16 0.46
25 6 0.17
26 7 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTTAATAAATATTAATTAAT
Found at i:8009467 original size:14 final size:14
Alignment explanation
Indices: 8009448--8009496 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8009438 TAGATTAATA
8009448 ATTTAATAAATATT
1 ATTTAATAAATATT
8009462 ATTTAAT--ATA-T
1 ATTTAATAAATATT
*
8009473 AATTAATATAATATT
1 ATTTAATA-AATATT
*
8009488 ATTTTATAA
1 ATTTAATAA
8009497 CATTGGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
11 7 0.25
12 3 0.11
14 11 0.39
15 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTAATAAATATT
Found at i:8014880 original size:27 final size:27
Alignment explanation
Indices: 8014857--8014967 Score: 168
Period size: 27 Copynumber: 4.1 Consensus size: 27
8014847 CAGGTTGCGG
*
8014857 CTATTTGATAGGCGCGACTAGTTGAGC
1 CTATCTGATAGGCGCGACTAGTTGAGC
* *
8014884 CTATCTCAAAGGCGCGACTAGTTGAGC
1 CTATCTGATAGGCGCGACTAGTTGAGC
**
8014911 CTATCTGATAGGCATGACTAGTTGAGC
1 CTATCTGATAGGCGCGACTAGTTGAGC
*
8014938 CTATCTGACAGGCGCGACTAGTTGAGC
1 CTATCTGATAGGCGCGACTAGTTGAGC
8014965 CTA
1 CTA
8014968 ACTCAGAGGC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (27 bp):
CTATCTGATAGGCGCGACTAGTTGAGC
Found at i:8014992 original size:54 final size:54
Alignment explanation
Indices: 8014875--8014992 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
8014865 TAGGCGCGAC
* * * * *
8014875 TAGTTGAGCCTATCTCAAAGGCGCGACTAGTTGAGCCTATCTGATAGGCATGAC
1 TAGTGGAGCCTATCTCAAAGGCGCGACTAGTTGAGCCTAACTCAGAGGCATGAA
* * * *
8014929 TAGTTGAGCCTATCTGACAGGCGCGACTAGTTGAGCCTAACTCAGAGGCGTGAA
1 TAGTGGAGCCTATCTCAAAGGCGCGACTAGTTGAGCCTAACTCAGAGGCATGAA
*
8014983 TGGTGGAGCC
1 TAGTGGAGCC
8014993 CACTGCTGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (54 bp):
TAGTGGAGCCTATCTCAAAGGCGCGACTAGTTGAGCCTAACTCAGAGGCATGAA
Found at i:8018227 original size:17 final size:18
Alignment explanation
Indices: 8018205--8018238 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8018195 TTGACTATTT
8018205 AAATTGA-AAATAAAATA
1 AAATTGATAAATAAAATA
8018222 AAATTGATAAATAAAAT
1 AAATTGATAAATAAAAT
8018239 GCCAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTGATAAATAAAATA
Found at i:8020909 original size:60 final size:60
Alignment explanation
Indices: 8020816--8020934 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
8020806 ATACTAAACT
* * *
8020816 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
8020876 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
8020935 TAAAAAGTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:8021045 original size:3 final size:3
Alignment explanation
Indices: 8021039--8021090 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
8021029 TTTTCTTTCT
*
8021039 TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC TT- TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8021084 TTC TTC T
1 TTC TTC T
8021091 CCTTTCTCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 6 0.13
3 39 0.87
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:8021052 original size:9 final size:9
Alignment explanation
Indices: 8021028--8021090 Score: 67
Period size: 9 Copynumber: 7.1 Consensus size: 9
8021018 TACATTACTT
8021028 TTTTTCTT-
1 TTTTTCTTC
*
8021036 TCTTTCTTC
1 TTTTTCTTC
8021045 TTTTTCTTC
1 TTTTTCTTC
*
8021054 TTCTTCTTC
1 TTTTTCTTC
*
8021063 TTCTTCTTC
1 TTTTTCTTC
*
8021072 -TCTTCTTC
1 TTTTTCTTC
8021080 TTTTTTCTTC
1 -TTTTTCTTC
8021090 T
1 T
8021091 CCTTTCTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
8 15 0.31
9 26 0.54
10 7 0.15
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:8021054 original size:12 final size:12
Alignment explanation
Indices: 8021034--8021095 Score: 72
Period size: 12 Copynumber: 5.1 Consensus size: 12
8021024 ACTTTTTTTC
8021034 TTTCTTTCTTCTT
1 TTTC-TTCTTCTT
8021047 TTTCTTCTTCTT
1 TTTCTTCTTCTT
*
8021059 CTTCTTCTTC-T
1 TTTCTTCTTCTT
*
8021070 TCTCTTCTTCTTT
1 TTTCTTCTTC-TT
*
8021083 TTTCTTCTCCTT
1 TTTCTTCTTCTT
8021095 T
1 T
8021096 CTCTCTTCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.21
12 20 0.48
13 13 0.31
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTCTTCTT
Found at i:8021091 original size:18 final size:17
Alignment explanation
Indices: 8021028--8021091 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 17
8021018 TACATTACTT
8021028 TTTTTCTT-TCTTTCTTC
1 TTTTTCTTCTC-TTCTTC
8021045 TTTTTCTTCTTCTTCTTC
1 TTTTTCTTC-TCTTCTTC
*
8021063 TTCTTCTTCTCTTCTTC
1 TTTTTCTTCTCTTCTTC
8021080 TTTTTTCTTCTC
1 -TTTTTCTTCTC
8021092 CTTTCTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 16 0.38
18 24 0.57
19 2 0.05
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCTTCTCTTCTTC
Found at i:8027057 original size:13 final size:13
Alignment explanation
Indices: 8027041--8027072 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
8027031 ATATGTGTTT
8027041 AAATTTCGTGTGA
1 AAATTTCGTGTGA
8027054 AAATTTCGTGTGA
1 AAATTTCGTGTGA
8027067 AAATTT
1 AAATTT
8027073 GAAGGCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (13 bp):
AAATTTCGTGTGA
Found at i:8028620 original size:41 final size:41
Alignment explanation
Indices: 8028425--8028624 Score: 258
Period size: 41 Copynumber: 4.9 Consensus size: 41
8028415 TATAATTGGT
* * * *
8028425 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCAGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
8028466 TTTCAGACTTTATGTCTAGTAGGCTTGATGCCAGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* * *
8028507 CTTCAGGCTTTATGTCTAGCACGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* * *
8028548 CTTCAGACTTTATGTCTAGTAGGCTTGATGCTGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
8028589 TTTCAGAC-TTATTGTCTAGCAGGCTTCATGCTGGTG
1 TTTCAGACTTTA-TGTCTAGCAGGCTTGATGCCGGTG
8028625 TACTTTAGTA
Statistics
Matches: 142, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 3 0.02
41 139 0.98
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:8029760 original size:43 final size:43
Alignment explanation
Indices: 8029711--8029805 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
8029701 GTATAATTTT
* * *
8029711 ATGTAAGACCATGTCTGGGACACTGTCATCGATATGAGATTAC
1 ATGTAAGACCATGTCTGGGACACTGACATCGAGATGAGATAAC
* * * *
8029754 GTGTAAGACCCTGTCTGGGACAGTGACATCGAGATGTGATAAC
1 ATGTAAGACCATGTCTGGGACACTGACATCGAGATGAGATAAC
8029797 ATGTAAGAC
1 ATGTAAGAC
8029806 TATATCTGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACACTGACATCGAGATGAGATAAC
Found at i:8030549 original size:69 final size:69
Alignment explanation
Indices: 8030401--8030532 Score: 228
Period size: 69 Copynumber: 1.9 Consensus size: 69
8030391 TGATAATAAG
* *
8030401 GCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTACAAATCTATGTTGTCCAAATGTTAT
1 GCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCAATGTTGTCCAAATGTTAT
8030466 TAAT
66 TAAT
* *
8030470 GCTGTCCAAATTAGTGCTTAAATGCTGTCCTTTTTTGGTACAAGTCAATGTTGTCCAAATGTT
1 GCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCAATGTTGTCCAAATGTT
8030533 TTTGCTGTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (69 bp):
GCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCAATGTTGTCCAAATGTTAT
TAAT
Found at i:8033150 original size:20 final size:22
Alignment explanation
Indices: 8033125--8033180 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
8033115 TAAATATATT
8033125 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
*
8033145 AATATATTATATTATATTATAT
1 AATATATTATATTATATTATAA
*
8033167 TATATTATTATATT
1 AATA-TATTATATT
8033181 TTAAATAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 10 0.32
21 2 0.06
22 10 0.32
23 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:8033180 original size:5 final size:5
Alignment explanation
Indices: 8033119--8033174 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
8033109 ATGTTTTAAA
*
8033119 TATAT TA-A- TATAT TAT-T T-TAT TATAAAA TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TAT--AT TATAT TATAT TATAT TATAT
8033167 TATAT TAT
1 TATAT TAT
8033175 TATATTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.07
4 6 0.14
5 30 0.70
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:8033430 original size:16 final size:16
Alignment explanation
Indices: 8033409--8033444 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8033399 AGACGAAAAA
* *
8033409 GAAAGAAAGGAAAGGG
1 GAAAGAAAAGAAAAGG
8033425 GAAAGAAAAGAAAAGG
1 GAAAGAAAAGAAAAGG
8033441 GAAA
1 GAAA
8033445 AACTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAGG
Found at i:8034457 original size:20 final size:20
Alignment explanation
Indices: 8034406--8034457 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
8034396 AAATCATTGC
8034406 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
8034426 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
8034444 AATATATGTAAAAA
1 AATATATGTAAAAA
8034458 CAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:8034505 original size:32 final size:33
Alignment explanation
Indices: 8034469--8034555 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 33
8034459 AACTTTTCCG
** *
8034469 GAAAATATTTT-CAGAAAATCTGTCAAACAGCA
1 GAAAATATTTTACAGAAAATCAATCAAACACCA
* * *
8034501 GAAAATATTTTACACAGATTCAATCAAACACCA
1 GAAAATATTTTACAGAAAATCAATCAAACACCA
* *
8034534 GAAAATATTTTCCAGTAAATCA
1 GAAAATATTTTACAGAAAATCA
8034556 TTTTACAGAA
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
32 11 0.26
33 32 0.74
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGAAAATCAATCAAACACCA
Found at i:8034587 original size:34 final size:35
Alignment explanation
Indices: 8034535--8034601 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
8034525 CAAACACCAG
*
8034535 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
8034570 AAAACATTTTTCA-TAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
8034602 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8035183 original size:23 final size:23
Alignment explanation
Indices: 8035157--8035208 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
8035147 AAGCACTTTA
* *
8035157 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATATCAGGCACATCG
8035180 TGTGTC--ATATCAGGCACATCG
1 TGTGTCGTATATCAGGCACATCG
8035201 TGTGTCGT
1 TGTGTCGT
8035209 TTCAGACACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 19 0.76
23 6 0.24
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (23 bp):
TGTGTCGTATATCAGGCACATCG
Found at i:8035550 original size:18 final size:18
Alignment explanation
Indices: 8035527--8035564 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8035517 TGTTATTGTT
8035527 AATTAA-TGAAAGTTTAAG
1 AATTAATTGAAA-TTTAAG
*
8035545 AATTAATTGATATTTAAG
1 AATTAATTGAAATTTAAG
8035563 AA
1 AA
8035565 ATTGGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (18 bp):
AATTAATTGAAATTTAAG
Found at i:8037360 original size:5 final size:5
Alignment explanation
Indices: 8037340--8037391 Score: 79
Period size: 5 Copynumber: 10.4 Consensus size: 5
8037330 AATAAATAAG
*
8037340 TATTA TTTTA -ATTA TATTA TATTA TATTA TATTA TATTA TATTA TATGTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA
8037390 TA
1 TA
8037392 ACTTAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
4 3 0.07
5 36 0.84
6 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:8038477 original size:41 final size:41
Alignment explanation
Indices: 8038432--8038511 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
8038422 TTGATGGTAC
* *
8038432 ATTGATT-GAAAAGTGGAAAATGTATTGGTATTGAATTGTAT
1 ATTGATTAG-AAAGTGGAAAATGAATTGGAATTGAATTGTAT
* *
8038473 ATTGATTAGAAAGTGGAAAGTGAATTTGAATTGAATTGT
1 ATTGATTAGAAAGTGGAAAATGAATTGGAATTGAATTGT
8038512 GATTGAATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (41 bp):
ATTGATTAGAAAGTGGAAAATGAATTGGAATTGAATTGTAT
Found at i:8041638 original size:32 final size:34
Alignment explanation
Indices: 8041561--8041649 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 34
8041551 CATCCAATGC
*
8041561 TTAAATCAATTCGGCAATATATATGTATACATAT
1 TTAAATCAATTCGGCAATATATATATATACATAT
** *
8041595 ACAAATCAATTCGG-AA-ATGTATATAT-CTATAT
1 TTAAATCAATTCGGCAATATATATATATAC-ATAT
*
8041627 TTAAATCAATTCAGCAATATATA
1 TTAAATCAATTCGGCAATATATA
8041650 AAACATATAC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 1 0.02
32 23 0.52
33 4 0.09
34 16 0.36
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (34 bp):
TTAAATCAATTCGGCAATATATATATATACATAT
Found at i:8044451 original size:62 final size:63
Alignment explanation
Indices: 8044372--8044526 Score: 172
Period size: 62 Copynumber: 2.5 Consensus size: 63
8044362 TAATAAACTT
* * *
8044372 GTGATGAATGTGCTGGTGCAGGGAAAGATTGCT-CATG-TAATGGTGCTTATATGAAATAAA-GG
1 GTGATGAATGTGTTGGTGCAGGGAAAGATTG-TGCATGAT-ATGGTGCTTATATAAAATAAATCG
* * *
8044434 GTGATGAATGTGTTGGTGCAGGGAACGATTGTGCGTGATATGGTGCTTATGTAAAATAAATCG
1 GTGATGAATGTGTTGGTGCAGGGAAAGATTGTGCATGATATGGTGCTTATATAAAATAAATCG
* * * * *
8044497 GAGTTGTATGTGTTGATGCAGGGAATGATT
1 GTGATGAATGTGTTGGTGCAGGGAAAGATT
8044527 ATGTGTACTG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 1 0.01
62 51 0.65
63 27 0.34
ACGTcount: A:0.28, C:0.07, G:0.34, T:0.32
Consensus pattern (63 bp):
GTGATGAATGTGTTGGTGCAGGGAAAGATTGTGCATGATATGGTGCTTATATAAAATAAATCG
Found at i:8045659 original size:41 final size:41
Alignment explanation
Indices: 8045614--8045693 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
8045604 TTGATGGTAC
* *
8045614 ATTGATT-GAAAAGTGGAAAATGTATTGGTATTGAATTGTAT
1 ATTGATTAG-AAAGTGGAAAATGAATTGGAATTGAATTGTAT
* *
8045655 ATTGATTAGAAAGTGGAAAGTGAATTTGAATTGAATTGT
1 ATTGATTAGAAAGTGGAAAATGAATTGGAATTGAATTGT
8045694 GATTGAATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (41 bp):
ATTGATTAGAAAGTGGAAAATGAATTGGAATTGAATTGTAT
Found at i:8048820 original size:32 final size:34
Alignment explanation
Indices: 8048743--8048831 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 34
8048733 CATCCAATGC
*
8048743 TTAAATCAATTCGGCAATATATATGTATACATAT
1 TTAAATCAATTCGGCAATATATATATATACATAT
** *
8048777 ACAAATCAATTCGG-AA-ATGTATATAT-CTATAT
1 TTAAATCAATTCGGCAATATATATATATAC-ATAT
*
8048809 TTAAATCAATTCAGCAATATATA
1 TTAAATCAATTCGGCAATATATA
8048832 AAACATATAC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 1 0.02
32 23 0.52
33 4 0.09
34 16 0.36
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (34 bp):
TTAAATCAATTCGGCAATATATATATATACATAT
Found at i:8051633 original size:62 final size:63
Alignment explanation
Indices: 8051554--8051708 Score: 172
Period size: 62 Copynumber: 2.5 Consensus size: 63
8051544 TAATAAACTT
* * *
8051554 GTGATGAATGTGCTGGTGCAGGGAAAGATTGCT-CATG-TAATGGTGCTTATATGAAATAAA-GG
1 GTGATGAATGTGTTGGTGCAGGGAAAGATTG-TGCATGAT-ATGGTGCTTATATAAAATAAATCG
* * *
8051616 GTGATGAATGTGTTGGTGCAGGGAACGATTGTGCGTGATATGGTGCTTATGTAAAATAAATCG
1 GTGATGAATGTGTTGGTGCAGGGAAAGATTGTGCATGATATGGTGCTTATATAAAATAAATCG
* * * * *
8051679 GAGTTGTATGTGTTGATGCAGGGAATGATT
1 GTGATGAATGTGTTGGTGCAGGGAAAGATT
8051709 ATGTGTACTG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 1 0.01
62 51 0.65
63 27 0.34
ACGTcount: A:0.28, C:0.07, G:0.34, T:0.32
Consensus pattern (63 bp):
GTGATGAATGTGTTGGTGCAGGGAAAGATTGTGCATGATATGGTGCTTATATAAAATAAATCG
Found at i:8061167 original size:29 final size:29
Alignment explanation
Indices: 8061134--8061192 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8061124 TAACAATAAG
*
8061134 TTATGATAAATTATTTTTTATAATTTTGC
1 TTATGATAAATGATTTTTTATAATTTTGC
8061163 TTATGATAAATGATTTTTTATAATTTTGC
1 TTATGATAAATGATTTTTTATAATTTTGC
8061192 T
1 T
8061193 AAAATATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (29 bp):
TTATGATAAATGATTTTTTATAATTTTGC
Found at i:8062545 original size:13 final size:13
Alignment explanation
Indices: 8062527--8062564 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
8062517 ATTCCACAAC
8062527 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
8062540 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
8062553 ACTTTTCAAAAG
1 ACTTTTCAAAAG
8062565 AAATGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:8063538 original size:185 final size:185
Alignment explanation
Indices: 8063226--8063595 Score: 740
Period size: 185 Copynumber: 2.0 Consensus size: 185
8063216 ATCCTTAGTT
8063226 AAATTAAGTTATTCGTTAAGACTTTCTCATTTCGAAAAAAGAAAAATGTCACGCCCAATGCATTA
1 AAATTAAGTTATTCGTTAAGACTTTCTCATTTCGAAAAAAGAAAAATGTCACGCCCAATGCATTA
8063291 GGGCACGATATTTTATTTCTTTAAAAAACGAGTTTGTCCCAAAAGACTTGTGTTATAAAATTTAA
66 GGGCACGATATTTTATTTCTTTAAAAAACGAGTTTGTCCCAAAAGACTTGTGTTATAAAATTTAA
8063356 AAGAATATCCAATTGTTAAAAATTTATGAAGAAATCGCAGCCCAATACATTAGAA
131 AAGAATATCCAATTGTTAAAAATTTATGAAGAAATCGCAGCCCAATACATTAGAA
8063411 AAATTAAGTTATTCGTTAAGACTTTCTCATTTCGAAAAAAGAAAAATGTCACGCCCAATGCATTA
1 AAATTAAGTTATTCGTTAAGACTTTCTCATTTCGAAAAAAGAAAAATGTCACGCCCAATGCATTA
8063476 GGGCACGATATTTTATTTCTTTAAAAAACGAGTTTGTCCCAAAAGACTTGTGTTATAAAATTTAA
66 GGGCACGATATTTTATTTCTTTAAAAAACGAGTTTGTCCCAAAAGACTTGTGTTATAAAATTTAA
8063541 AAGAATATCCAATTGTTAAAAATTTATGAAGAAATCGCAGCCCAATACATTAGAA
131 AAGAATATCCAATTGTTAAAAATTTATGAAGAAATCGCAGCCCAATACATTAGAA
8063596 CACAATTTCT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 185 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (185 bp):
AAATTAAGTTATTCGTTAAGACTTTCTCATTTCGAAAAAAGAAAAATGTCACGCCCAATGCATTA
GGGCACGATATTTTATTTCTTTAAAAAACGAGTTTGTCCCAAAAGACTTGTGTTATAAAATTTAA
AAGAATATCCAATTGTTAAAAATTTATGAAGAAATCGCAGCCCAATACATTAGAA
Done.