Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 39
Found at i:1922141 original size:16 final size:15
Alignment explanation
Indices: 1922111--1922140 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1922101 GGTATTAGTT
1922111 TGTTTTTCTTTTCTC
1 TGTTTTTCTTTTCTC
1922126 TGTTTTT-TTTTCTC
1 TGTTTTTCTTTTCTC
1922140 T
1 T
1922141 CCGATTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (15 bp):
TGTTTTTCTTTTCTC
Found at i:1922626 original size:3 final size:3
Alignment explanation
Indices: 1922618--1922723 Score: 160
Period size: 3 Copynumber: 35.7 Consensus size: 3
1922608 TTAATATATT
* *
1922618 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA CAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1922665 TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1922713 TAA TAA TAA TA
1 TAA TAA TAA TA
1922724 TGGATAAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 2 0.02
3 91 0.98
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1925823 original size:38 final size:37
Alignment explanation
Indices: 1925745--1925922 Score: 240
Period size: 37 Copynumber: 4.8 Consensus size: 37
1925735 CAGTTTTCGG
*
1925745 AAATATATATATTATATAG-TTTTGAAAACGATATTT-A
1 AAATATATATAATATATAGTTTTTGAAAAC-AT-TTTAA
*
1925782 AAATATATATAATATATAGTTTTTGAAAACATCTTT-G
1 AAATATATATAATATATAGTTTTTGAAAACAT-TTTAA
1925819 AAA-ATATATAATATATAGTTTTTGAAAACATTTTAAA
1 AAATATATATAATATATAGTTTTTGAAAACATTTT-AA
*
1925856 AACATATATATAATATATAGTTTTTGAAAATATTTTAA
1 AA-ATATATATAATATATAGTTTTTGAAAACATTTTAA
1925894 AATATATATATAATATATAG-TTTTGAAAA
1 AA-ATATATATAATATATAGTTTTTGAAAA
1925923 TACTTTTTAA
Statistics
Matches: 130, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
35 3 0.02
36 28 0.22
37 37 0.28
38 32 0.25
39 30 0.23
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (37 bp):
AAATATATATAATATATAGTTTTTGAAAACATTTTAA
Found at i:1925875 original size:75 final size:74
Alignment explanation
Indices: 1925744--1925922 Score: 249
Period size: 75 Copynumber: 2.4 Consensus size: 74
1925734 TCAGTTTTCG
*
1925744 GAAATATATATATTATATAGTTTTGAAAACGATATTTAAAATATATATAATATATAGTTTTTGAA
1 GAAATATATATAATATATAGTTTTGAAAACGATATTTAAAATATATATAATATATAGTTTTTGAA
1925809 AACATCTTT-
66 AACAT-TTTA
1925818 GAAA-ATATATAATATATAGTTTTTGAAAAC-AT-TTTAAAAACATATATATAATATATAGTTTT
1 GAAATATATATAATATATAG-TTTTGAAAACGATATTT--AAA-ATATATATAATATATAGTTTT
*
1925880 TGAAAATATTTTA
62 TGAAAACATTTTA
*
1925893 AAATATATATATAATATATAGTTTTGAAAA
1 GAA-ATATATATAATATATAGTTTTGAAAA
1925923 TACTTTTTAA
Statistics
Matches: 95, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
72 3 0.03
73 16 0.17
74 20 0.21
75 31 0.33
76 10 0.11
77 15 0.16
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (74 bp):
GAAATATATATAATATATAGTTTTGAAAACGATATTTAAAATATATATAATATATAGTTTTTGAA
AACATTTTA
Found at i:1925942 original size:36 final size:37
Alignment explanation
Indices: 1925751--1925952 Score: 184
Period size: 36 Copynumber: 5.4 Consensus size: 37
1925741 TCGGAAATAT
* *
1925751 ATATATTATATAGTTTTGAAAACGATATTTAAAATAT--
1 ATATAATATATAGTTTTGAAAA-TAT-TTTAAAATATAC
* *
1925788 ATATAATATATAGTTTTTGAAAACATCTTTGAAA-AT--
1 ATATAATATATAG-TTTTGAAAATAT-TTTAAAATATAC
* * *
1925824 ATATAATATATAGTTTTTGAAAACATTTTAAAAACATAT
1 ATATAATATATAG-TTTTGAAAATATTTT-AAAATATAC
*
1925863 ATATAATATATAGTTTTTGAAAATATTTTAAAATATAT
1 ATATAATATATAG-TTTTGAAAATATTTTAAAATATAC
* *
1925901 ATATAATATATAGTTTTGAAAATACTTTTTAAA-A-GC
1 ATATAATATATAGTTTTGAAAATA-TTTTAAAATATAC
*
1925937 GTATAATATATAGTTT
1 ATATAATATATAGTTT
1925953 ATTTTAAAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
35 3 0.02
36 46 0.31
37 34 0.23
38 37 0.25
39 28 0.19
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATAATATATAGTTTTGAAAATATTTTAAAATATAC
Found at i:1925948 original size:38 final size:39
Alignment explanation
Indices: 1925747--1925934 Score: 200
Period size: 39 Copynumber: 5.0 Consensus size: 39
1925737 GTTTTCGGAA
* *
1925747 ATATATATATTATATAG-TTTTGAAAACGA-TATTT-AAA-
1 ATATATATAATATATAGTTTTTGAAAA-TACT-TTTAAAAC
* *
1925784 ATATATATAATATATAGTTTTTGAAAACA-TCTTT-GAA-
1 ATATATATAATATATAGTTTTTGAAAATACT-TTTAAAAC
*
1925821 A-ATATATAATATATAGTTTTTGAAAACA-TTTTAAAAAC
1 ATATATATAATATATAGTTTTTGAAAATACTTTT-AAAAC
*
1925859 ATATATATAATATATAGTTTTTGAAAATA-TTTTAAAAT
1 ATATATATAATATATAGTTTTTGAAAATACTTTTAAAAC
1925897 ATATATATAATATATAG-TTTTGAAAATACTTTTTAAAA
1 ATATATATAATATATAGTTTTTGAAAATAC-TTTTAAAA
1925935 GCGTATAATA
Statistics
Matches: 137, Mismatches: 7, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
35 3 0.02
36 28 0.20
37 37 0.27
38 31 0.23
39 38 0.28
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (39 bp):
ATATATATAATATATAGTTTTTGAAAATACTTTTAAAAC
Found at i:1926006 original size:15 final size:14
Alignment explanation
Indices: 1925986--1926029 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
1925976 AATTATTATA
1925986 TTATTTATATTATTT
1 TTATTTATATT-TTT
*
1926001 TTATTTATTCTTTTT
1 TTATTTA-TATTTTT
1926016 TTATTT-TATTTTT
1 TTATTTATATTTTT
1926029 T
1 T
1926030 AATTGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
15 16 0.62
16 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTATATTTTT
Found at i:1926020 original size:24 final size:24
Alignment explanation
Indices: 1925989--1926041 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
1925979 TATTATATTA
* *
1925989 TTTATATTATTTTTATTTATTCTTTT
1 TTTATTTTA-TTTT-TTAATTCTTTT
*
1926015 TTTATTTTATTTTTTAATTGTTTT
1 TTTATTTTATTTTTTAATTCTTTT
1926039 TTT
1 TTT
1926042 TCAGGGTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.50
25 4 0.17
26 8 0.33
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTATTTTATTTTTTAATTCTTTT
Found at i:1926027 original size:13 final size:14
Alignment explanation
Indices: 1925977--1926042 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
1925967 ATTTTCGAAA
*
1925977 ATTATTATATTATTT
1 ATTATTAT-TTTTTT
*
1925992 A-TATTATTTTTAT
1 ATTATTATTTTTTT
*
1926005 -TTATTCTTTTTTT
1 ATTATTATTTTTTT
*
1926018 ATT-TTATTTTTTA
1 ATTATTATTTTTTT
*
1926031 ATTGTT-TTTTTT
1 ATTATTATTTTTT
1926043 CAGGGTCTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 31 0.74
14 10 0.24
15 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTATTATTTTTTT
Found at i:1926040 original size:26 final size:26
Alignment explanation
Indices: 1925989--1926042 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1925979 TATTATATTA
*
1925989 TTTATATTATTTTTATTTATTCTTTT
1 TTTATATTATTTTTAATTATTCTTTT
* *
1926015 TTTATTTTATTTTTTAATTGTT-TTTT
1 TTTATATTA-TTTTTAATTATTCTTTT
1926041 TT
1 TT
1926043 CAGGGTCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (26 bp):
TTTATATTATTTTTAATTATTCTTTT
Found at i:1929092 original size:13 final size:14
Alignment explanation
Indices: 1929074--1929103 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1929064 AACAATGATG
1929074 AAAAAT-AAATTAA
1 AAAAATAAAATTAA
1929087 AAAAATAAAATTAA
1 AAAAATAAAATTAA
1929101 AAA
1 AAA
1929104 TTTACAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATAAAATTAA
Found at i:1933802 original size:21 final size:21
Alignment explanation
Indices: 1933778--1933819 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1933768 AGTTTATTTT
1933778 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
1933799 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
1933820 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:1933867 original size:33 final size:33
Alignment explanation
Indices: 1933814--1933912 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1933804 TTTGTTTCAA
1933814 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1933846 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
1933879 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1933912 T
1 T
1933913 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:1935191 original size:15 final size:17
Alignment explanation
Indices: 1935165--1935196 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1935155 TTCTATGGAA
1935165 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
1935181 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
1935197 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:1935446 original size:2 final size:2
Alignment explanation
Indices: 1935439--1935520 Score: 157
Period size: 2 Copynumber: 41.5 Consensus size: 2
1935429 ATGCACAATG
1935439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1935481 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1935521 AACACACCCG
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 78 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1935612 original size:24 final size:24
Alignment explanation
Indices: 1935575--1935627 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1935565 ATTAATAACA
* * *
1935575 AATATATACATAATTATAGCTACT
1 AATATATACATAATGACAGCTACG
1935599 AATATATA-ACTAATGACAGCTACG
1 AATATATACA-TAATGACAGCTACG
1935623 AATAT
1 AATAT
1935628 TAAATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (24 bp):
AATATATACATAATGACAGCTACG
Found at i:1935680 original size:2 final size:2
Alignment explanation
Indices: 1935673--1935716 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1935663 ATTTAAACTA
1935673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1935715 AT
1 AT
1935717 TCAAATGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1936136 original size:34 final size:36
Alignment explanation
Indices: 1936071--1936149 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 36
1936061 TCGGGCTGTG
1936071 TATATATATTTAAATTAAATATATAAATATT-ATA-
1 TATATATATTTAAATTAAATATATAAATATTAATAT
* *
1936105 TATATATTTTTTAATTAAAT-T-TAAATTTATTAATAT
1 TATATATATTTAAATTAAATATATAAA--TATTAATAT
1936141 TATATATAT
1 TATATATAT
1936150 ATATAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 4 0.11
33 1 0.03
34 22 0.58
35 3 0.08
36 8 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (36 bp):
TATATATATTTAAATTAAATATATAAATATTAATAT
Found at i:1936160 original size:40 final size:39
Alignment explanation
Indices: 1936071--1936175 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 39
1936061 TCGGGCTGTG
* *
1936071 TATATATATTTAAA-TTAAATATATAAATATTATATATA
1 TATATATAATTAAATTTAAATTTATAAATATTATATATA
* * *
1936109 TATTTTTTAATTAAATTTAAATTTATTAATATTATATATA
1 TA-TATATAATTAAATTTAAATTTATAAATATTATATATA
**
1936149 TATATAATAATTATTTTTAATATTTAT
1 TATAT-ATAATTAAATTTAA-ATTTAT
1936176 CAGGCCGCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
38 2 0.04
39 11 0.20
40 35 0.65
41 6 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (39 bp):
TATATATAATTAAATTTAAATTTATAAATATTATATATA
Found at i:1936256 original size:36 final size:36
Alignment explanation
Indices: 1936208--1936287 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
1936198 GATTATTAAA
* *
1936208 CCCGTCCCCGTCCCCGTTTAACATAAACGATTTTTC
1 CCCGTCCTCGTCCCCATTTAACATAAACGATTTTTC
* *
1936244 CCCGTCCTCGTCCCCATTTAGCATAAACGATTTTTT
1 CCCGTCCTCGTCCCCATTTAACATAAACGATTTTTC
*
1936280 TCCGTCCT
1 CCCGTCCT
1936288 GATTTAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.17, C:0.38, G:0.11, T:0.34
Consensus pattern (36 bp):
CCCGTCCTCGTCCCCATTTAACATAAACGATTTTTC
Found at i:1937026 original size:28 final size:27
Alignment explanation
Indices: 1936965--1937027 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
1936955 TTAATATAAG
1936965 ATTAAAAAATGACAAAAGTTTATTATA
1 ATTAAAAAATGACAAAAGTTTATTATA
1936992 ATTAAAAAATGACAAAAGTTTATTATA
1 ATTAAAAAATGACAAAAGTTTATTATA
1937019 ATTAAAAAA
1 ATTAAAAAA
1937028 ATGATCAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (27 bp):
ATTAAAAAATGACAAAAGTTTATTATA
Found at i:1941170 original size:5 final size:5
Alignment explanation
Indices: 1941153--1941193 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
1941143 GCTTGTAATA
1941153 AAAAT AGAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
1941194 ATAGATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1941175 original size:10 final size:10
Alignment explanation
Indices: 1941153--1941193 Score: 64
Period size: 11 Copynumber: 3.9 Consensus size: 10
1941143 GCTTGTAATA
1941153 AAAATAGAAAT
1 AAAATA-AAAT
1941164 AAAATAAAAT
1 AAAATAAAAT
1941174 AAAATAAAAT
1 AAAATAAAAT
1941184 AAAAATAAAA
1 -AAAATAAAA
1941194 ATAGATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 14 0.48
11 15 0.52
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:1941194 original size:6 final size:6
Alignment explanation
Indices: 1941149--1941217 Score: 74
Period size: 6 Copynumber: 11.8 Consensus size: 6
1941139 AAGGGCTTGT
*
1941149 AATAAA AATAGA AAT-AA AAT-AA AAT-AA AAT-AA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
1941193 AATAGATA AATAAA AATAAT AATAA
1 AATA-A-A AATAAA AATAAA AATAA
1941218 CAAAAAGATC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
5 19 0.33
6 31 0.54
7 2 0.04
8 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:1941201 original size:26 final size:26
Alignment explanation
Indices: 1941149--1941226 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
1941139 AAGGGCTTGT
* *
1941149 AATAAAAATAGAAAT-AAAATAAAATA
1 AATAAAAATAAAAATAAAAAT-AGATA
1941175 AA-ATAAAATAAAAATAAAAATAGATA
1 AATA-AAAATAAAAATAAAAATAGATA
* *
1941201 AATAAAAATAATAATAACAAAAAGAT
1 AATAAAAATAAAAATAA-AAATAGAT
1941227 CCGGGCAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 1 0.02
26 30 0.68
27 13 0.30
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (26 bp):
AATAAAAATAAAAATAAAAATAGATA
Found at i:1941203 original size:20 final size:20
Alignment explanation
Indices: 1941149--1941216 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
1941139 AAGGGCTTGT
1941149 AATAAAAATAG--AAAT-AA
1 AATAAAAATAGATAAATAAA
*
1941166 AAT-AAAATAAAATAAAATAAA
1 AATAAAAAT-AGAT-AAATAAA
1941187 AATAAAAATAGATAAATAAA
1 AATAAAAATAGATAAATAAA
*
1941207 AATAATAATA
1 AATAAAAATA
1941217 ACAAAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
16 5 0.12
17 4 0.10
20 20 0.48
21 8 0.19
22 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AATAAAAATAGATAAATAAA
Found at i:1941634 original size:135 final size:130
Alignment explanation
Indices: 1941448--1941766 Score: 313
Period size: 135 Copynumber: 2.4 Consensus size: 130
1941438 TCTTCAAGGA
* * * * * *
1941448 AGATCATATATGGAAATTTTGATTCACTT-AATCGCTCTTCAGGGAAGATTGAATCGCG-GCTAA
1 AGATCAGATCTGGAAACTTTGATTCACTTCACT-ACTTTTCAGGGAAGATTGAATCG-GTGCTAA
* * * * * *
1941511 TTTGCTTCACTGCTCTCCATGGAAGATCAAATCTGAGAAAA-ATAAAGGGTCTGCTCCGCTGCGT
64 TTTGATTCACTGCTATCCAGGGAAGATCAAATCTGA-AAAAGAGAAAGGCTCTG--CCACT-C-T
*
1941575 TTCAGTGT
124 TT-AGGGT
* * ** *
1941583 ATATCAGATCTGGAAACTTTGATTCACTTCACTACTTTTCAGGGAAAATTGAATCGGTTTTGATT
1 AGATCAGATCTGGAAACTTTGATTCACTTCACTACTTTTCAGGGAAGATTGAATCGGTGCTAATT
** * * *
1941648 TGATTCACTGCTATTTAGGGAAGATCAAATCTGAAAAAGGGATATGCTCTGCCACTCTTTAGGGT
66 TGATTCACTGCTATCCAGGGAAGATCAAATCTGAAAAAGAGAAAGGCTCTGCCACTCTTTAGGGT
*
1941713 AGGTCAGATCTGGAAACTTTGATTCACTTCACTACTCTTT-AGGGAAGATTGAAT
1 AGATCAGATCTGGAAACTTTGATTCACTTCACTACT-TTTCAGGGAAGATTGAAT
1941767 TAGGTCAATT
Statistics
Matches: 154, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
130 51 0.33
131 6 0.04
132 1 0.01
133 4 0.03
134 5 0.03
135 85 0.55
136 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (130 bp):
AGATCAGATCTGGAAACTTTGATTCACTTCACTACTTTTCAGGGAAGATTGAATCGGTGCTAATT
TGATTCACTGCTATCCAGGGAAGATCAAATCTGAAAAAGAGAAAGGCTCTGCCACTCTTTAGGGT
Found at i:1945738 original size:131 final size:131
Alignment explanation
Indices: 1945451--1945775 Score: 393
Period size: 131 Copynumber: 2.5 Consensus size: 131
1945441 AATAACAACA
* * * * *
1945451 ACCTTTCATGCCTTAAAACAATCATTTAATACTCCAAACAAAATGAAGAGATATTACTATTTTGT
1 ACCTCTCATACCTTAAAGCAATCATTTATTACTCCAAACAAAATGAAGAGATATTACTATTCTGT
* *
1945516 CTTAAAATTCAATATCGATTCGAGTGAAAACGATAATATCTAATGATTTCCAATCAAGAATAAAT
66 CTTAAAAATCAATATCGATTCGAGTGAAAACGATAATATCGAATGATTTCCAATCAAGAATAAAT
1945581 G
131 G
* * * * *
1945582 ACCTCTCATACCTTAAAGCTATCATTTATTGCTCCAATCTAAATGAAGAGATATCACTATTCTGT
1 ACCTCTCATACCTTAAAGCAATCATTTATTACTCCAAACAAAATGAAGAGATATTACTATTCTGT
* * * ** *
1945647 CTTAAAAATCAATATTGATTCGAGAT-AAAATGGTAATATCGAATTCTTTCCAATCGAGAATAAA
66 CTTAAAAATCAATATCGATTCGAG-TGAAAACGATAATATCGAATGATTTCCAATCAAGAATAAA
1945711 TG
130 TG
* * * * * * *
1945713 ACCTCTCATGCCTT-AAGGAAGTCATTTATTACTCTAACCGAAATGAAAAGATATTGCTATTCT
1 ACCTCTCATACCTTAAAGCAA-TCATTTATTACTCCAAACAAAATGAAGAGATATTACTATTCT
1945776 CAATATCGAT
Statistics
Matches: 164, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
130 4 0.02
131 159 0.97
132 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (131 bp):
ACCTCTCATACCTTAAAGCAATCATTTATTACTCCAAACAAAATGAAGAGATATTACTATTCTGT
CTTAAAAATCAATATCGATTCGAGTGAAAACGATAATATCGAATGATTTCCAATCAAGAATAAAT
G
Found at i:1946423 original size:23 final size:23
Alignment explanation
Indices: 1946388--1946444 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
1946378 CATAAGTAAA
1946388 TATAATATA-TATACATA-AGG-
1 TATAATATATTATACATATAGGT
1946408 TATCACATATATTATACATATAGGT
1 TAT-A-ATATATTATACATATAGGT
1946433 TATAATATATTA
1 TATAATATATTA
1946445 CATAATATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.09
21 1 0.03
22 5 0.16
23 16 0.50
24 4 0.12
25 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (23 bp):
TATAATATATTATACATATAGGT
Found at i:1946674 original size:15 final size:15
Alignment explanation
Indices: 1946656--1946689 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1946646 TATTGAAATC
1946656 ACAATAAAACACAAA
1 ACAATAAAACACAAA
*
1946671 ACAATTAAACACAAA
1 ACAATAAAACACAAA
1946686 ACAA
1 ACAA
1946690 CATGAGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.21, G:0.00, T:0.09
Consensus pattern (15 bp):
ACAATAAAACACAAA
Found at i:1947059 original size:2 final size:2
Alignment explanation
Indices: 1947052--1947097 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1947042 TTTGGGACTA
1947052 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1947093 AT AT A
1 AT AT A
1947098 CAATTATAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1954729 original size:22 final size:22
Alignment explanation
Indices: 1954704--1954751 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1954694 TATGAATTAT
*
1954704 GGTTACCTGAAATGTGTTATCA
1 GGTTACCTAAAATGTGTTATCA
*
1954726 GGTTACCTAAAATGTGTTATCG
1 GGTTACCTAAAATGTGTTATCA
1954748 GGTT
1 GGTT
1954752 TCTTGTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (22 bp):
GGTTACCTAAAATGTGTTATCA
Found at i:1955734 original size:3 final size:3
Alignment explanation
Indices: 1955728--1955759 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1955718 ATGATAATAA
1955728 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1955760 ATGTCAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1956589 original size:234 final size:231
Alignment explanation
Indices: 1956011--1956830 Score: 936
Period size: 234 Copynumber: 3.5 Consensus size: 231
1956001 ATCTTGCCTT
*** * * * *
1956011 AAGGTCTTATAGATGGGTTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCTGAAGG
1 AAGGTCTTATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* * * *** * *
1956076 ATTTAATCACCATGAT-TTTAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAATT
66 ATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACCAATTTTGGAAATAATT
* ** * *
1956140 TGCTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTTAGATTTAAATGAGAAAC-TT
131 TACTAGGTAAGAAACTTTTCTTACTTTTTGAAAATTTCAATTTTCACATTTAAATGAGAAACTTT
* *
1956204 TTCTCATTTTTT-AAAACCATGTGAGAACATCCTGTCCG
196 TTCTCATTTTTTGAAAA-CATGTGA-AAAATCCT-ACCG
* * *
1956242 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGG
1 AAGGTCTTATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* *
1956307 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTC-AAGGACTTACCAATTTTGGAAATAGT
66 ATTTAAGCATCATGCTCGAAAGACTTACTAATGGCC-CGAAGGACTTACCAATTTTGGAAATAAT
* *
1956371 TTACTAGGTAAGAAACTTTTCTTACTTTTTGAAAATTTTAATTTTCACATATAAATGAGAAACTT
130 TTACTAGGTAAGAAACTTTTCTTACTTTTTGAAAATTTCAATTTTCACATTTAAATGAGAAACTT
1956436 TTTCTCATTGTTTTTGAAAACATGTGAAAAATCCTACCTG
195 TTTCTCA-T-TTTTTGAAAACATGTGAAAAATCCTACC-G
* * *
1956476 AAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGATTTACAGATAACCCGAAGG
1 AAGGTCTTATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* * * * *
1956541 ATTTAAGCATCATGCTCGAAAGACTCACTAATGGCCCGAAGAACTTACCTATTTTGAAAATACTT
66 ATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACCAATTTTGGAAATAATT
*
1956606 TACTAGGTAAGAAACTTTTCTTACTTTTCTTACTTTTGAAAAATTTCAATTTTCATATTTAAATG
131 TACTAGGTAAGAAACTTTTCTTA-----C-T--TTTTG-AAAATTTCAATTTTCACATTTAAATG
* * * *
1956671 AG-AA-TATTTTCTCATTTTTCGAGAGACATGTGAAAACATCCATCCCA
187 AGAAACT-TTTTCTCATTTTTTGA-AAACATGTGAAAA-ATCC-TACCG
* * * *
1956718 AAGGTCTTATAGATAGCCC-AAAGGACTTATCATCTTGCTCAAAAGGA-TTATAGATGACCCGGA
1 AAGGTCTTATAGATGGCCCGAAA-GACTTATCATCTTGCTCGAAA-GACTTACAGATGACCCGAA
* * * *
1956781 TGATTTAATCATCATGCTCGAAAGACTTACTATTGGCCCGAAGGATTTAC
64 GGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTAC
1956831 GAACTAAGAA
Statistics
Matches: 511, Mismatches: 55, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
231 68 0.13
232 97 0.19
233 12 0.02
234 150 0.29
235 12 0.02
236 4 0.01
239 1 0.00
240 7 0.01
241 17 0.03
242 113 0.22
243 30 0.06
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (231 bp):
AAGGTCTTATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
ATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACCAATTTTGGAAATAATT
TACTAGGTAAGAAACTTTTCTTACTTTTTGAAAATTTCAATTTTCACATTTAAATGAGAAACTTT
TTCTCATTTTTTGAAAACATGTGAAAAATCCTACCG
Found at i:1962245 original size:19 final size:19
Alignment explanation
Indices: 1962221--1962273 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
1962211 AGTTTAATTG
1962221 ATCATGAAACCCTTTGACC
1 ATCATGAAACCCTTTGACC
*
1962240 ATCATGAAACCCTTTGTCC
1 ATCATGAAACCCTTTGACC
*
1962259 ATCATGAAAACCTTT
1 ATCATGAAACCCTTT
1962274 TACTCTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.30
Consensus pattern (19 bp):
ATCATGAAACCCTTTGACC
Found at i:1964671 original size:131 final size:131
Alignment explanation
Indices: 1964433--1964793 Score: 553
Period size: 131 Copynumber: 2.8 Consensus size: 131
1964423 AGAATTTTAA
* * * * *
1964433 GAGAGAAAACAATAATATCTAATTATTTCCAAGCGAGAATAAATGACATTTCATGCCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
1964498 ATCATTTATTACTCCAATCGAAATGAAGATATATTACTATTCCATCTT-AAAATTCAATATTGAT
66 ATCATTTATTACTCCAATCGAAATGAAGAGATATCAATATTCCATCTTGAAAA-TCAATATTGAT
1964562 TC
130 TC
* * *
1964564 GAGCGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
1964629 ATCATTTATTACTCCAATCGAAATGAAGAGATATCAATATTCCATCTTGAAAATCAATATTGATT
66 ATCATTTATTACTCCAATCGAAATGAAGAGATATCAATATTCCATCTTGAAAATCAATATTGATT
1964694 C
131 C
* * *
1964695 GCGAGAAAACGATAATATCAAATTATTTCCAATCGAGAATAAATGATCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
1964760 TTCATTTATTACTCCAACCGAAATGAAAAGATAT
66 ATCATTTATTACTCCAATCGAAATGAAGAGATAT
1964794 TATTATTCTC
Statistics
Matches: 209, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
131 205 0.98
132 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
ATCATTTATTACTCCAATCGAAATGAAGAGATATCAATATTCCATCTTGAAAATCAATATTGATT
C
Found at i:1967456 original size:16 final size:17
Alignment explanation
Indices: 1967430--1967462 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1967420 TTTTCTGATT
1967430 AAATGTATGTGAATTAG
1 AAATGTATGTGAATTAG
1967447 AAAT-TATGTGAATTAG
1 AAATGTATGTGAATTAG
1967463 GGATTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AAATGTATGTGAATTAG
Found at i:1978653 original size:4 final size:5
Alignment explanation
Indices: 1978633--1978681 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
1978623 AATTGTAATG
* * *
1978633 AAAAT AAAAT AAAAT -AAAT AAAAT CAAATT AAAAG AAAGT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
1978682 GAACACTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
6 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1978883 original size:2 final size:2
Alignment explanation
Indices: 1978876--1978919 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1978866 AAATAAATAA
1978876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1978918 AT
1 AT
1978920 TGATAGGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1984503 original size:2 final size:2
Alignment explanation
Indices: 1984496--1984564 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
1984486 CAACTTATTT
1984496 TA TA TA 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 TA TA TA
1984538 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 T
1984565 TCCCTTTTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1988166 original size:4 final size:4
Alignment explanation
Indices: 1988157--1988183 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1988147 GTTCCCTCTC
1988157 TTGA TTGA TTGA TTGA TTGA TTGA TTG
1 TTGA TTGA TTGA TTGA TTGA TTGA TTG
1988184 GAATTGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
TTGA
Found at i:1996127 original size:48 final size:48
Alignment explanation
Indices: 1996045--1996252 Score: 217
Period size: 48 Copynumber: 4.3 Consensus size: 48
1996035 GCTGTCACTC
* ** * * *
1996045 AGGGAATATCAAATCTTGCATG-AGAGGGATTTGTTACACTT-TTGCTGA
1 AGGGAATATCAAATCTTG-AAGAAGAAAGACTTGTTCCACTTACT-CTGA
* * *
1996093 AGGGTATATCAAATCTTGAAGAAGAAAGACTTGTTCCGCTTACTCCGA
1 AGGGAATATCAAATCTTGAAGAAGAAAGACTTGTTCCACTTACTCTGA
* * *
1996141 AGGGAATATCAAATCTTGGAGAAGAGAGA-TCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGAAGAAGAAAGACT-TGTTCCACTTACTCTGA
* *
1996189 AGGGAATATCAAATCTTGAAGAA-AAGAGACCTGTTCCACTTACTCCGA
1 AGGGAATATCAAATCTTGAAGAAGAA-AGACTTGTTCCACTTACTCTGA
*
1996237 AGGGAATATCAGATCT
1 AGGGAATATCAAATCT
1996253 GGGGGAGTTA
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
47 4 0.03
48 131 0.96
49 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (48 bp):
AGGGAATATCAAATCTTGAAGAAGAAAGACTTGTTCCACTTACTCTGA
Found at i:1996189 original size:96 final size:96
Alignment explanation
Indices: 1996024--1996252 Score: 281
Period size: 96 Copynumber: 2.4 Consensus size: 96
1996014 GAATCTGGGT
* *
1996024 AGACTTGTTCCGCTGTCACT-C--AGGGAATATCAAATCTTGCATGAGAGGGATTTGTTACACTT
1 AGACTTGTTCCGCT-T-ACTCCGAAGGGAATATCAAATCTTGCATGAGAGAGATCTGTTACACTT
* *
1996086 TTGCTGAAGGGTATATCAAATCTTGAAGAAGAA-
64 CTGCTGAAGGGAATATCAAATCTTGAAGAA-AAG
* * *
1996119 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGGA-GAAGAGAGATCTGTTCCGCTTA
1 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGCATG-AGAGAGATCTGTTACACTT-
1996183 CT-CTGAAGGGAATATCAAATCTTGAAGAAAAG
64 CTGCTGAAGGGAATATCAAATCTTGAAGAAAAG
* * *
1996215 AGACCTGTTCCACTTACTCCGAAGGGAATATCAGATCT
1 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCT
1996253 GGGGGAGTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
93 3 0.03
94 2 0.02
95 17 0.14
96 95 0.81
97 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (96 bp):
AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGCATGAGAGAGATCTGTTACACTTCT
GCTGAAGGGAATATCAAATCTTGAAGAAAAG
Found at i:1996342 original size:46 final size:48
Alignment explanation
Indices: 1996280--1996404 Score: 209
Period size: 46 Copynumber: 2.6 Consensus size: 48
1996270 GAATCGAAAC
1996280 AGACTTGTTCCACTTACTCTGAAGGGAATATAAAATCTTGAAG-A-AG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATAAAATCTTGAAGAAGAG
* *
1996326 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATAAAATCTTGAAGAAGAG
*
1996374 AGACATGTTCCACTTACTCTGAAGGGAATAT
1 AGACTTGTTCCACTTACTCTGAAGGGAATAT
1996405 TAGATCTGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 41 0.56
47 1 0.01
48 31 0.42
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (48 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATAAAATCTTGAAGAAGAG
Found at i:1996460 original size:113 final size:113
Alignment explanation
Indices: 1996322--1996863 Score: 879
Period size: 113 Copynumber: 4.8 Consensus size: 113
1996312 AAATCTTGAA
* *
1996322 GAAG-AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACATGTTCCA
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
* * *
1996386 CTTACTCTGAAGGGAATATTAGATCTGGGGGAATTGATCCATTGAATT
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
* * * *
1996434 GAAACATACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCG
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
1996499 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
* * * *
1996547 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTATTCCG
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
* * *
1996612 CTTACTCCGGAGGGAATATCAGACCTGGGGGAGTTGATCCATTGAATC
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
* *
1996660 GAAGCAGACTTGTTCTGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACTTGTTCCA
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
*
1996725 CTTACTCTGAAGGAAATATCAGATCTGGGGGAGTTGATCCATTGAATC
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
*
1996773 GAAGCAGACTTGTTCTGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
* *
1996838 CTTACTCTGAAGGAAATATCAAATCT
66 CTTACTCTGAAGGGAATATCAGATCT
1996864 TGAAGAAGAG
Statistics
Matches: 401, Mismatches: 28, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
112 3 0.01
113 398 0.99
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (113 bp):
GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
Found at i:1996842 original size:48 final size:48
Alignment explanation
Indices: 1996790--1996909 Score: 204
Period size: 48 Copynumber: 2.5 Consensus size: 48
1996780 ACTTGTTCTG
* *
1996790 CTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCA
1 CTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATATTCCA
* *
1996838 CTTACTCTGAAGGAAATATCAAATCTTGAAGAAGAGAGACATATTCCA
1 CTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATATTCCA
1996886 CTTACTCTGAAGGGAATATCAAAT
1 CTTACTCTGAAGGGAATATCAAAT
1996910 ATGGAGAAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (48 bp):
CTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATATTCCA
Found at i:1997330 original size:22 final size:20
Alignment explanation
Indices: 1997306--1997353 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
1997296 CCTTCTTTTA
1997306 TTTTTCTTTTCCTTTTTCCTCAT
1 TTTTTC-TTT-CTTTTT-CTCAT
*
1997329 TTTTTCTTTCTTTTTTTCAT
1 TTTTTCTTTCTTTTTCTCAT
1997349 TTTTT
1 TTTTT
1997354 TCCATTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 6 0.25
22 3 0.12
23 6 0.25
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTCTTTCTTTTTCTCAT
Found at i:1997361 original size:14 final size:14
Alignment explanation
Indices: 1997344--1997379 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
1997334 CTTTCTTTTT
1997344 TTCATTTTTTTCCA
1 TTCATTTTTTTCCA
1997358 TTCA--TTTTTCCA
1 TTCATTTTTTTCCA
1997370 TTCATTTTTT
1 TTCATTTTTT
1997380 CAGGCGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCATTTTTTTCCA
Found at i:1997363 original size:34 final size:32
Alignment explanation
Indices: 1997318--1997381 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
1997308 TTTCTTTTCC
* * *
1997318 TTTTTCCTCATTTTTTCTTTCTTTTTTTCATT
1 TTTTTCCTCATTTTTCCATTCATTTTTTCATT
1997350 TTTTTCCATTCATTTTTCCATTCATTTTTTCA
1 TTTTTCC--TCATTTTTCCATTCATTTTTTCA
1997382 GGCGAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 7 0.26
34 20 0.74
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTTTCCTCATTTTTCCATTCATTTTTTCATT
Found at i:2000936 original size:25 final size:27
Alignment explanation
Indices: 2000898--2000958 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
2000888 AATCTATCCC
* *
2000898 ATATCAAAATAGAATGAAAT-AAT-AAT
1 ATAT-AAAAAAGAAAGAAATAAATAAAT
2000924 ATATAAAAAAGAAAGAAATAAATAAAT
1 ATATAAAAAAGAAAGAAATAAATAAAT
*
2000951 AAATAAAA
1 ATATAAAA
2000959 TAATGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.43
26 7 0.23
27 10 0.33
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (27 bp):
ATATAAAAAAGAAAGAAATAAATAAAT
Found at i:2018849 original size:21 final size:21
Alignment explanation
Indices: 2018823--2018862 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2018813 CCCCCTTTGA
*
2018823 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2018844 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2018863 CTGGGGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2022368 original size:4 final size:4
Alignment explanation
Indices: 2022353--2022386 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
2022343 ACTGAAATTA
*
2022353 AAAT ACAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2022387 GGGCATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2022754 original size:2 final size:2
Alignment explanation
Indices: 2022747--2022779 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2022737 ATTATAAATT
2022747 TA TA TA 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
2022780 TGATAGGCGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2030137 original size:19 final size:19
Alignment explanation
Indices: 2030095--2030155 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2030085 TATATTTGCA
* **
2030095 AAAAAATACAAAAAAGGTG
1 AAAAAATAGAAAAAAAATG
2030114 AAAAAA-ATGAAAAAAAAT-
1 AAAAAATA-GAAAAAAAATG
*
2030132 AGAAAAATAGAAAAATAATG
1 A-AAAAATAGAAAAAAAATG
2030152 AAAA
1 AAAA
2030156 TAAAAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.06
19 30 0.88
20 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAAATAGAAAAAAAATG
Found at i:2030137 original size:29 final size:30
Alignment explanation
Indices: 2030094--2030160 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 30
2030084 TTATATTTGC
2030094 AAAAAAATACAAAAAAGGT-GAAAAA-AATGA
1 AAAAAAATACAAAAAA--TAGAAAAATAATGA
*
2030124 AAAAAAATA-GAAAAATAGAAAAATAATGA
1 AAAAAAATACAAAAAATAGAAAAATAATGA
2030153 AAATAAAA
1 AAA-AAAA
2030161 AAAAGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.03
28 6 0.18
29 13 0.39
30 13 0.39
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.12
Consensus pattern (30 bp):
AAAAAAATACAAAAAATAGAAAAATAATGA
Found at i:2030163 original size:8 final size:8
Alignment explanation
Indices: 2030094--2030163 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
2030084 TTATATTTGC
2030094 AAAAAAAT
1 AAAAAAAT
2030102 ACAAAAAAGGT
1 A-AAAAAA--T
2030113 GAAAAAAAT
1 -AAAAAAAT
2030122 GAAAAAAAAT
1 --AAAAAAAT
*
2030132 AGAAAAAT
1 AAAAAAAT
*
2030140 AGAAAAAT
1 AAAAAAAT
*
2030148 AATGAAAAT
1 AA-AAAAAT
2030157 AAAAAAA
1 AAAAAAA
2030164 AGTTTATGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
8 21 0.41
9 14 0.27
10 8 0.16
11 7 0.14
12 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.10, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:2032098 original size:22 final size:23
Alignment explanation
Indices: 2032080--2032126 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
2032070 AGTAATAATT
2032080 AATATGATGTAT-TAAAATATATA
1 AATAT-ATGTATATAAAATATATA
2032103 AATATATGTATATAAAAATATATA
1 AATATATGTATAT-AAAATATATA
2032127 CTAACAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 6 0.27
24 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
AATATATGTATATAAAATATATA
Found at i:2037372 original size:25 final size:25
Alignment explanation
Indices: 2037344--2037392 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2037334 TCAATTAAAA
* * *
2037344 ATTTATTTTAATATTTTTCTTAATT
1 ATTTATATTAAGATTTTCCTTAATT
*
2037369 ATTTGTATTAAGATTTTCCTTAAT
1 ATTTATATTAAGATTTTCCTTAAT
2037393 ATAAATTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (25 bp):
ATTTATATTAAGATTTTCCTTAATT
Found at i:2039309 original size:24 final size:22
Alignment explanation
Indices: 2039275--2039331 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
2039265 AAAATCACCA
2039275 TTTTTTCAAATAAAAGTCATAATTG
1 TTTTTT-AAATAAAA--CATAATTG
* *
2039300 TTTTTTAAATAATACTTAATTG
1 TTTTTTAAATAAAACATAATTG
2039322 TTTTTTAAAT
1 TTTTTTAAAT
2039332 GTTTATGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 17 0.57
24 7 0.23
25 6 0.20
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTTTTAAATAAAACATAATTG
Found at i:2042641 original size:2 final size:2
Alignment explanation
Indices: 2042634--2042659 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2042624 GTATACCCAA
2042634 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2042660 CCGATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2043701 original size:6 final size:6
Alignment explanation
Indices: 2043684--2043714 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2043674 CAACACATAC
*
2043684 ATACAT AAACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT ATACAT A
2043715 CATGTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (6 bp):
ATACAT
Found at i:2044229 original size:36 final size:36
Alignment explanation
Indices: 2044181--2044251 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
2044171 TTGGTACAGT
*
2044181 TTTCTCTAAAAACAAATTTTGTCTCGCTTAAGACAA
1 TTTCTCTAAAAACAAATTTCGTCTCGCTTAAGACAA
* * * *
2044217 TTTCTCTCAAAACCAATTTCGTCTCGTTTGAGACA
1 TTTCTCTAAAAACAAATTTCGTCTCGCTTAAGACA
2044252 TTTTTCCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTCGTCTCGCTTAAGACAA
Found at i:2044622 original size:103 final size:101
Alignment explanation
Indices: 2044393--2044623 Score: 240
Period size: 103 Copynumber: 2.3 Consensus size: 101
2044383 TTTTATTTAC
* **
2044393 TCAAAGAAAATTTTGTCTCACTTGAGACAGTTTCCCTCGGAATACAAATTTCAAAGTTGTTTTAC
1 TCAAAGAAAATTTTGTCTCTCTTGAGACAGTTTCCCTCAAAATACAAATTTCAAAGTTGTTTTAC
* **
2044458 TTGAAACAAAATTAATCTCACTTGAGATTATTTCTT
66 TTGAAAAAAAATTAATCGAACTTGAGATTATTTCTT
* * *
2044494 TCAAAGAAAATTTTATCTCGT-TTGAGACAGTTTTTCCTCAAAATACAAGATTTGGAAA-TT-TT
1 TCAAAGAAAATTTTGTCTC-TCTTGAGACAG-TTTCCCTCAAAATACAA-ATTT-CAAAGTTGTT
* *
2044556 TTCACTTGAAAAAAAATTGAT-GAACTTTGAGATTGTTTCTCT
62 TT-ACTTGAAAAAAAATTAATCGAAC-TTGAGATTATTTCT-T
*
2044598 T-AAA-ACAAGTTTTGTCTCTCTTGAGA
1 TCAAAGA-AAATTTTGTCTCTCTTGAGA
2044624 ATGTTTCTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
101 27 0.25
102 22 0.20
103 54 0.50
104 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (101 bp):
TCAAAGAAAATTTTGTCTCTCTTGAGACAGTTTCCCTCAAAATACAAATTTCAAAGTTGTTTTAC
TTGAAAAAAAATTAATCGAACTTGAGATTATTTCTT
Found at i:2044653 original size:66 final size:66
Alignment explanation
Indices: 2044578--2044736 Score: 264
Period size: 66 Copynumber: 2.4 Consensus size: 66
2044568 AAAATTGATG
* * *
2044578 AACTTTGAGATTGTTTCTCTTAAAACAAGTTTTGTCTCTCTTGAGAATGTTTCTCTTGAAACCTA
1 AACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGAATGTTTCTCTCGAAACATA
2044643 C
66 C
* * *
2044644 AACTTTGAGACTATTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACTGTTTCTCTCGAAACATA
1 AACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGAATGTTTCTCTCGAAACATA
2044709 C
66 C
2044710 AACTTTGAGATTGTTTCTCTTGAAACA
1 AACTTTGAGATTGTTTCTCTTGAAACA
2044737 TTATCCCTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 85 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (66 bp):
AACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGAATGTTTCTCTCGAAACATA
C
Found at i:2044697 original size:36 final size:36
Alignment explanation
Indices: 2044582--2044706 Score: 120
Period size: 36 Copynumber: 3.6 Consensus size: 36
2044572 TTGATGAACT
* *
2044582 TTGAGATTGTTTCTCTTAAAACAAGTTTTGTCTCTC
1 TTGAGACTGTTTCTCTTGAAACAAGTTTTGTCTCTC
* * * *
2044618 TTGAGAATGTTTCTCTTGAAAC-----CT-ACAACT-
1 TTGAGACTGTTTCTCTTGAAACAAGTTTTGTC-TCTC
*
2044648 TTGAGACTATTTCTCTTGAAACAAGTTTTGTCTCTC
1 TTGAGACTGTTTCTCTTGAAACAAGTTTTGTCTCTC
*
2044684 TTGAGACTGTTTCTCTCGAAACA
1 TTGAGACTGTTTCTCTTGAAACA
2044707 TACAACTTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
30 21 0.30
31 3 0.04
35 3 0.04
36 42 0.61
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTGAGACTGTTTCTCTTGAAACAAGTTTTGTCTCTC
Found at i:2045484 original size:13 final size:13
Alignment explanation
Indices: 2045468--2045539 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
2045458 AAATATGGTT
2045468 ATTTATTAAAATA
1 ATTTATTAAAATA
2045481 A-TT-TT-AAATA
1 ATTTATTAAAATA
* ** *
2045491 ATTTAATAAGGTT
1 ATTTATTAAAATA
2045504 ATTTATTTTAAAATA
1 ATTTA--TTAAAATA
* *
2045519 TTTTTTTAAAATA
1 ATTTATTAAAATA
2045532 ATTTATTA
1 ATTTATTA
2045540 TAAAATATGG
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
10 6 0.14
11 4 0.10
12 3 0.07
13 22 0.52
15 7 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTTATTAAAATA
Found at i:2045535 original size:14 final size:15
Alignment explanation
Indices: 2045504--2045589 Score: 70
Period size: 14 Copynumber: 5.5 Consensus size: 15
2045494 TAATAAGGTT
2045504 ATTTATTTTAAAAT-
1 ATTTATTTTAAAATA
2045518 ATTT-TTTTAAAATA
1 ATTTATTTTAAAATA
*
2045532 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
*
2045551 TTGATTTATTTTTAAATA
1 ---ATTTATTTTAAAATA
2045569 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2045583 ATTTATT
1 ATTTATT
2045590 AGTATGGATT
Statistics
Matches: 60, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
13 9 0.15
14 20 0.33
15 11 0.18
16 4 0.07
17 2 0.03
18 1 0.02
19 1 0.02
20 2 0.03
21 3 0.05
22 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2045564 original size:51 final size:47
Alignment explanation
Indices: 2045481--2045777 Score: 212
Period size: 54 Copynumber: 5.9 Consensus size: 47
2045471 TATTAAAATA
* *
2045481 ATTTTAAATAA--T-TTAATAAGG-TT-ATTTATTTTAAAAT-ATTT
1 ATTTTAAATAATTTATTAATATGGATTGATTTATTTTTAAATAATTT
2045522 -TTTTAAAATAATTTATTATAAAATATGGATTGATTTATTTTTAAATAATTT
1 ATTTT-AAATAATTTA-T-T--AATATGGATTGATTTATTTTTAAATAATTT
* *
2045573 ATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTGATTT
1 ATTTTAAATAATTTATTAATATGGATTGATTTATTTTTAA--AT--A---ATTT
* *
2045627 ATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTT
1 ATTTTAAATAATTTATTAATATGGATTGATTTATTTT----TA--AA-TAATTT
* *
2045681 ATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
1 ATTTTAAATAATTTATTAATATGGATTGATTTATTTT-TAA-AT--A---ATTT
* * *
2045735 ATTTTAAATAATTTATCAGTATGGATTGATTTATTTTAAAATA
1 ATTTTAAATAATTTATTAATATGGATTGATTTATTTTTAAATA
2045778 TGGATTGATT
Statistics
Matches: 215, Mismatches: 9, Indels: 55
0.77 0.03 0.20
Matches are distributed among these distances:
40 4 0.02
41 6 0.03
43 1 0.00
45 1 0.00
46 1 0.00
47 21 0.10
48 6 0.03
49 7 0.03
50 16 0.07
51 17 0.08
52 6 0.03
53 3 0.01
54 122 0.57
58 2 0.01
59 1 0.00
60 1 0.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (47 bp):
ATTTTAAATAATTTATTAATATGGATTGATTTATTTTTAAATAATTT
Found at i:2045567 original size:22 final size:22
Alignment explanation
Indices: 2045532--2045636 Score: 72
Period size: 22 Copynumber: 4.7 Consensus size: 22
2045522 TTTTAAAATA
* *
2045532 ATTTATTATAAAATATGGATTG
1 ATTTATTTTTAAATATGGATTG
** *
2045554 ATTTATTTTTAAATAATTTATTTTA
1 ATTTATTTTTAAAT-ATGGA--TTG
* * *
2045579 AATAATTTATT-AGTATGGATTG
1 ATTTATTT-TTAAATATGGATTG
2045601 ATTTA-TTTTAAATTATGGATTG
1 ATTTATTTTTAAA-TATGGATTG
2045623 ATTTA-TTTTAAATA
1 ATTTATTTTTAAATA
2045637 ATTTATTAGT
Statistics
Matches: 63, Mismatches: 14, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
20 2 0.03
21 5 0.08
22 38 0.60
23 3 0.05
24 3 0.05
25 10 0.16
26 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (22 bp):
ATTTATTTTTAAATATGGATTG
Found at i:2045607 original size:32 final size:32
Alignment explanation
Indices: 2045569--2045774 Score: 193
Period size: 32 Copynumber: 7.4 Consensus size: 32
2045559 TTTTTAAATA
2045569 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2045601 ATTTA-TTT---TAA---A-T--TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2045623 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2045655 ATTTATTTT-AA-AA--TA-T-G-A---ATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2045677 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2045709 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
2045731 ATTTATTTTAAATAATTTATCAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2045763 ATTTATTTTAAA
1 ATTTATTTTAAA
2045775 ATATGGATTG
Statistics
Matches: 144, Mismatches: 0, Indels: 60
0.71 0.00 0.29
Matches are distributed among these distances:
22 41 0.28
23 9 0.06
24 3 0.02
25 3 0.02
26 9 0.06
27 2 0.01
28 9 0.06
29 3 0.02
30 3 0.02
31 9 0.06
32 53 0.37
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:2045635 original size:54 final size:54
Alignment explanation
Indices: 2045569--2046010 Score: 433
Period size: 54 Copynumber: 8.2 Consensus size: 54
2045559 TTTTTAAATA
*
2045569 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2045623 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2045677 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2045731 ATTTATTTTAAATAATTTATCAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
2045785 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAACA-ATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAA-ATATGGATT-G
** * ** * * * **
2045834 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATAATTTATTAG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ***
2045888 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
2045945 ATTTATTTTATATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2045999 ATTTATTTTAAA
1 ATTTATTTTAAA
2046011 ATATGGATTG
Statistics
Matches: 337, Mismatches: 32, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
48 30 0.09
49 3 0.01
50 5 0.01
51 1 0.00
52 3 0.01
53 3 0.01
54 245 0.73
55 6 0.02
56 7 0.02
57 13 0.04
58 20 0.06
59 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:2045662 original size:22 final size:22
Alignment explanation
Indices: 2045646--2045688 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2045636 AATTTATTAG
*
2045646 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
2045668 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2045689 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2045725 original size:22 final size:22
Alignment explanation
Indices: 2045700--2045742 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2045690 AATTTATTAG
2045700 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2045722 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2045743 TAATTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2045842 original size:32 final size:31
Alignment explanation
Indices: 2045801--2045909 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 31
2045791 TATTGTAGTT
2045801 GTATGGATTGATTTATTTTAAACAATTTATTA
1 GTATGGATTGATTTATTTTAAA-AATTTATTA
2045833 GTATGGATTGATTTATTTT---AA---A--A
1 GTATGGATTGATTTATTTTAAAAATTTATTA
2045856 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAA-AATTTATTA
2045887 GTATGGATTGATTTATTTTAAAA
1 GTATGGATTGATTTATTTTAAAA
2045910 TATGGATTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 21
0.76 0.00 0.24
Matches are distributed among these distances:
22 18 0.27
23 1 0.01
25 1 0.01
26 2 0.03
28 2 0.03
29 1 0.01
31 2 0.03
32 40 0.60
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (31 bp):
GTATGGATTGATTTATTTTAAAAATTTATTA
Found at i:2045845 original size:134 final size:133
Alignment explanation
Indices: 2045668--2046148 Score: 719
Period size: 134 Copynumber: 3.6 Consensus size: 133
2045658 TATTTTAAAA
*
2045668 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
2045733 TTATTTTAAATAATTTATCAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTAT-AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
2045798 GTTG
130 GTTG
*
2045802 TATGGATTGATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
2045867 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTA-TAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
2045932 GTTG
130 GTTG
* *
2045936 TATGGATTGATTTATTTTATATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * * * *
2046001 TTATTTT-AA-AA--TAT-GGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTA-T-
66 TTATTTTAAATAATTTATAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTA
***
2046059 TT-TA-AAA
125 TTGTAGTTG
2046066 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
2046131 TTATTTTAAATAATTTAT
66 TTATTTTAAATAATTTAT
2046149 TATTGTAGTA
Statistics
Matches: 321, Mismatches: 15, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
128 8 0.02
129 4 0.01
130 72 0.22
131 6 0.02
132 6 0.02
133 7 0.02
134 217 0.68
135 1 0.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (133 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
TTG
Found at i:2045859 original size:22 final size:22
Alignment explanation
Indices: 2045834--2046032 Score: 101
Period size: 22 Copynumber: 8.0 Consensus size: 22
2045824 AATTTATTAG
2045834 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2045856 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
2045880 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
***
2045910 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
2045936 TATGGATTGATTTATTTTATATAA
1 TATGGATTGATTTATTTTA-A-AA
* *
2045960 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGA-T---TTATTTTAAAA
*
2045990 TATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2046012 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2046033 TAATTTATTA
Statistics
Matches: 136, Mismatches: 19, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
22 49 0.36
23 4 0.03
24 5 0.04
25 4 0.03
26 32 0.24
27 5 0.04
28 17 0.12
29 3 0.02
30 4 0.03
31 3 0.02
32 10 0.07
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2045940 original size:80 final size:77
Alignment explanation
Indices: 2045834--2046083 Score: 405
Period size: 76 Copynumber: 3.2 Consensus size: 77
2045824 AATTTATTAG
2045834 TATGGATTGATTTA-TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 TATGGATTGATTTATTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
2045898 TTTATTTTAAAA
66 TTTATTTTAAAA
*** *
2045910 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTATATAATTTATTAGTATGGAT
1 TATGGATTGATTTATT-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
2045975 TGATTTATTTTAAAA
63 TGATTTATTTTAAAA
* *
2045990 TATAGATTGATTTA-TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGA
1 TATGGATTGATTTATTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
2046054 TTTATTTTAAAA
66 TTTATTTTAAAA
2046066 TATGGATTGATTTATTTT
1 TATGGATTGATTTATTTT
2046084 AAATAATTTA
Statistics
Matches: 158, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
76 79 0.50
77 6 0.04
78 4 0.03
79 3 0.02
80 66 0.42
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (77 bp):
TATGGATTGATTTATTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
TTTATTTTAAAA
Found at i:2045982 original size:18 final size:17
Alignment explanation
Indices: 2045933--2045983 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
2045923 ATTATTGTAG
2045933 TTGTATGGATTGATTTA
1 TTGTATGGATTGATTTA
* *
2045950 TTTTAT--A-TAATTTA
1 TTGTATGGATTGATTTA
2045964 TTAGTATGGATTGATTTA
1 TT-GTATGGATTGATTTA
2045982 TT
1 TT
2045984 TTAAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 8 0.31
15 4 0.15
17 6 0.23
18 8 0.31
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (17 bp):
TTGTATGGATTGATTTA
Found at i:2046050 original size:32 final size:31
Alignment explanation
Indices: 2046011--2046151 Score: 138
Period size: 22 Copynumber: 5.1 Consensus size: 31
2046001 TTATTTTAAA
2046011 ATATGGATTGATTTATTTTAAATAATTTATT
1 ATATGGATTGATTTATTTTAAATAATTTATT
2046042 ACTATGGATTGATTTA-TTT---TAA---A--
1 A-TATGGATTGATTTATTTTAAATAATTTATT
2046065 ATATGGATTGATTTATTTTAAATAATTTATT
1 ATATGGATTGATTTATTTTAAATAATTTATT
2046096 AGTATGGATTGATTTA-TTT---TAA---A--
1 A-TATGGATTGATTTATTTTAAATAATTTATT
2046119 ATATGGATTGATTTATTTTAAATAATTTATT
1 ATATGGATTGATTTATTTTAAATAATTTATT
2046150 AT
1 AT
2046152 TGTAGTAGTA
Statistics
Matches: 90, Mismatches: 0, Indels: 40
0.69 0.00 0.31
Matches are distributed among these distances:
22 28 0.31
23 8 0.09
25 2 0.02
26 6 0.07
28 6 0.07
29 2 0.02
31 10 0.11
32 28 0.31
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.52
Consensus pattern (31 bp):
ATATGGATTGATTTATTTTAAATAATTTATT
Found at i:2046052 original size:54 final size:54
Alignment explanation
Indices: 2045802--2046150 Score: 463
Period size: 54 Copynumber: 6.6 Consensus size: 54
2045792 ATTGTAGTTG
*
2045802 TATGGATTGATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2045856 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2045910 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTATATAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTA-A-AA
* * * * * *
2045960 TTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATAGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2046012 TATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2046066 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2046120 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
2046151 TTGTAGTAGT
Statistics
Matches: 264, Mismatches: 16, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
48 31 0.12
49 7 0.03
50 6 0.02
51 2 0.01
52 6 0.02
53 6 0.02
54 199 0.75
55 7 0.03
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2046124 original size:76 final size:76
Alignment explanation
Indices: 2045838--2046140 Score: 288
Period size: 76 Copynumber: 3.9 Consensus size: 76
2045828 TATTAGTATG
** * * *
2045838 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
1 GATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGATTTAT
*
2045903 TTTAAAATATG
66 TTTAAAATATA
*** ** * * * *
2045914 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTATATAATTTATTAGTATGGATTGAT
1 GATTGATTTA-T-TT-TA-AAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGAT
2045979 TTATTTTAAAATATA
62 TTATTTTAAAATATA
** * * *
2045994 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTAT
1 GATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGATTTAT
*
2046059 TTTAAAATATG
66 TTTAAAATATA
** ** *
2046070 GATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATT
1 GATTGATTTATTTTAAAAT-ATGGATT-G-ATGGATTTGAAATAATTTATAAATATGGATTGATT
2046132 TATTTTAAA
63 TATTTTAAA
2046141 TAATTTATTA
Statistics
Matches: 199, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
75 4 0.02
76 106 0.53
77 13 0.07
78 7 0.04
79 3 0.02
80 66 0.33
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (76 bp):
GATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGATTTAT
TTTAAAATATA
Found at i:2047907 original size:18 final size:18
Alignment explanation
Indices: 2047884--2047918 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2047874 AGGGATTATC
2047884 AGTGGTC-TTTCGGGACAT
1 AGTGGTCATTT-GGGACAT
2047902 AGTGGTCATTTGGGACA
1 AGTGGTCATTTGGGACA
2047919 AATATTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.31
Consensus pattern (18 bp):
AGTGGTCATTTGGGACAT
Found at i:2051873 original size:22 final size:22
Alignment explanation
Indices: 2051840--2051902 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
2051830 GTCGAGGGTC
2051840 TACGC-GGTCCTTCGGGACATA
1 TACGCAGGTCCTTCGGGACATA
*
2051861 TACAG-AGGTCCTTTGGGACATA
1 TAC-GCAGGTCCTTCGGGACATA
*
2051883 TACGCAGGTCCTTCAGGACA
1 TACGCAGGTCCTTCGGGACA
2051903 AATTCACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.11
22 32 0.89
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (22 bp):
TACGCAGGTCCTTCGGGACATA
Found at i:2057622 original size:18 final size:18
Alignment explanation
Indices: 2057599--2057657 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
2057589 ACCGGTCACA
2057599 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
2057617 ACCCGACCCGACCCATTT
1 ACCCGACCCGACCCGTTG
*
2057635 ACCCGACCCGAACCGTTG
1 ACCCGACCCGACCCGTTG
2057653 ACCCG
1 ACCCG
2057658 TTGACCGTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.20, C:0.49, G:0.19, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2057666 original size:15 final size:16
Alignment explanation
Indices: 2057646--2057680 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2057636 CCCGACCCGA
2057646 ACCGTTGACC-CGTTG
1 ACCGTTGACCGCGTTG
2057661 ACCGTTGACCGGCGTTG
1 ACCGTTGACC-GCGTTG
2057678 ACC
1 ACC
2057681 ACTGTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
17 8 0.44
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.23
Consensus pattern (16 bp):
ACCGTTGACCGCGTTG
Found at i:2058982 original size:13 final size:13
Alignment explanation
Indices: 2058964--2058989 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2058954 TATTCGAAAG
2058964 GATAATATTGAAT
1 GATAATATTGAAT
2058977 GATAATATTGAAT
1 GATAATATTGAAT
2058990 TAAATAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
GATAATATTGAAT
Found at i:2060181 original size:12 final size:12
Alignment explanation
Indices: 2060166--2060226 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
2060156 TGAATTTTGT
2060166 TCTGATTTCTGA
1 TCTGATTTCTGA
*
2060178 TCTGGA-TTCTGT
1 TCT-GATTTCTGA
*
2060190 TCTGATATCTGA
1 TCTGATTTCTGA
* * *
2060202 TATGAATTCTGT
1 TCTGATTTCTGA
*
2060214 TTTGATTTCTGA
1 TCTGATTTCTGA
2060226 T
1 T
2060227 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (12 bp):
TCTGATTTCTGA
Found at i:2060190 original size:24 final size:24
Alignment explanation
Indices: 2060156--2060228 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
2060146 ATACATTACC
* *
2060156 TGAATTTTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATA
* *
2060180 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
*
2060204 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
2060228 T
1 T
2060229 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:2062192 original size:18 final size:18
Alignment explanation
Indices: 2062166--2062200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2062156 TCATCCGGTC
*
2062166 TTATTATTTAATTCAATA
1 TTATCATTTAATTCAATA
*
2062184 TTATCATTTACTTCAAT
1 TTATCATTTAATTCAAT
2062201 CCTTTCGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATCATTTAATTCAATA
Found at i:2064566 original size:12 final size:12
Alignment explanation
Indices: 2064539--2064607 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
2064529 ACGGAGATAT
* *
2064539 CAGAAATCAAAA
1 CAGAATTCATAA
*
2064551 CAGAATTCATAT
1 CAGAATTCATAA
*
2064563 CAG-ATATCAGAA
1 CAGAAT-TCATAA
* *
2064575 CAGAATCCATAT
1 CAGAATTCATAA
*
2064587 CAGAAATCATAA
1 CAGAATTCATAA
2064599 CAGAATTCA
1 CAGAATTCA
2064608 GGTAATGTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (12 bp):
CAGAATTCATAA
Found at i:2064619 original size:48 final size:48
Alignment explanation
Indices: 2064535--2064643 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
2064525 GTAAACGGAG
* *
2064535 ATATCAGAAATCAAAACAGAATTCATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCC
* * * *
2064583 ATATCAGAAATCATAACAGAATTCAGGTAATG-TATCATAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAATCC
2064631 A-AGTCAGAAATCA
1 ATA-TCAGAAATCA
2064644 GATAAAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.02
48 51 0.96
49 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.23
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCC
Found at i:2064643 original size:24 final size:24
Alignment explanation
Indices: 2064535--2064643 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
2064525 GTAAACGGAG
*
2064535 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCATAACAGAATTC
* * *
2064559 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCATAACAGAATTC
2064583 ATATCAGAAATCATAACAGAATTC
1 ATATCAGAAATCATAACAGAATTC
** * *
2064607 AGGTAATG-TATCATAACAGAATTC
1 ATATCA-GAAATCATAACAGAATTC
2064631 A-AGTCAGAAATCA
1 ATA-TCAGAAATCA
2064644 GATAAAATAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.01
24 67 0.97
25 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.23
Consensus pattern (24 bp):
ATATCAGAAATCATAACAGAATTC
Found at i:2067076 original size:18 final size:18
Alignment explanation
Indices: 2067053--2067109 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
2067043 ATCGGTCACA
2067053 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
2067071 ACCCGACCCGACCCATTT
1 ACCCGACCCGACCCGTTG
* *
2067089 ACTCGACCCGAACCGTTG
1 ACCCGACCCGACCCGTTG
2067107 ACC
1 ACC
2067110 GGCGTTGACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.21, C:0.47, G:0.18, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2069616 original size:12 final size:12
Alignment explanation
Indices: 2069596--2069665 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
2069586 GATACATTAC
*
2069596 CTGAATTCTGTT
1 CTGATTTCTGTT
*
2069608 CTGATTTCTGAT
1 CTGATTTCTGTT
2069620 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* * *
2069632 ATGATATCTGAT
1 CTGATTTCTGTT
* *
2069644 ATGAATTCTGTT
1 CTGATTTCTGTT
*
2069656 TTGATTTCTG
1 CTGATTTCTG
2069666 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:2069627 original size:24 final size:24
Alignment explanation
Indices: 2069597--2069669 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
2069587 ATACATTACC
* *
2069597 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATA
* *
2069621 TGGATTCTGTTATGATATCTGATA
1 TGAATTCTGTTATGATTTCTGATA
*
2069645 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
2069669 T
1 T
2069670 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:2071386 original size:18 final size:18
Alignment explanation
Indices: 2071363--2071397 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2071353 AGGGATTATC
2071363 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
2071381 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
2071398 AATATTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2072063 original size:3 final size:3
Alignment explanation
Indices: 2072055--2072090 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2072045 TCTTAAAAAA
2072055 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2072091 AACATTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2073796 original size:25 final size:23
Alignment explanation
Indices: 2073763--2073818 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
2073753 AATATCAAAA
*
2073763 TTTTCAAATAAAAGTCATAATTGTT
1 TTTTTAAATAAAA--CATAATTGTT
* *
2073788 TTTTTAAATAATACTTAATTGTT
1 TTTTTAAATAAAACATAATTGTT
2073811 TTTTTAAA
1 TTTTTAAA
2073819 ATGTTAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 17 0.61
25 11 0.39
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (23 bp):
TTTTTAAATAAAACATAATTGTT
Found at i:2076241 original size:17 final size:18
Alignment explanation
Indices: 2076221--2076254 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2076211 TTTATAAGGT
2076221 ATATTTTGTTA-TATTTA
1 ATATTTTGTTAGTATTTA
2076238 ATATTTTGTTAGTATTT
1 ATATTTTGTTAGTATTT
2076255 TATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (18 bp):
ATATTTTGTTAGTATTTA
Found at i:2076280 original size:21 final size:21
Alignment explanation
Indices: 2076250--2076298 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2076240 ATTTTGTTAG
* *
2076250 TATTTTATTTAATTATTGTAT
1 TATTTAATTTAATTATTATAT
** *
2076271 TATTTAATTTTTTTATTATTT
1 TATTTAATTTAATTATTATAT
2076292 TATTTAA
1 TATTTAA
2076299 ATATTATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTAATTTAATTATTATAT
Found at i:2076292 original size:8 final size:8
Alignment explanation
Indices: 2076222--2076295 Score: 51
Period size: 8 Copynumber: 9.1 Consensus size: 8
2076212 TTATAAGGTA
*
2076222 TATTTTGT
1 TATTTTAT
*
2076230 TATATTTAA
1 TAT-TTTAT
*
2076239 TATTTTGT
1 TATTTTAT
*
2076247 TAGTATT-T
1 TA-TTTTAT
*
2076255 TATTTAAT
1 TATTTTAT
*
2076263 TATTGTAT
1 TATTTTAT
*
2076271 TATTTAAT
1 TATTTTAT
*
2076279 TTTTTTAT
1 TATTTTAT
2076287 TATTTTAT
1 TATTTTAT
2076295 T
1 T
2076296 TAAATATTAT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
7 2 0.04
8 38 0.78
9 9 0.18
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:2076296 original size:16 final size:16
Alignment explanation
Indices: 2076254--2076296 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2076244 TGTTAGTATT
*
2076254 TTATTTAATTATTGTA
1 TTATTTAATTTTTGTA
*
2076270 TTATTTAATTTTTTTA
1 TTATTTAATTTTTGTA
*
2076286 TTATTTTATTT
1 TTATTTAATTT
2076297 AAATATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTAATTTTTGTA
Found at i:2077303 original size:13 final size:13
Alignment explanation
Indices: 2077285--2077319 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2077275 GATATCTGCA
2077285 TGAAAACCAATAT
1 TGAAAACCAATAT
2077298 TGAAAACCAATAT
1 TGAAAACCAATAT
2077311 TGAAAACCA
1 TGAAAACCA
2077320 TTTCATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (13 bp):
TGAAAACCAATAT
Found at i:2078240 original size:18 final size:17
Alignment explanation
Indices: 2078199--2078233 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2078189 CTAAATTATT
2078199 TCTTCTTTTTCTTTCCC
1 TCTTCTTTTTCTTTCCC
2078216 TCTTCTTTTTCTTTCCC
1 TCTTCTTTTTCTTTCCC
2078233 T
1 T
2078234 ATTTCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTTCTTTTTCTTTCCC
Found at i:2078741 original size:11 final size:11
Alignment explanation
Indices: 2078727--2078782 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
2078717 ACCGGTAAAG
2078727 AACCGGCTGAA
1 AACCGGCTGAA
2078738 AACCGG--GAA
1 AACCGGCTGAA
*
2078747 AACCGGGGTG--
1 AACC-GGCTGAA
2078757 AACCGGCTGAA
1 AACCGGCTGAA
2078768 AACCGGC--AA
1 AACCGGCTGAA
2078777 AACCGG
1 AACCGG
2078783 TTTGAACCGC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
9 19 0.49
10 6 0.15
11 13 0.33
12 1 0.03
ACGTcount: A:0.36, C:0.27, G:0.32, T:0.05
Consensus pattern (11 bp):
AACCGGCTGAA
Found at i:2078761 original size:30 final size:30
Alignment explanation
Indices: 2078726--2078791 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
2078716 AACCGGTAAA
*
2078726 GAACCGGCTGAAAACCGGGAAAACCGGGGT
1 GAACCGGCTGAAAACCGGCAAAACCGGGGT
**
2078756 GAACCGGCTGAAAACCGGCAAAACCGGTTT
1 GAACCGGCTGAAAACCGGCAAAACCGGGGT
2078786 GAACCG
1 GAACCG
2078792 CCGGTTCACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.26, G:0.32, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGGCAAAACCGGGGT
Found at i:2081038 original size:16 final size:16
Alignment explanation
Indices: 2081017--2081049 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2081007 CAAGGTGCAG
*
2081017 AAAAGACGAAAAAGGT
1 AAAAGAAGAAAAAGGT
2081033 AAAAGAAGAAAAAGGT
1 AAAAGAAGAAAAAGGT
2081049 A
1 A
2081050 TGATTACAAT
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:0.67, C:0.03, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAAGAAGAAAAAGGT
Found at i:2085657 original size:61 final size:61
Alignment explanation
Indices: 2085514--2085662 Score: 153
Period size: 61 Copynumber: 2.5 Consensus size: 61
2085504 TCCTTATATT
* ** *
2085514 TTTTGAATATTCAAATTTCAT-TCTCAAACTATGACTCTCATTCTAAATCAGTCCTTAAAC
1 TTTTGAATATTCAAATTTCATCCCTCAAACTATGACTCTCATTCTAAATCAGTCCCCAAAA
* * * * *
2085574 TTTTGAACATTCTAATTTCATCCCT-AAACTATGAC-CATCTTTTTTAAATTAGTCCCCAAAA
1 TTTTGAATATTCAAATTTCATCCCTCAAACTATGACTC-TC-ATTCTAAATCAGTCCCCAAAA
* *
2085635 TTTTGAATATTCCAATTCCATCCC-CAAA
1 TTTTGAATATTCAAATTTCATCCCTCAAA
2085663 TTCATCCAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
59 1 0.01
60 31 0.42
61 41 0.56
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (61 bp):
TTTTGAATATTCAAATTTCATCCCTCAAACTATGACTCTCATTCTAAATCAGTCCCCAAAA
Found at i:2085891 original size:60 final size:57
Alignment explanation
Indices: 2085785--2085958 Score: 188
Period size: 60 Copynumber: 2.9 Consensus size: 57
2085775 TATATATGTT
*
2085785 TAGTTTGGGATGAAATT-AGAATGTTCAAAAAGTTTAGGGACCAATTTAGAATAAAGGTTA
1 TAGTTTGGGATGAAATTGA-AATGTTC-AAAAGTTTAGGGACCAATTTAGAATAAA--TCA
* * *
2085845 TAGTTTGGGGATTAAATTGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGATAATCA
1 TAGTTT-GGGATGAAATTGAAATGTTCAAAAGTTTAGGGACCAATTTAGAAT-A-AATCA
* * * * *
2085905 TATTTTAAGGATGAAATTGAAATATTTAAAAGTTTAGGGACCAATTTAAAATAA
1 TAGTTT-GGGATGAAATTGAAATGTTCAAAAGTTTAGGGACCAATTTAGAATAA
2085959 GGATCATGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 74 0.76
61 18 0.19
62 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.34
Consensus pattern (57 bp):
TAGTTTGGGATGAAATTGAAATGTTCAAAAGTTTAGGGACCAATTTAGAATAAATCA
Found at i:2087571 original size:14 final size:12
Alignment explanation
Indices: 2087550--2087730 Score: 100
Period size: 12 Copynumber: 14.9 Consensus size: 12
2087540 TATACTTATT
2087550 TATAT-ATATAA
1 TATATAATATAA
*
2087561 GTATA-AGTATAA
1 -TATATAATATAA
*
2087573 T-TAT-ATAAAA
1 TATATAATATAA
*
2087583 TATAAAATATAA
1 TATATAATATAA
2087595 TATATAATAT-A
1 TATATAATATAA
2087606 TA-AT-ATATAA
1 TATATAATATAA
2087616 TATAT-ATATATA
1 TATATAATATA-A
2087628 TATATAAACTATAA
1 TATAT-AA-TATAA
2087642 TATAT-ATATATA
1 TATATAATATA-A
2087654 TATATGAACTATAA
1 TATAT-AA-TATAA
*
2087668 -AGAATAAGTATATA
1 TA-TATAA-TATA-A
2087682 TATATAAGTAT-A
1 TATATAA-TATAA
2087694 TATA-AAGTATAA
1 TATATAA-TATAA
2087706 GTATAT-ATATATA
1 -TATATAATATA-A
2087719 TATATATATATA
1 TATATA-ATATA
2087731 TGTGGCAAGG
Statistics
Matches: 137, Mismatches: 9, Indels: 44
0.72 0.05 0.23
Matches are distributed among these distances:
9 4 0.03
10 12 0.09
11 23 0.17
12 51 0.37
13 13 0.09
14 25 0.18
15 9 0.07
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (12 bp):
TATATAATATAA
Found at i:2087587 original size:7 final size:7
Alignment explanation
Indices: 2087568--2087730 Score: 132
Period size: 7 Copynumber: 23.6 Consensus size: 7
2087558 TAAGTATAAG
2087568 TATAATTA
1 TATAA-TA
*
2087576 TATAAAA
1 TATAATA
*
2087583 TATAAAA
1 TATAATA
2087590 TATAATA
1 TATAATA
2087597 TATAATA
1 TATAATA
2087604 TATAATA
1 TATAATA
2087611 TATAATA
1 TATAATA
2087618 TAT-ATA
1 TATAATA
2087624 TAT-ATA
1 TATAATA
2087630 TATAA-A
1 TATAATA
2087636 CTATAATA
1 -TATAATA
2087644 TAT-ATA
1 TATAATA
2087650 TAT-ATA
1 TATAATA
2087656 TATGAACTA
1 TAT-AA-TA
*
2087665 TA-AAGA
1 TATAATA
2087671 -ATAAGTA
1 TATAA-TA
2087678 TAT-ATA
1 TATAATA
2087684 TATAAGTA
1 TATAA-TA
*
2087692 TATATAAA
1 TATA-ATA
2087700 GTATAAGTA
1 -TATAA-TA
2087709 TAT-ATA
1 TATAATA
2087715 TAT-ATA
1 TATAATA
2087721 TAT-ATA
1 TATAATA
2087727 TATA
1 TATA
2087731 TGTGGCAAGG
Statistics
Matches: 134, Mismatches: 6, Indels: 31
0.78 0.04 0.18
Matches are distributed among these distances:
5 1 0.01
6 50 0.37
7 53 0.40
8 20 0.15
9 10 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (7 bp):
TATAATA
Found at i:2087604 original size:26 final size:27
Alignment explanation
Indices: 2087574--2087718 Score: 143
Period size: 26 Copynumber: 5.2 Consensus size: 27
2087564 TAAGTATAAT
2087574 TATATAAAATATAAAATATAATATATA
1 TATATAAAATATAAAATATAATATATA
* *
2087601 -ATATATAATATATAATATATATATATA
1 TATATAAAATATAAAATATA-ATATATA
* *
2087628 TATATAAACTATAATATAT-ATATATA
1 TATATAAAATATAAAATATAATATATA
* *
2087654 TATATGAACTATAAAGA-ATAAGTATATA
1 TATATAAAATATAAA-ATATAA-TATATA
*
2087682 TATATAAGTATATATAAAGTATAAGTATATA
1 TATATAA--A-ATATAAAATATAA-TATATA
2087713 TATATA
1 TATATA
2087719 TATATATATA
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
26 39 0.40
27 9 0.09
28 26 0.27
30 1 0.01
31 23 0.23
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (27 bp):
TATATAAAATATAAAATATAATATATA
Found at i:2087606 original size:2 final size:2
Alignment explanation
Indices: 2087589--2087731 Score: 117
Period size: 2 Copynumber: 73.0 Consensus size: 2
2087579 AAAATATAAA
2087589 AT AT A- AT AT AT A- AT AT AT A- AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2087627 AT AT AT AA ACT AT A- AT AT AT AT AT AT AT AT AT GA- ACT AT AA
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT
* *
2087668 AG A- AT A- AGT AT AT AT AT AT A- AGT AT AT AT AA AGT AT A- AGT
1 AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT A-T
2087708 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2087732 GTGGCAAGGA
Statistics
Matches: 118, Mismatches: 6, Indels: 34
0.75 0.04 0.22
Matches are distributed among these distances:
1 10 0.08
2 101 0.86
3 7 0.06
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:2087710 original size:25 final size:25
Alignment explanation
Indices: 2087550--2087731 Score: 120
Period size: 26 Copynumber: 7.4 Consensus size: 25
2087540 TATACTTATT
2087550 TATATATATA-AGTAT-AAGTATA-A
1 TATATATATATA-TATAAAGTATATA
*
2087573 T-TATATA-AAATATAAA--ATATA
1 TATATATATATATATAAAGTATATA
2087594 -ATATATA-ATATATAATA-TATAATA
1 TATATATATATATATAA-AGTAT-ATA
*
2087618 TATATATATATATATAAACTATAATA
1 TATATATATATATATAAAGTAT-ATA
* * *
2087644 TATATATATATATATGAACTATAAA
1 TATATATATATATATAAAGTATATA
*
2087669 GA-ATAAGTATATATATATAAGTATATA
1 TATAT-A-TATATATATA-AAGTATATA
* *
2087696 TAAAGTATA-AGTATATATA-TATATA
1 TATA-TATATA-TATATAAAGTATATA
2087721 TATATATATAT
1 TATATATATAT
2087732 GTGGCAAGGA
Statistics
Matches: 132, Mismatches: 10, Indels: 33
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.02
21 18 0.14
22 10 0.08
23 3 0.02
24 10 0.08
25 22 0.17
26 47 0.36
27 16 0.12
28 2 0.02
29 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (25 bp):
TATATATATATATATAAAGTATATA
Found at i:2087856 original size:130 final size:132
Alignment explanation
Indices: 2087721--2087967 Score: 317
Period size: 133 Copynumber: 1.9 Consensus size: 132
2087711 TATATATATA
* * * *
2087721 TATATATATATGTGGCAAGGAATAATTACT-ATT-GTGTCAAACC-CTAT-CAAATTGATTTGAT
1 TATATATATAAGTGGCAAGAAATAA-TACTCATTAG-ATCAAACCACCATCCAAATTGATTTGAT
* * *
2087782 TTT-TTTCACCAAGATTGGTGGTATGGA-ACCTAAAAAGATGGAGTCATTTAATGCTCATCTTTT
64 TTTGTTT-ACAAAGATTGATGATAT-GACACCTAAAAAGATGGAGTCATTTAATGCTCATCTTTT
2087845 TTAATT
127 TTAATT
* *
2087851 TATATATATAAGTGGCAAGAAATAATGCTCATTAGATCAAACCAACCGTCCAAATTGATTTGATT
1 TATATATATAAGTGGCAAGAAATAATACTCATTAGATCAAACC-ACCATCCAAATTGATTTGATT
*
2087916 TTGTTTACAAAGATTGATGATATGACGCCTAAAAAGATGGAGTCATTTAATG
65 TTGTTTACAAAGATTGATGATATGACACCTAAAAAGATGGAGTCATTTAATG
2087968 AATTTAACTT
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
129 3 0.03
130 33 0.33
131 1 0.01
132 4 0.04
133 56 0.56
134 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (132 bp):
TATATATATAAGTGGCAAGAAATAATACTCATTAGATCAAACCACCATCCAAATTGATTTGATTT
TGTTTACAAAGATTGATGATATGACACCTAAAAAGATGGAGTCATTTAATGCTCATCTTTTTTAA
TT
Found at i:2090151 original size:178 final size:178
Alignment explanation
Indices: 2089852--2090215 Score: 692
Period size: 178 Copynumber: 2.0 Consensus size: 178
2089842 GCCGGACGCA
* *
2089852 ATGAAACTATTAAGCTGGAACGTTCGGGGGTTGGGGTTTCCCCAAACAGTTCGTCCTCTCAGGCA
1 ATGAAACTATTAAGCTGGAACGTTCGGGGGTTGGGGTTGCCCCAAACAGTTCGTCCTCTCAGGAA
2089917 CATGCTGAGAGAAATAAACCCAATTGTAGTCTTCTTTATGGAGACAAAGCTACACAAATCTAGAA
66 CATGCTGAGAGAAATAAACCCAATTGTAGTCTTCTTTATGGAGACAAAGCTACACAAATCTAGAA
2089982 TGGAGAAAATTCGCAAGTCATGTTGTTTCTTGCATGTTATTGAAGTGG
131 TGGAGAAAATTCGCAAGTCATGTTGTTTCTTGCATGTTATTGAAGTGG
2090030 ATGAAACTATTAAGCTGGAACGTTCGGGGGTTGGGGTTGCCCCAAACAGTTCGTCCTCTCAGGAA
1 ATGAAACTATTAAGCTGGAACGTTCGGGGGTTGGGGTTGCCCCAAACAGTTCGTCCTCTCAGGAA
2090095 CATGCTGAGAGAAATAAACCCAATTGTAGTCTTCTTTATGGAGACAAAGCTACACAAATCTAGAA
66 CATGCTGAGAGAAATAAACCCAATTGTAGTCTTCTTTATGGAGACAAAGCTACACAAATCTAGAA
*
2090160 TTGAGAAAATTCGCAAGTCATGTTGTTTCTTGCATGTTATTGAAGTGG
131 TGGAGAAAATTCGCAAGTCATGTTGTTTCTTGCATGTTATTGAAGTGG
*
2090208 ATGCAACT
1 ATGAAACT
2090216 GGTACCCGTG
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 182 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (178 bp):
ATGAAACTATTAAGCTGGAACGTTCGGGGGTTGGGGTTGCCCCAAACAGTTCGTCCTCTCAGGAA
CATGCTGAGAGAAATAAACCCAATTGTAGTCTTCTTTATGGAGACAAAGCTACACAAATCTAGAA
TGGAGAAAATTCGCAAGTCATGTTGTTTCTTGCATGTTATTGAAGTGG
Found at i:2092081 original size:18 final size:18
Alignment explanation
Indices: 2092058--2092108 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
2092048 TGACCGGTCA
2092058 CGACCCGACCCGTTGACT
1 CGACCCGACCCGTTGACT
2092076 CGACCCGACCCGTTGACT
1 CGACCCGACCCGTTGACT
2092094 CGACCCGA-CCGTTGA
1 CGACCCGACCCGTTGA
2092109 TCGGTGCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.18, C:0.43, G:0.24, T:0.16
Consensus pattern (18 bp):
CGACCCGACCCGTTGACT
Found at i:2092153 original size:29 final size:29
Alignment explanation
Indices: 2092111--2092211 Score: 184
Period size: 29 Copynumber: 3.5 Consensus size: 29
2092101 ACCGTTGATC
*
2092111 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
2092140 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
2092169 GGTGCTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
2092198 GGTGCTATTCTGGT
1 GGTGCTATTCTGGT
2092212 GCTATTTGTG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.46
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:2098833 original size:29 final size:29
Alignment explanation
Indices: 2098791--2098958 Score: 282
Period size: 29 Copynumber: 5.8 Consensus size: 29
2098781 ACCGTTGACC
* *
2098791 GGTGTTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
2098820 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
2098849 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
2098878 GGTGCTATTCTGGTAAATAATTCGGTTTTT
1 GGTGCTATTCTGGTAAATAATTCGG-TTTT
*
2098908 GGTGCTATCCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
2098937 GGTGCTATTCTGGTAATTAATT
1 GGTGCTATTCTGGTAAATAATT
2098959 TGAAATGGGT
Statistics
Matches: 133, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
29 105 0.79
30 28 0.21
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.46
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:2098892 original size:58 final size:59
Alignment explanation
Indices: 2098791--2098958 Score: 284
Period size: 59 Copynumber: 2.9 Consensus size: 59
2098781 ACCGTTGACC
* * *
2098791 GGTGTTATTTTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATAATTCGG-TTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAATAATTCGGTTTTT
2098849 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAATAATTCGGTTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAATAATTCGGTTTTT
* *
2098908 GGTGCTATCCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAATTAATT
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAATAATT
2098959 TGAAATGGGT
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
58 51 0.49
59 53 0.51
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.46
Consensus pattern (59 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAATAATTCGGTTTTT
Done.