Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003891.1 Hibiscus syriacus cultivar Beakdansim tig00008404_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: 117207
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:11287 original size:20 final size:20
Alignment explanation
Indices: 11262--11318 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
11252 ACACAAACAG
11262 ATTTAAAGGGAAAACACAAT
1 ATTTAAAGGGAAAACACAAT
11282 ATTTAAAGGGAAAACACAAT
1 ATTTAAAGGGAAAACACAAT
11302 ATTTAAAGGGAAAACAC
1 ATTTAAAGGGAAAACAC
11319 GTCAATTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.54, C:0.11, G:0.16, T:0.19
Consensus pattern (20 bp):
ATTTAAAGGGAAAACACAAT
Found at i:12344 original size:6 final size:6
Alignment explanation
Indices: 12304--12340 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
12294 TGGTGCCTGC
12304 AAAAT- AAAATA AAAATA AAAATA AAAATA AATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA A
12341 TAATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:12770 original size:84 final size:84
Alignment explanation
Indices: 12647--12818 Score: 218
Period size: 84 Copynumber: 2.0 Consensus size: 84
12637 CAAACTCGTC
* * * * * *
12647 AGGTCTTTGGTTGGTAGATAGCCTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
1 AGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGCTATACTGCAAATGAGGTGCCTTGGAGC
* *
12712 TGAGAGTAGTCGAACTCGA
66 TGAGAGTAATCGAACTCAA
* * * * *
12731 AGGTCTTTGGTTGGCAAATAACCCTTCTTGCCTTGAGCTATATTGTAAATGAGGTGCCTTGGAGC
1 AGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGCTATACTGCAAATGAGGTGCCTTGGAGC
*
12796 TGAGTGTAATCGAACTCAA
66 TGAGAGTAATCGAACTCAA
12815 AGGT
1 AGGT
12819 TTGTGTTGAA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (84 bp):
AGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGCTATACTGCAAATGAGGTGCCTTGGAGC
TGAGAGTAATCGAACTCAA
Found at i:13187 original size:65 final size:63
Alignment explanation
Indices: 13068--13277 Score: 239
Period size: 65 Copynumber: 3.3 Consensus size: 63
13058 TTTATCAAAG
* *
13068 TGATGCATCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATTC
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
13130 ATT
61 ATT
* *
13133 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
13197 T
63 T
* * * *
13198 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
13262 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
13278 TCTTAGTGCA
Statistics
Matches: 127, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 48 0.38
65 70 0.55
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:13755 original size:20 final size:20
Alignment explanation
Indices: 13727--13764 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13717 TGAGAAAGAA
*
13727 TGTTCTCAAGAATTGGAGAG
1 TGTTATCAAGAATTGGAGAG
13747 TGTTATCAAGAATTGGAG
1 TGTTATCAAGAATTGGAG
13765 TATATTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (20 bp):
TGTTATCAAGAATTGGAGAG
Found at i:21445 original size:40 final size:40
Alignment explanation
Indices: 21390--21473 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
21380 GGAAAGAAGT
*
21390 GTAAAAGTATCAAAGGGGAGAAATATTGTAATAAGGGTGA
1 GTAAAAGTATCAAAGGGGAGAAATATTGTAATAAGGGGGA
* * * * *
21430 GTAAAAGTGTTAAAGGGGAGAAGTGTTGTAGTAAGGGGGA
1 GTAAAAGTATCAAAGGGGAGAAATATTGTAATAAGGGGGA
21470 GTAA
1 GTAA
21474 TTTTTCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.01, G:0.36, T:0.23
Consensus pattern (40 bp):
GTAAAAGTATCAAAGGGGAGAAATATTGTAATAAGGGGGA
Found at i:22004 original size:64 final size:64
Alignment explanation
Indices: 21797--22006 Score: 239
Period size: 65 Copynumber: 3.2 Consensus size: 64
21787 TTTATCAAAG
* * ** *
21797 TGATGCACCGATGCACCAATCCATGCATCGATGCA-TCATGAATTAAATTG-AACATTGAATGCA
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTC-TGGA-TATTTTGAAACATCGAATGCA
21860 TT
63 TT
* * **
21862 TCATGCATCCATGCA-CATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCA
21925 TT
63 TT
* *
21927 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
21991 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
22007 TCTTAGTGTA
Statistics
Matches: 123, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 50 0.41
65 64 0.52
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
Found at i:22006 original size:17 final size:19
Alignment explanation
Indices: 21978--22026 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
21968 TATTTTGAAA
21978 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
21996 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
22015 TATCGATGCACT
1 CATCGATGCACT
22027 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:22815 original size:22 final size:22
Alignment explanation
Indices: 22785--22826 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22775 TCAAGAGAAA
* *
22785 TTGTCTCAAGGGAGGCAAAATT
1 TTGTCTCAAGAGAGACAAAATT
*
22807 TTGTTTCAAGAGAGACAAAA
1 TTGTCTCAAGAGAGACAAAA
22827 CTTAGTTCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (22 bp):
TTGTCTCAAGAGAGACAAAATT
Found at i:22988 original size:37 final size:40
Alignment explanation
Indices: 22906--23004 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 40
22896 TGTTTCAAGG
* *
22906 GAAACTGTCTCAAGAGAGACAAAGACAAAATTTGTTCCAAGA
1 GAAACTGTCTCAAGAGAGACAAAGAC--AATTAGTTCCAAAA
*
22948 GAAACGGTCTCAAGAGAGACAAA-AC-A-TAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAGACAATTAGTTCCAAAA
* *
22985 GAAATTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
23005 GAAATTTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 26 0.51
38 1 0.02
41 2 0.04
42 22 0.43
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (40 bp):
GAAACTGTCTCAAGAGAGACAAAGACAATTAGTTCCAAAA
Found at i:23025 original size:144 final size:145
Alignment explanation
Indices: 22812--23154 Score: 454
Period size: 144 Copynumber: 2.4 Consensus size: 145
22802 AAATTTTGTT
* *
22812 TCAAGAGAGACAAAACTTAGTTCCGAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
1 TCAAGAGAGACAAAACATAGTTCCAAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
*
22877 AAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGACAAAATTTGTT
66 AAAACATATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATTTGTT
22942 CCAAGAGAAACGGTC
131 CCAAGAGAAACGGTC
* *
22957 TCAAGAGAGACAAAACATAGTTCCAAAAG-AAATTGTCTCAAGGGAGACGAAATTTGTTT-AATG
1 TCAAGAGAGACAAAACATAGTTCCAAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-G
*
23020 TAAAACATATTCAAAGATTTTGTTTCAAGAGAAACTGTCTC-A-AGAG----AGACAAAATTTGT
65 GAAAACATATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATTTG-
* * *
23079 TTTCAAGGGAAACTGTC
129 TTCCAAGAGAAACGGTC
* ** * * *
23096 TCAAGAGAGATAAAATTTA-TTTCAAGAG-AAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 TCAAGAGAGACAAAACATAGTTCCAAAAGAAAACTGTCTCAAGGGAGACAAAA-TTTGTTT
23155 TGAGTAAATT
Statistics
Matches: 178, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
138 39 0.22
139 37 0.21
142 4 0.02
143 3 0.02
144 68 0.38
145 27 0.15
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (145 bp):
TCAAGAGAGACAAAACATAGTTCCAAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
AAAACATATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATTTGTT
CCAAGAGAAACGGTC
Found at i:23091 original size:37 final size:37
Alignment explanation
Indices: 23038--23155 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
23028 ATTCAAAGAT
23038 TTTG-TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
23074 TTTGTTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA
1 TTTGTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
23111 TTT-ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
23147 CTTTGTTTT
1 -TTTGTTTT
23156 GAGTAAATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 34 0.47
37 36 0.49
38 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (37 bp):
TTTGTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:23522 original size:44 final size:43
Alignment explanation
Indices: 23457--23571 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
23447 CTTTGAATTA
* * *
23457 GATATCCTTCATTGTGAAGTTGAAATC-CAATCTAGAGTTGGCAC
1 GATATCCTTCGTTGTGGAGTTGAAATCGCAAT-T-GAGTGGGCAC
** *
23501 GATATCCTTCGTTGTGGAGTTGAAATCGCGGTTGTGTGGGCAC
1 GATATCCTTCGTTGTGGAGTTGAAATCGCAATTGAGTGGGCAC
* *
23544 GATATCCTCCGTTGAGGAGTTGAAATCG
1 GATATCCTTCGTTGTGGAGTTGAAATCG
23572 TGGATCCGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 34 0.55
44 26 0.42
45 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GATATCCTTCGTTGTGGAGTTGAAATCGCAATTGAGTGGGCAC
Found at i:23557 original size:43 final size:43
Alignment explanation
Indices: 23496--23613 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
23486 ATCTAGAGTT
* * **
23496 GGCACGATATCCTTCGTTGTGGAGTTGAAATCGCGGTTGTGTG
1 GGCACGATATCCTCCGTTGTGGAGTTGAAATCGCGGATCCGTG
* *
23539 GGCACGATATCCTCCGTTGAGGAGTTGAAATCGTGGATCCGTG
1 GGCACGATATCCTCCGTTGTGGAGTTGAAATCGCGGATCCGTG
* ** *
23582 GGTACGATATCCTCCGTCATGGAGCTGAAATC
1 GGCACGATATCCTCCGTTGTGGAGTTGAAATC
23614 ATGGATGGCC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (43 bp):
GGCACGATATCCTCCGTTGTGGAGTTGAAATCGCGGATCCGTG
Found at i:24763 original size:83 final size:89
Alignment explanation
Indices: 24643--24860 Score: 265
Period size: 83 Copynumber: 2.5 Consensus size: 89
24633 GGCTAGCTGA
*
24643 ATCCATAAAGCTAGGG-TGTTTAACCAATTGCTCTAGAGGGATAGCTC-A-A-TAT-GTA-AA-C
1 ATCCATAAAGCCAGGGCT-TTTAACCAATTGCTCTAGAGGGATAGCTCAATATTATAGTATAATC
* *
24701 ACCTTTATCAGATTAGCTGAATCTT
65 ACCTTTATCAGACTAGCTGAATATT
24726 ATCCATAAAGCCAGGGCTTTTAACCAATTGC-CTTAGAGGGATAGCTCAAGCTTTATTGTATAGT
1 ATCCATAAAGCCAGGGCTTTTAACCAATTGCTC-TAGAGGGATAGCTCAA----TA-T-TATAGT
*
24790 ATAATCACCTTTATCAGGCTAGCTGAATATT
59 ATAATCACCTTTATCAGACTAGCTGAATATT
24821 ATCCATAAAGCC-GGGCTTTTAACCAATTGCTCTAGAGGGA
1 ATCCATAAAGCCAGGGCTTTTAACCAATTGCTCTAGAGGGA
24861 CAACTCAAGC
Statistics
Matches: 116, Mismatches: 4, Indels: 19
0.83 0.03 0.14
Matches are distributed among these distances:
82 1 0.01
83 42 0.36
84 2 0.02
89 1 0.01
92 3 0.03
93 3 0.03
94 28 0.24
95 36 0.31
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (89 bp):
ATCCATAAAGCCAGGGCTTTTAACCAATTGCTCTAGAGGGATAGCTCAATATTATAGTATAATCA
CCTTTATCAGACTAGCTGAATATT
Found at i:24872 original size:94 final size:94
Alignment explanation
Indices: 24691--24885 Score: 295
Period size: 94 Copynumber: 2.1 Consensus size: 94
24681 GGATAGCTCA
* * * *
24691 ATATGTAAACACCTTTATCAGATTAGCTGAATCTTATCCATAAAGCCAGGGCTTTTAACCAATTG
1 ATATATAATCACCTTTATCAGACTAGCTGAATATTATCCATAAAGCCAGGGCTTTTAACCAATTG
* *
24756 CCTTAGAGGGATAGCTCAAGCTTTATTGT
66 CCTTAGAGGGACAACTCAAGCTTTATTGT
*
24785 ATAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCC-GGGCTTTTAACCAATT
1 ATA-TATAATCACCTTTATCAGACTAGCTGAATATTATCCATAAAGCCAGGGCTTTTAACCAATT
24849 G-CTCTAGAGGGACAACTCAAGCTTTATTGT
65 GCCT-TAGAGGGACAACTCAAGCTTTATTGT
24879 ATATATA
1 ATATATA
24886 TAATATTATA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
93 6 0.07
94 47 0.51
95 39 0.42
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (94 bp):
ATATATAATCACCTTTATCAGACTAGCTGAATATTATCCATAAAGCCAGGGCTTTTAACCAATTG
CCTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:24888 original size:95 final size:96
Alignment explanation
Indices: 24691--24889 Score: 296
Period size: 95 Copynumber: 2.1 Consensus size: 96
24681 GGATAGCTCA
* * * *
24691 ATATGTAAACACCTTTATCAGATTAGCTGAATCTTATCCATAAAGCCAGGGCTTTTAACCAATTG
1 ATATATAATCACCTTTATCAGACTAGCTGAATATTATCCATAAAGCCAGGGCTTTTAACCAATTG
* *
24756 CCTTAGAGGGATAGCTCAAGCTTTATTGTAT
66 CCTTAGAGGGACAACTCAAGCTTTATTGTAT
* *
24787 A-GTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCC-GGGCTTTTAACCAATTG
1 ATATATAATCACCTTTATCAGACTAGCTGAATATTATCCATAAAGCCAGGGCTTTTAACCAATTG
24850 -CTCTAGAGGGACAACTCAAGCTTTATTGTAT
66 CCT-TAGAGGGACAACTCAAGCTTTATTGTAT
24881 ATATATAAT
1 ATATATAAT
24890 ATTATAATCT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
93 2 0.02
94 44 0.48
95 45 0.49
96 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (96 bp):
ATATATAATCACCTTTATCAGACTAGCTGAATATTATCCATAAAGCCAGGGCTTTTAACCAATTG
CCTTAGAGGGACAACTCAAGCTTTATTGTAT
Found at i:27624 original size:21 final size:22
Alignment explanation
Indices: 27565--27635 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
27555 AGTAATAATA
* *
27565 AAATAAAA-TAGATAACAAAGAT
1 AAATAAAATTAAATAA-AAAAAT
*
27587 AAATAAAAGTT-AGTAAAAAAAT
1 AAATAAAA-TTAAATAAAAAAAT
*
27609 -AATAAAATTAAAT-AAAAATT
1 AAATAAAATTAAATAAAAAAAT
27629 AAATAAA
1 AAATAAA
27636 TAGAAAGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 8 0.20
21 15 0.38
22 13 0.32
23 3 0.08
24 1 0.03
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (22 bp):
AAATAAAATTAAATAAAAAAAT
Found at i:27789 original size:20 final size:20
Alignment explanation
Indices: 27726--27782 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
27716 ACACAAACAG
27726 ATTTAAAGGGAAAACACAAT
1 ATTTAAAGGGAAAACACAAT
*
27746 ATTTAAAGGGAAAGCACAAT
1 ATTTAAAGGGAAAACACAAT
27766 ATTTAAAGGGAAAACAC
1 ATTTAAAGGGAAAACAC
27783 GTCATTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.19
Consensus pattern (20 bp):
ATTTAAAGGGAAAACACAAT
Found at i:29017 original size:18 final size:18
Alignment explanation
Indices: 28994--29057 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
28984 TTCATTGAAA
28994 AACCGAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
29012 AACCGAAAAACCCGAACCG
1 AACCGAAAAA-CCGAACCG
*
29031 TTAA---AAAACCCGAACCG
1 --AACCGAAAAACCGAACCG
29048 AACCGAAAAA
1 AACCGAAAAA
29058 ACCGGTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 8 0.21
18 18 0.47
19 8 0.21
21 2 0.05
ACGTcount: A:0.52, C:0.31, G:0.14, T:0.03
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:29028 original size:14 final size:14
Alignment explanation
Indices: 29009--29049 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 14
28999 AAAAACCGAA
29009 CCGAACCGAAAAAC
1 CCGAACCGAAAAAC
29023 CCGAACCGTTAAAAAAC
1 CCGAACCG---AAAAAC
29040 CCGAACCGAA
1 CCGAACCGAA
29050 CCGAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.42
17 14 0.58
ACGTcount: A:0.46, C:0.34, G:0.15, T:0.05
Consensus pattern (14 bp):
CCGAACCGAAAAAC
Found at i:29315 original size:16 final size:18
Alignment explanation
Indices: 29279--29313 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29269 ATATATATAT
29279 ATATATAATAAAATAAAA
1 ATATATAATAAAATAAAA
*
29297 ATATATAA-AAAACAAAA
1 ATATATAATAAAATAAAA
29314 TAACTCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
ATATATAATAAAATAAAA
Found at i:30018 original size:4 final size:4
Alignment explanation
Indices: 30009--30045 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
29999 AAACCAATAA
30009 TGCT TGCT TGCT TGCT TGCT TGCT TGCT TGCT TGCT T
1 TGCT TGCT TGCT TGCT TGCT TGCT TGCT TGCT TGCT T
30046 TTAGATAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.51
Consensus pattern (4 bp):
TGCT
Found at i:39160 original size:26 final size:26
Alignment explanation
Indices: 39131--39182 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
39121 AACCAGCGCC
39131 CCTAGCACTTGACCTCTGGCTCATGT
1 CCTAGCACTTGACCTCTGGCTCATGT
*
39157 CCTAGCACTTGACTTCTGGCTCATGT
1 CCTAGCACTTGACCTCTGGCTCATGT
39183 GACCCTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGCACTTGACCTCTGGCTCATGT
Found at i:42207 original size:2 final size:2
Alignment explanation
Indices: 42166--42197 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
42156 TATTTTTGTA
42166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42198 CAAAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46825 original size:21 final size:21
Alignment explanation
Indices: 46774--46826 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
46764 ATTATGATTA
*
46774 TCGCAATGCGATTTTCTAATT
1 TCGCAATGCGATTTTCCAATT
**
46795 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
46816 TCGCAATGCGA
1 TCGCAATGCGA
46827 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:46859 original size:21 final size:20
Alignment explanation
Indices: 46816--46867 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
46806 TTTTCCCAAT
*
46816 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
46836 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
46857 TCGCAACGCGA
1 TCGCAATGCGA
46868 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:46881 original size:20 final size:20
Alignment explanation
Indices: 46856--46970 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
46846 AATTTGGAAA
46856 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
46876 ATCGCAACGCAATAATATAAA
1 ATCGCAACGCGATACT-GACT
46897 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
46917 TTCGCAACTCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* *
46937 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
46957 TTCGCAACGAGATA
1 ATCGCAACGCGATA
46971 ATACATAATC
Statistics
Matches: 74, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
20 59 0.80
21 15 0.20
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:46953 original size:40 final size:41
Alignment explanation
Indices: 46853--46990 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 41
46843 GCGAATTTGG
*
46853 AAAATCGCAACGCGATACTGACTATCGCAACGCAATAATAT
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCAATAATAT
* * *
46894 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCAATAATAT
** * *
46934 AATTTCGCAACGCAATACTGACTTTCGCAACG-AGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCA-ATAATAT
* *
46975 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
46991 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 33 0.42
41 46 0.58
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCAATAATAT
Found at i:47154 original size:19 final size:19
Alignment explanation
Indices: 47119--47157 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47109 AAAATCACAA
*
47119 CTCACTCTCATCTCCATCT
1 CTCACTCTCATCCCCATCT
47138 CTCACTCTC-TCACCCATCT
1 CTCACTCTCATC-CCCATCT
47157 C
1 C
47158 CGACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.15, C:0.51, G:0.00, T:0.33
Consensus pattern (19 bp):
CTCACTCTCATCCCCATCT
Found at i:47178 original size:22 final size:22
Alignment explanation
Indices: 47150--47193 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47140 CACTCTCTCA
47150 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
47172 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
47194 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:47506 original size:20 final size:20
Alignment explanation
Indices: 47457--47515 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
47447 TTTATTCTCT
* **
47457 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
47477 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
47497 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
47516 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:48857 original size:18 final size:18
Alignment explanation
Indices: 48836--48883 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
48826 TCCACTTTGG
48836 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
48854 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
48872 GAGCCATCACCT
1 GAGCCATCACCT
48884 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:49441 original size:20 final size:20
Alignment explanation
Indices: 49416--49461 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
49406 TAGTTTACTT
49416 TCGCAACACAAAAATGACTA
1 TCGCAACACAAAAATGACTA
* ** *
49436 TCGCAACGCGGAAATGGCTA
1 TCGCAACACAAAAATGACTA
49456 TCGCAA
1 TCGCAA
49462 TGCGAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACACAAAAATGACTA
Found at i:49477 original size:19 final size:19
Alignment explanation
Indices: 49455--49551 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
49445 GGAAATGGCT
*
49455 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATCAAA
49474 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATCAAA
*
49488 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
49507 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATCAAA
* *
49521 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
49540 ATCGCAATGCGA
1 ATCGCAATGCGA
49552 TTTGTGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATCAAA
Found at i:49490 original size:14 final size:14
Alignment explanation
Indices: 49471--49529 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
49461 ATGCGAAATA
49471 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
49485 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
49504 AAAATCGCAACGAC
1 AAAATCGCAACGAC
49518 AAAATCGCAACG
1 AAAATCGCAACG
49530 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:49497 original size:33 final size:33
Alignment explanation
Indices: 49455--49546 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
49445 GGAAATGGCT
*
49455 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
49488 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
49521 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
49547 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:49582 original size:14 final size:14
Alignment explanation
Indices: 49563--49621 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
49553 TTGTGTTTCG
49563 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
49577 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
49594 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
49610 CGTTGCGATTTT
1 CGTTGCGATTTT
49622 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:49595 original size:33 final size:33
Alignment explanation
Indices: 49558--49637 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
49548 GCGATTTGTG
*
49558 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
49591 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
49624 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
49638 AGCCATTTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:49656 original size:20 final size:20
Alignment explanation
Indices: 49610--49696 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
49600 GCGATTTTGT
**
49610 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
* *
49629 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTCCG
49649 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
49669 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
49689 CGTTGCGA
1 CGTTGCGA
49697 AAGTAAGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 13 0.22
20 47 0.78
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:49707 original size:20 final size:19
Alignment explanation
Indices: 49623--49722 Score: 83
Period size: 20 Copynumber: 5.1 Consensus size: 19
49613 TGCGATTTTC
* * **
49623 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGAAAGTA
* *
49642 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGAAAGTA
*
49662 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCGTTGCGAAAGT-A
*
49683 TTTTCGCGTTGCGAAAGTA
1 ATTTCGCGTTGCGAAAGTA
*
49702 AGTTTCGTGTTGCGAAAGTA
1 A-TTTCGCGTTGCGAAAGTA
49722 A
1 A
49723 ACTATTCTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
19 5 0.07
20 63 0.89
21 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (19 bp):
ATTTCGCGTTGCGAAAGTA
Found at i:49714 original size:40 final size:40
Alignment explanation
Indices: 49623--49716 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
49613 TGCGATTTTC
* * *
49623 ATTT-CGCATTGCGATAGCCATTTCCGCGTTGCGATAGTC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
* *
49662 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
*
49702 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
49717 AAGTAAACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.09
40 40 0.85
41 3 0.06
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
Found at i:50097 original size:21 final size:20
Alignment explanation
Indices: 50071--50139 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
50061 CTGTCATCCC
50071 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* **
50092 TCAAGAGTCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
50113 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
50133 TCAAGAG
1 TCAAGAG
50140 GCCACTGTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 10 0.26
21 28 0.72
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.20
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:50151 original size:41 final size:42
Alignment explanation
Indices: 50061--50151 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
50051 CCCGACTCAC
* * *
50061 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGTCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
50103 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
50144 CTGTCATC
1 CTGTCATC
50152 GTTGAAGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.22, C:0.42, G:0.14, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:51594 original size:14 final size:14
Alignment explanation
Indices: 51560--51598 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
51550 TTTATTGTTT
51560 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
51574 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
51588 TGTTGATTTGT
1 AATTGATTTGT
51599 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:51759 original size:19 final size:19
Alignment explanation
Indices: 51735--51802 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
51725 ATCGCAACGA
51735 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
51754 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
51773 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
51787 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
51803 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:52091 original size:39 final size:40
Alignment explanation
Indices: 52045--52153 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 40
52035 ATTGCGATTT
* *
52045 TCAGAATCTCGTTGCGAAAGTCAGAATCTCATTGCGAAAG
1 TCAGAATCGCGTTGCGAAAGTCAGAATCGCATTGCGAAAG
* *
52085 -CAGAATCGCGTTGCGAAAGTCAAAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAGTCAGAATCGCATTGCGAAAG
* *
52124 TCAGTATCGCGTTGCGAAAGTCAGTATCGC
1 TCAGAATCGCGTTGCGAAAGTCAGAATCGC
52154 GGTGCGATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.57
40 26 0.43
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (40 bp):
TCAGAATCGCGTTGCGAAAGTCAGAATCGCATTGCGAAAG
Found at i:52148 original size:20 final size:20
Alignment explanation
Indices: 52045--52160 Score: 162
Period size: 20 Copynumber: 5.8 Consensus size: 20
52035 ATTGCGATTT
*
52045 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
* *
52065 TCAGAATCTCATTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
52085 -CAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
52104 TCAAAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
52124 TCAGTATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
* *
52144 TCAGTATCGCGGTGCGA
1 TCAGAATCGCGTTGCGA
52161 TTTTGTATTA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
19 17 0.19
20 71 0.81
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGAAAG
Found at i:52204 original size:41 final size:41
Alignment explanation
Indices: 52128--52205 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
52118 CGAAAGTCAG
*
52128 TATCGCGTTGCGAAAGTCAGTATCGCGGTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCAGTGCGATTTTGTAT
* * * *
52169 TATCTCGTTGCGATAGTCAGTATCGCATTGGGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCGCAGTGCGATTTT
52206 CTAAATTCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCGCAGTGCGATTTTGTAT
Found at i:52221 original size:41 final size:41
Alignment explanation
Indices: 52135--52223 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
52125 CAGTATCGCG
* * * * *
52135 TTGCGAAAGTCAGTATCGCGGTGCGATTTTGTATTATCTCG
1 TTGCGATAGTCAGTATCGCAGTGCGATTTTCTAATATCTCA
* *
52176 TTGCGATAGTCAGTATCGCATTGGGATTTTCTAA-ATTCTCA
1 TTGCGATAGTCAGTATCGCAGTGCGATTTTCTAATA-TCTCA
52217 TTGCGAT
1 TTGCGAT
52224 TTACTTATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCAGTGCGATTTTCTAATATCTCA
Found at i:52238 original size:20 final size:21
Alignment explanation
Indices: 52191--52240 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
52181 ATAGTCAGTA
* *
52191 TCGCATTGGGATTTTCTAAAT
1 TCGCATTGCGATTTACTAAAT
* *
52212 TCTCATTGCGATTTACT-TAT
1 TCGCATTGCGATTTACTAAAT
52232 TCGCATTGC
1 TCGCATTGC
52241 AAATTGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (21 bp):
TCGCATTGCGATTTACTAAAT
Found at i:53255 original size:12 final size:12
Alignment explanation
Indices: 53238--53274 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
53228 ATATAATCCT
53238 GAAGAAGAAAAA
1 GAAGAAGAAAAA
*
53250 GAAGAATAAAAA
1 GAAGAAGAAAAA
53262 GAAGAAGAAAAA
1 GAAGAAGAAAAA
53274 G
1 G
53275 TCCCCGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:55627 original size:19 final size:19
Alignment explanation
Indices: 55602--55699 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
55592 GGAAATTACT
55602 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
55621 ATTGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
55635 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
55654 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
55668 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
55687 ATCGCAACGCGAA
1 ATCGCAATGCGAA
55700 TTTAGTTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:55644 original size:33 final size:33
Alignment explanation
Indices: 55602--55695 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
55592 GGAAATTACT
* *
55602 ATCGCAATGCGAAATGAAAATTGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
55635 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
55668 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
55696 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:55730 original size:19 final size:19
Alignment explanation
Indices: 55695--55771 Score: 85
Period size: 19 Copynumber: 4.3 Consensus size: 19
55685 AAATCGCAAC
*
55695 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
55714 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
55733 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
55747 GCGATTTTTA-TTTCGCATT
1 GCGA-TTTTAGTTTCGCGTT
55766 GCGATT
1 GCGATT
55772 CTCTAGTTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
14 8 0.16
15 4 0.08
16 1 0.02
17 1 0.02
18 3 0.06
19 33 0.66
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:55752 original size:33 final size:33
Alignment explanation
Indices: 55710--55836 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
55700 TTTAGTTTCG
* * *
55710 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTATCT
* *
55743 CGTTGCGATTTTTATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
*
55776 AGTTGCGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
*
55809 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
55837 AGTAATTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
33 84 0.99
34 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTATCT
Found at i:55802 original size:19 final size:18
Alignment explanation
Indices: 55695--55836 Score: 83
Period size: 19 Copynumber: 8.3 Consensus size: 18
55685 AAATCGCAAC
* *
55695 GCGAATTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGCATT
*
55714 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGCATT
*
55733 GCGA-TTT-TGTCG--TT
1 GCGATTTTATTTCGCATT
55747 GCGATTTTTATTTCGCATT
1 GCGA-TTTTATTTCGCATT
* * *
55766 GCGA--TTCTCTAG--TT
1 GCGATTTTATTTCGCATT
55780 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGCATT
*
55799 GCGA--TTA--TCTCATT
1 GCGATTTTATTTCGCATT
55813 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGCATT
55832 GCGAT
1 GCGAT
55837 AGTAATTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 30
0.70 0.08 0.22
Matches are distributed among these distances:
14 22 0.23
16 17 0.18
17 10 0.10
18 3 0.03
19 45 0.46
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.46
Consensus pattern (18 bp):
GCGATTTTATTTCGCATT
Found at i:55962 original size:14 final size:15
Alignment explanation
Indices: 55943--55979 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
55933 CATCAATTAA
55943 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
55957 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
55971 ACAAATCAA
1 ACAAATCAA
55980 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:57396 original size:21 final size:21
Alignment explanation
Indices: 57330--57396 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
57320 GTGAATCGGG
*
57330 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
57350 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
57372 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
57393 CTCT
1 CTCT
57397 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:57415 original size:42 final size:41
Alignment explanation
Indices: 57330--57452 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
57320 GTGAATCGGG
* * * *
57330 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
57372 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
57414 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
57453 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:57846 original size:92 final size:90
Alignment explanation
Indices: 57670--57855 Score: 284
Period size: 92 Copynumber: 2.0 Consensus size: 90
57660 ATTTCAAACT
* *
57670 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
57735 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
57763 TTCAACCAAAAGAAAAAACAAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGC
1 TTCAACCAAAAGAAAAAAC---AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGC
*
57827 AGTATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
57855 T
1 T
57856 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
92 42 0.48
93 18 0.21
96 27 0.31
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:59635 original size:19 final size:19
Alignment explanation
Indices: 59557--59644 Score: 87
Period size: 20 Copynumber: 4.8 Consensus size: 19
59547 TGAAATAAAA
* **
59557 ATCGCAACGAGATAATGAAA
1 ATCGCAACGCGA-AATGACT
59577 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGACT
*
59597 ATCGCAA--CGAGA-GA--
1 ATCGCAACGCGAAATGACT
59611 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
59630 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
59645 AAAAATCGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.12
16 6 0.11
17 5 0.09
18 1 0.02
19 15 0.26
20 21 0.37
21 2 0.04
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:59652 original size:19 final size:19
Alignment explanation
Indices: 59548--59693 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
59538 TCTTTTGGTT
* *
59548 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
59567 GATAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
59587 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
59605 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
59621 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
59640 GAAATAAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
59657 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
59673 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
59692 GA
1 GA
59694 TTTTGGTTTC
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
14 18 0.18
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 41 0.41
20 27 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:59659 original size:52 final size:52
Alignment explanation
Indices: 59556--59693 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 52
59546 TTGAAATAAA
* * **
59556 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATAAAAATCGCAACGAGAG
**
59610 AATCGCAACGCGAAATGACTATCGCAACGCGAAATAAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAG
*
59662 AATCGCAACGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGA
59694 TTTTGGTTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
52 48 0.64
53 15 0.20
54 12 0.16
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAG
Found at i:59711 original size:19 final size:19
Alignment explanation
Indices: 59689--59733 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
59679 AAAATCGCAA
** *
59689 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTCATTTCGCGT
59708 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
59727 TGCGATT
1 TGCGATT
59734 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:59763 original size:34 final size:33
Alignment explanation
Indices: 59702--59767 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
59692 GATTTTGGTT
*
59702 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 TCTCGTTGCGATGTTCATTTCGCGTTGCGATTC
*
59735 TCTCGTTGCGATAGTT-ATTTTCGTGTTGCGATT
1 TCTCGTTGCGAT-GTTCA-TTTCGCGTTGCGATT
59768 TTCATTCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TCTCGTTGCGATGTTCATTTCGCGTTGCGATTC
Found at i:60252 original size:21 final size:20
Alignment explanation
Indices: 60188--60422 Score: 147
Period size: 20 Copynumber: 11.6 Consensus size: 20
60178 GCTATGTAAA
* *
60188 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
60208 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
60228 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
60249 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * * *
60269 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGATTTACG-TAT
** * *
60290 TCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGT-AT
* * * *
60310 TCGCAATGCGAATTAGGAAAAT
1 TCGCATTGCGATTTACG--TAT
*
60332 T-GCATTGCGATAGT-CAGTA-
1 TCGCATTGCGAT-TTAC-GTAT
* **
60351 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
* *
60372 TCGTATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
*
60392 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
60412 TCGCATTGCGA
1 TCGCATTGCGA
60423 ATTGGGAAAA
Statistics
Matches: 169, Mismatches: 33, Indels: 26
0.74 0.14 0.11
Matches are distributed among these distances:
19 4 0.02
20 110 0.65
21 51 0.30
22 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:60258 original size:41 final size:41
Alignment explanation
Indices: 60206--60422 Score: 176
Period size: 41 Copynumber: 5.3 Consensus size: 41
60196 CGATAGTAAG
*
60206 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
* *
60247 ATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAT-GAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCG-ATTTTCCAA
* ** * * * ****
60288 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAA
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGCG-ATTTTCCAA
*
60330 ATT-GCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGAT-TTAC-GTATTCGCATTGCGATTTTCCAA
* * * **
60370 ATTCGTATTGCGATTTACTTATTCGCATTGCGA-TTTACTT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
60410 ATTCGCATTGCGA
1 ATTCGCATTGCGA
60423 ATTGGGAAAA
Statistics
Matches: 140, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
40 32 0.23
41 95 0.68
42 10 0.07
43 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
Found at i:60415 original size:143 final size:143
Alignment explanation
Indices: 60185--60444 Score: 389
Period size: 143 Copynumber: 1.8 Consensus size: 143
60175 GGCGCTATGT
** *
60185 AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATT
1 AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACAAATTCGCATTGCGATTTTACTAATT
*
60250 CGCATTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCGCAACGCGAATACGTAAATCGCA
66 CGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAATCGCA
60315 ATGCGAATTAGGA
131 ATGCGAATTAGGA
* * * * *
60328 AAATTGCATTGCGATAGTCAG-TATCGCATTGCGATTTTCCAAATTCGTATTGCGA-TTTACTTA
1 AAATCGCATTGCGATAGTAAGAT-TCGCATTGCGA-TTTACAAATTCGCATTGCGATTTTACTAA
* *
60391 TTCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAAAATCGCAACGCGAA
64 TTCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAA
60445 ATTGGAAAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
142 1 0.01
143 87 0.84
144 16 0.15
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (143 bp):
AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACAAATTCGCATTGCGATTTTACTAATT
CGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAATCGCA
ATGCGAATTAGGA
Found at i:60434 original size:123 final size:122
Alignment explanation
Indices: 60228--60484 Score: 322
Period size: 123 Copynumber: 2.1 Consensus size: 122
60218 ATTTACGTAT
*
60228 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCG
1 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAT-AAAATCG
* * *
60293 CAACGCGAATACGTAAATCGCAATGCG-AATTAGGAAAATTGCATTGCGATAGTCAGT-A
65 CAACGCGAATACGAAAATCGCAACGCGAAATT-GGAAAATCGCATTGCGATAGTCA-TAA
* * * * *
60351 TCGCATTGCGATTTTCCAAATTCGTATTGCGATTTACTTATTCGCATTGCGATTTACT-TATTCG
1 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTA-TAAAATCG
** **
60415 CATTGCGAATTGGGAAAATCGCAACGCGAAATTGGAAAATCGCATTGCGATAGTCATAA
65 CAACGCGAA-TACGAAAATCGCAACGCGAAATTGGAAAATCGCATTGCGATAGTCATAA
*
60474 TCGCGTTGCGA
1 TCGCATTGCGA
60485 ATCTGGAAAC
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
122 12 0.10
123 99 0.85
124 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (122 bp):
TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTATAAAATCGC
AACGCGAATACGAAAATCGCAACGCGAAATTGGAAAATCGCATTGCGATAGTCATAA
Found at i:60464 original size:21 final size:22
Alignment explanation
Indices: 60412--60464 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
60402 ATTTACTTAT
60412 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
60433 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
60454 TCGCATTGCGA
1 TCGCATTGCGA
60465 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:61324 original size:11 final size:11
Alignment explanation
Indices: 61308--61339 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
61298 TCCTGCAAAG
61308 GAGACCATGTT
1 GAGACCATGTT
61319 GAGACCATGTT
1 GAGACCATGTT
61330 GAGACCATGT
1 GAGACCATGT
61340 CGAGTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (11 bp):
GAGACCATGTT
Found at i:63792 original size:36 final size:36
Alignment explanation
Indices: 63745--63820 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
63735 GCCGGTTCCA
* * * *
63745 ACCCGACCCGACCCGTTTACCCAATCCGACCTGTTT
1 ACCCGACCCGACCCATTGACCCAACCCGACCTGTTG
*
63781 ACCCGACCCGACCCATTGACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCATTGACCCAACCCGACCTGTTG
63817 ACCC
1 ACCC
63821 TATGACCGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.17
Consensus pattern (36 bp):
ACCCGACCCGACCCATTGACCCAACCCGACCTGTTG
Found at i:63817 original size:18 final size:18
Alignment explanation
Indices: 63745--63820 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 18
63735 GCCGGTTCCA
*
63745 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
* * * *
63763 ACCCAATCCGACCTGTTT
1 ACCCGACCCGACCCGTTG
*
63781 ACCCGACCCGACCCATTG
1 ACCCGACCCGACCCGTTG
*
63799 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
63817 ACCC
1 ACCC
63821 TATGACCGGC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.17
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:66643 original size:31 final size:32
Alignment explanation
Indices: 66596--66676 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
66586 TATGACTCTT
* * *
66596 AGGTAGGCTCTGCGGCCCTGAGAT-CATTCTC
1 AGGTAGGCCCTACGGCCCTAAGATGCATTCTC
* ** *
66627 GGGTAGGCCCTACGGCCCTAAGATGTGTTCTT
1 AGGTAGGCCCTACGGCCCTAAGATGCATTCTC
66659 AGGTAGGCCCTACGGCCC
1 AGGTAGGCCCTACGGCCC
66677 CGAAATCTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 20 0.49
32 21 0.51
ACGTcount: A:0.16, C:0.30, G:0.31, T:0.23
Consensus pattern (32 bp):
AGGTAGGCCCTACGGCCCTAAGATGCATTCTC
Found at i:66665 original size:63 final size:63
Alignment explanation
Indices: 66592--66715 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
66582 CTAATATGAC
* * * *
66592 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCT-ACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCCGAAATCTA-TCTCGGGTAGGCCCTCA-GGCCCTAAGATGTGT
* *
66655 TCTTAGGTAGGCCCTACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCTACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
66716 TCCCTTAGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 51 0.96
64 2 0.04
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCTACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:66666 original size:32 final size:31
Alignment explanation
Indices: 66592--66676 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
66582 CTAATATGAC
* * *
66592 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
** **
66623 TCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-CAT
66655 TCTTAGGTAGGCCCTACGGCCC
1 TCTTAGGTAGGCCCTACGGCCC
66677 CGAAATCTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 23 0.52
32 21 0.48
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:67489 original size:20 final size:20
Alignment explanation
Indices: 67407--67588 Score: 66
Period size: 20 Copynumber: 8.9 Consensus size: 20
67397 CATAACCAAT
*
67407 GAATTCGTAACTCGAATTTG
1 GAATTCGCAACTCGAATTTG
* * *
67427 G-ATTCCCAACTCGAA-ATC
1 GAATTCGCAACTCGAATTTG
* * * *
67445 CAATTTCGCAACAC-AGTTTCC
1 GAA-TTCGCAACTCGAATTT-G
67466 GAATTCGCAACTCGAATTTG
1 GAATTCGCAACTCGAATTTG
* * ** *
67486 GAATTCGTAACAC-ATAAGTA
1 GAATTCGCAACTCGA-ATTTG
* **
67506 GAATTCGCAACTTGAACATG
1 GAATTCGCAACTCGAATTTG
* *
67526 GAAATTTTCGCAACACGAATTTC
1 G-AA--TTCGCAACTCGAATTTG
** *
67549 GTTTTCGCAACTCGAATTCG
1 GAATTCGCAACTCGAATTTG
*
67569 CAAATTTCGCAACTCGAATT
1 -GAA-TTCGCAACTCGAATT
67589 CGCCAATTTT
Statistics
Matches: 113, Mismatches: 37, Indels: 22
0.66 0.22 0.13
Matches are distributed among these distances:
18 1 0.01
19 15 0.13
20 59 0.52
21 10 0.09
22 15 0.13
23 13 0.12
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (20 bp):
GAATTCGCAACTCGAATTTG
Found at i:67605 original size:22 final size:22
Alignment explanation
Indices: 67551--67597 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
67541 CGAATTTCGT
67551 TTTCGCAACTCGAATTCGCAAA
1 TTTCGCAACTCGAATTCGCAAA
*
67573 TTTCGCAACTCGAATTCGCCAA
1 TTTCGCAACTCGAATTCGCAAA
67595 TTT
1 TTT
67598 TGTAACTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (22 bp):
TTTCGCAACTCGAATTCGCAAA
Found at i:67721 original size:97 final size:97
Alignment explanation
Indices: 67582--67783 Score: 289
Period size: 97 Copynumber: 2.1 Consensus size: 97
67572 ATTTCGCAAC
* * * * *
67582 TCGAATTCGCCAATTTTGTAACTCAATTACCGATATAGGTAAACATGGTAAAAAAATCTGGTAAA
1 TCGAATTTGCCAATTTTGCAACTCAATTACCGATATAGGTAAACACGATAAAAAAATCTGATAAA
* *
67647 AAACCCGAATTCGCCAATTTGAAAACTGAG-T
66 AAACCCGAATTCGCCAAATTGAAAACTAAGTT
* *
67678 TCGAATTTGACCAATTTTGCAACTCAATTACCGATATAGGTAAACACGATAGAAAAATCTGATAT
1 TCGAATTTG-CCAATTTTGCAACTCAATTACCGATATAGGTAAACACGATAAAAAAATCTGATAA
**
67743 AAAATTCGAATTCGCCAAATTGAAAACTAAGTT
65 AAAACCCGAATTCGCCAAATTGAAAACTAAGTT
67776 TCGAATTT
1 TCGAATTT
67784 CGCAAATTCG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 8 0.09
97 76 0.82
98 9 0.10
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (97 bp):
TCGAATTTGCCAATTTTGCAACTCAATTACCGATATAGGTAAACACGATAAAAAAATCTGATAAA
AAACCCGAATTCGCCAAATTGAAAACTAAGTT
Found at i:68064 original size:11 final size:12
Alignment explanation
Indices: 68041--68065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68031 AATTGGCGAA
68041 TTCGAATTTTTT
1 TTCGAATTTTTT
68053 TTCGAATTTTTT
1 TTCGAATTTTTT
68065 T
1 T
68066 ACCATGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTCGAATTTTTT
Found at i:69113 original size:25 final size:25
Alignment explanation
Indices: 69084--69132 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
69074 GTTACGAATT
69084 CATTGACTTGTTTTAATGAATTTTG
1 CATTGACTTGTTTTAATGAATTTTG
* *
69109 CATTGACTTGTTTTAGTTAATTTT
1 CATTGACTTGTTTTAATGAATTTT
69133 TACATAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.55
Consensus pattern (25 bp):
CATTGACTTGTTTTAATGAATTTTG
Found at i:74085 original size:18 final size:18
Alignment explanation
Indices: 74064--74110 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
74054 TTCTTCTATT
*
74064 TTATTTATTTTCTC-ATTA
1 TTATTTATTTT-TCAATAA
74082 TTATTT-TTTATTCAATAA
1 TTATTTATTT-TTCAATAA
74100 TTATTTATTTT
1 TTATTTATTTT
74111 ATTCATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 17 0.68
19 3 0.12
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTATTTTTCAATAA
Found at i:74200 original size:30 final size:33
Alignment explanation
Indices: 74139--74204 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
74129 ATTTTAAATC
74139 CCCTTTTTATTTTCTTACAGTTGATTCAATTCAAT
1 CCCTTTTTATTTTCTTACA--TGATTCAATTCAAT
*
74174 CCCTTTTTATTTTCTTGCA-G-TT-AATTCAAT
1 CCCTTTTTATTTTCTTACATGATTCAATTCAAT
74204 C
1 C
74205 TGAGGAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 9 0.30
31 2 0.07
32 1 0.03
35 18 0.60
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.52
Consensus pattern (33 bp):
CCCTTTTTATTTTCTTACATGATTCAATTCAAT
Found at i:76606 original size:13 final size:13
Alignment explanation
Indices: 76590--76622 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
76580 CATATCGACC
*
76590 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
76603 TTTCTTTCATTAT
1 TTTCTTTCATTAT
76616 TTTCTTT
1 TTTCTTT
76623 TCACAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:77437 original size:25 final size:25
Alignment explanation
Indices: 77378--77440 Score: 112
Period size: 24 Copynumber: 2.6 Consensus size: 25
77368 ACTTTATTTA
77378 TTTATTTG-AAAATTAAGAATTATT
1 TTTATTTGAAAAATTAAGAATTATT
77402 TTTATTT-AAAAATTAAGAATTATT
1 TTTATTTGAAAAATTAAGAATTATT
77426 TTTATTTGAAAAATT
1 TTTATTTGAAAAATT
77441 CGATGCTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
24 30 0.81
25 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (25 bp):
TTTATTTGAAAAATTAAGAATTATT
Found at i:77893 original size:14 final size:14
Alignment explanation
Indices: 77874--77903 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77864 CCAATCAATT
*
77874 AATGAATGCATTTG
1 AATGAATGCATCTG
77888 AATGAATGCATCTG
1 AATGAATGCATCTG
77902 AA
1 AA
77904 AAGGAAGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (14 bp):
AATGAATGCATCTG
Found at i:80117 original size:23 final size:23
Alignment explanation
Indices: 80091--80138 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
80081 CCGTGTTTGG
80091 TTCGTTTAATATTCGTGAACATA
1 TTCGTTTAATATTCGTGAACATA
*
80114 TTCGTTTAATATTCGTGAATATA
1 TTCGTTTAATATTCGTGAACATA
80137 TT
1 TT
80139 GTTATATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (23 bp):
TTCGTTTAATATTCGTGAACATA
Found at i:80125 original size:11 final size:11
Alignment explanation
Indices: 80091--80129 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
80081 CCGTGTTTGG
80091 TTCGTTTAATA
1 TTCGTTTAATA
**
80102 TTCGTGAACATA
1 TTCGTTTA-ATA
80114 TTCGTTTAATA
1 TTCGTTTAATA
80125 TTCGT
1 TTCGT
80130 GAATATATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (11 bp):
TTCGTTTAATA
Found at i:80416 original size:103 final size:103
Alignment explanation
Indices: 80237--80443 Score: 405
Period size: 103 Copynumber: 2.0 Consensus size: 103
80227 CTAGTCCTTA
80237 ATTTTTATTGTCTTCACAGCTTGAACTTCAAAGTTCATCTTATGTTCAATTTAGTATGTACTTTC
1 ATTTTTATTGTCTTCACAGCTTGAACTTCAAAGTTCATCTTATGTTCAATTTAGTATGTACTTTC
*
80302 ACTTATATTTAAAAGAGGAGAGAGAGAGAGAGATAGAG
66 ACTTATATTTAAAAGAGGAGAGAGAGAGAGAGAGAGAG
80340 ATTTTTATTGTCTTCACAGCTTGAACTTCAAAGTTCATCTTATGTTCAATTTAGTATGTACTTTC
1 ATTTTTATTGTCTTCACAGCTTGAACTTCAAAGTTCATCTTATGTTCAATTTAGTATGTACTTTC
80405 ACTTATATTTAAAAGAGGAGAGAGAGAGAGAGAGAGAG
66 ACTTATATTTAAAAGAGGAGAGAGAGAGAGAGAGAGAG
80443 A
1 A
80444 AAGAATCGGG
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (103 bp):
ATTTTTATTGTCTTCACAGCTTGAACTTCAAAGTTCATCTTATGTTCAATTTAGTATGTACTTTC
ACTTATATTTAAAAGAGGAGAGAGAGAGAGAGAGAGAG
Found at i:81315 original size:15 final size:16
Alignment explanation
Indices: 81295--81333 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
81285 CTGCACCAAG
*
81295 AAAATAAAC-AAAGCC
1 AAAATAAACTAAAGCA
*
81310 AAAATAAACTAAAGTA
1 AAAATAAACTAAAGCA
81326 AAAATAAA
1 AAAATAAA
81334 ATTGAAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAATAAACTAAAGCA
Found at i:84441 original size:40 final size:40
Alignment explanation
Indices: 84383--84504 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
84373 TGCAGGTTTA
*
84383 TAATACACTTCGGTGTATATGGTGGACACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
84423 TAATACACTTCGGAGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
84463 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
84503 TA
1 TA
84505 GCACTACGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:84703 original size:47 final size:45
Alignment explanation
Indices: 84609--84734 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
84599 GTAACCATGC
* * *
84609 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
* * *
84653 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAGGAA
*
84700 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
84735 AGATTTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.31
45 11 0.15
46 1 0.01
47 38 0.53
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
Found at i:86260 original size:13 final size:13
Alignment explanation
Indices: 86244--86273 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
86234 AGAAGAAAAA
86244 AAAATAGAAAATG
1 AAAATAGAAAATG
86257 AAAATAGAAAATG
1 AAAATAGAAAATG
86270 AAAA
1 AAAA
86274 CGAAAACGAA
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:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATAGAAAATG
Found at i:86266 original size:7 final size:6
Alignment explanation
Indices: 86244--86347 Score: 55
Period size: 6 Copynumber: 17.7 Consensus size: 6
86234 AGAAGAAAAA
* * *
86244 AAAATAG AAAATG AAAATAG AAAATG AAAACG AAAACG AAAACG AAGAA-G
1 AAAAT-G AAAATG AAAAT-G AAAATG AAAATG AAAATG AAAATG AA-AATG
86294 -AAA-- AAAATG AAAATG AGAAA-G AAAA-G -AAATAG AGAAA-- AAAATG
1 AAAATG AAAATG AAAATG A-AAATG AAAATG AAAAT-G A-AAATG AAAATG
86337 AGAAATG AAAA
1 A-AAATG AAAA
86348 AAAAAATATT
Statistics
Matches: 83, Mismatches: 1, Indels: 27
0.75 0.01 0.24
Matches are distributed among these distances:
4 11 0.13
5 6 0.07
6 41 0.49
7 22 0.27
8 3 0.04
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.09
Consensus pattern (6 bp):
AAAATG
Found at i:86305 original size:21 final size:21
Alignment explanation
Indices: 86276--86323 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
86266 AATGAAAACG
*
86276 AAAACGAAAACGA-AGAAGAAA
1 AAAATGAAAACGAGA-AAGAAA
*
86297 AAAATGAAAATGAGAAAGAAA
1 AAAATGAAAACGAGAAAGAAA
86318 AGAAAT
1 A-AAAT
86324 AGAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (21 bp):
AAAATGAAAACGAGAAAGAAA
Found at i:86306 original size:33 final size:33
Alignment explanation
Indices: 86264--86352 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 33
86254 ATGAAAATAG
*
86264 AAAATGAAAACGAAAACGAAAACG-AAGA-AGAAA
1 AAAATGAAAATGAAAA-GAAAA-GAAAGAGAGAAA
*
86297 AAAATGAAAATGAGAAAGAAAAGAAATAGAGAAA
1 AAAATGAAAATGA-AAAGAAAAGAAAGAGAGAAA
*
86331 AAAATGAGAAATGAAAAAAAAA
1 AAAATGA-AAATGAAAAGAAAA
86353 ATATTTCACT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
32 1 0.02
33 20 0.41
34 22 0.45
35 6 0.12
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (33 bp):
AAAATGAAAATGAAAAGAAAAGAAAGAGAGAAA
Found at i:90175 original size:40 final size:40
Alignment explanation
Indices: 90120--90241 Score: 244
Period size: 40 Copynumber: 3.0 Consensus size: 40
90110 TGCAGGTTTA
90120 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
90160 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
90200 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
90240 TA
1 TA
90242 GCACTACGGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:90440 original size:47 final size:45
Alignment explanation
Indices: 90346--90471 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
90336 GTAACCATGC
* * *
90346 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
* * *
90390 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAGGAA
* *
90437 AAATAAGTTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
90472 AGATTTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 22 0.31
45 11 0.15
46 1 0.01
47 37 0.52
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
Found at i:99805 original size:35 final size:37
Alignment explanation
Indices: 99741--99815 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 37
99731 TTTCGTCCTA
99741 CTAGGATTCAAACTCACAAAAATAAGATAGAATTCTG
1 CTAGGATTCAAACTCACAAAAATAAGATAGAATTCTG
** * *
99778 CTAGGATTC-AACTC-TTAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACTCACAAAAATAAGATAGAATTCTG
99813 CTA
1 CTA
99816 TGTTTTAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 20 0.59
36 5 0.15
37 9 0.26
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (37 bp):
CTAGGATTCAAACTCACAAAAATAAGATAGAATTCTG
Found at i:100305 original size:11 final size:11
Alignment explanation
Indices: 100285--100368 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
100275 TTAATTATTT
*
100285 TTATTCTAATA
1 TTATTTTAATA
*
100296 TTATTTTAATG
1 TTATTTTAATA
100307 TT-TTTTAA-A
1 TTATTTTAATA
*
100316 GTTATTATATATA
1 -TTATTTTA-ATA
100329 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
100343 TTATATTTATTA
1 TTAT-TTTAATA
*
100355 TTATTTTACTA
1 TTATTTTAATA
100366 TTA
1 TTA
100369 ACGTATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 11 0.19
14 7 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:100359 original size:15 final size:15
Alignment explanation
Indices: 100317--100359 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
100307 TTTTTTAAAG
100317 TTATTATATATATATAT
1 TTATTAT-TAT-TATAT
* *
100334 TTATAACTATTATAT
1 TTATTATTATTATAT
100349 TTATTATTATT
1 TTATTATTATT
100360 TTACTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:100557 original size:16 final size:16
Alignment explanation
Indices: 100536--100569 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
100526 CATGTATTTA
100536 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
100552 TATTATTTTACTTTAT
1 TATTATATTACATTAT
100568 TA
1 TA
100570 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:100574 original size:21 final size:22
Alignment explanation
Indices: 100550--100599 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
100540 ATATTACATT
*
100550 ATTATTATTTTACTTTATTA-A
1 ATTATTATTTTACGTTATTATA
*
100571 ATTATT-TTTTTCGTTATTATA
1 ATTATTATTTTACGTTATTATA
*
100592 TTTATTAT
1 ATTATTAT
100600 ATATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.46
21 12 0.50
22 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTATTTTACGTTATTATA
Found at i:100598 original size:9 final size:9
Alignment explanation
Indices: 100585--100618 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
100575 TTTTTTTCGT
*
100585 TATTATATT
1 TATTATATA
100594 TATTATATA
1 TATTATATA
100603 TA-TATATA
1 TATTATATA
100611 TATTATAT
1 TATTATAT
100619 CATAATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATATA
Found at i:103982 original size:19 final size:20
Alignment explanation
Indices: 103940--103983 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
103930 AAAAGAAGCA
*
103940 AAAAAGGAAAAAACAAGAAC
1 AAAAAGGAAAAAACAAAAAC
* *
103960 AAAAA-GAAAGAACAAAAAT
1 AAAAAGGAAAAAACAAAAAC
103979 AAAAA
1 AAAAA
103984 AGGGAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (20 bp):
AAAAAGGAAAAAACAAAAAC
Found at i:105532 original size:36 final size:36
Alignment explanation
Indices: 105485--105588 Score: 172
Period size: 36 Copynumber: 2.9 Consensus size: 36
105475 GTGCTCACCA
105485 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
*
105521 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* * *
105557 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
105589 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:105679 original size:37 final size:37
Alignment explanation
Indices: 105620--105690 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
105610 TTGAAATGAG
* *
105620 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
* *
105657 TTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
105691 TAAACATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
Found at i:105705 original size:102 final size:102
Alignment explanation
Indices: 105503--105893 Score: 660
Period size: 102 Copynumber: 3.9 Consensus size: 102
105493 CTTGAGACAG
** * * *
105503 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
105567 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
105604 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
105669 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
105706 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
105771 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * * *
105808 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAA-TAAATTTTGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
105872 TGAGACAGTTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
105894 CAAAACCTTT
Statistics
Matches: 276, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
101 80 0.29
102 196 0.71
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:105773 original size:37 final size:37
Alignment explanation
Indices: 105706--105792 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
105696 ATTGGAAACA
** * *
105706 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
105742 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
105779 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
105793 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:105852 original size:204 final size:202
Alignment explanation
Indices: 105503--105960 Score: 682
Period size: 204 Copynumber: 2.2 Consensus size: 202
105493 CTTGAGACAG
*
105503 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTTTCTCCCTT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTT
* *
105568 GAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTCTCTCTT
66 GAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTT
* * *
105633 GAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
131 GAGATAATTTCCCTTGAAA-AAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACAT
105698 TGGAAACA
195 TGGAAACA
** * *
105706 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCCCT
105771 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
65 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* * *
105836 TGAGATAATTTCCCTTGAAATAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACACAAAACC
130 TGAGATAATTTCCCTTGAAAAAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACA-TAAACA
* ***
105901 TTTGAGATTG
194 TTGGA-AACA
* * * * *
105911 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
105961 CAAAATCTTT
Statistics
Matches: 228, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
203 80 0.35
204 105 0.46
205 43 0.19
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (202 bp):
TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTT
GAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTT
GAGATAATTTCCCTTGAAAAAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATT
GGAAACA
Found at i:105854 original size:36 final size:36
Alignment explanation
Indices: 105807--105891 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
105797 CATTGAAAAC
* *
105807 ATTTCCCTTGAAATGAATTTCGTCTCTC-TTGAGATA
1 ATTTCCCTTGAAATAAATTTCGTCTC-CATTGAGACA
*
105843 ATTTCCCTTGAAATAAATTTTGTCTCCATTGAGACA
1 ATTTCCCTTGAAATAAATTTCGTCTCCATTGAGACA
* *
105879 GTTTCTCTTGAAA
1 ATTTCCCTTGAAA
105892 CACAAAACCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
ATTTCCCTTGAAATAAATTTCGTCTCCATTGAGACA
Found at i:105984 original size:67 final size:67
Alignment explanation
Indices: 105835--105993 Score: 216
Period size: 67 Copynumber: 2.4 Consensus size: 67
105825 TTCGTCTCTC
** *
105835 TTGAGATAATTTCCCTTGAAATAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACACAAAAC
105900 CT
66 CT
*
105902 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCA-TGAGACAGTTTCTCTTGAAACACAAAA
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCT-CCATTGAGACAGTTTCTCTTGAAACACAAAA
*
105966 TCT
65 CCT
*
105969 TTGA-ATT-TATCTCCCTTAAAACAAA
1 TTGAGATTGT-T-TCCCTTGAAACAAA
105994 ATTTCATTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 74 0.90
68 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACACAAAAC
CT
Found at i:107036 original size:106 final size:107
Alignment explanation
Indices: 106568--107197 Score: 610
Period size: 109 Copynumber: 5.9 Consensus size: 107
106558 TAGCTAGAGT
* * * *
106568 CAAGTTCAACTTCACAACGAAGGGACGTCTGGTTGCCAACAACAATTTCCCAATTTCGGAACCGA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
* *
106633 TTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 TTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * *
106676 CAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACGAACAACTTCCCAATTCCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
* * *
106741 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGAAAACA
65 ATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * **
106785 CAAGTCCAACTTCACAACGAAGGGACGGCTGGTTGTCAATGAACAACTTT-TCAGTTTCA-TCCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACAA-TTTCCCAATTTCAGAAC-
* *
106848 CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACA
63 CAATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * * *
106894 CAAGTTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
*
106959 ATTTCAACTTCGCA-G-CGAAGGATAT-TG-GACTCGAGACAACA
65 ATTTCAAC-TC-CACGACGGAGGATATCTGCGACTCGAGACAACA
* * * **
107000 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAA-GATTT--C--GTTCAGAGTCAA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
* * * * *
107060 TTTCATCTTCAC-AGCGAAGGATAT-T-AGACTCGAGACAGCA
66 TTTCAACTCCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * ** * *
107100 CAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
*
107165 ATTTCAACTTCAC-AGCGGAGGATAT-TG-GACTCG
65 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCG
107198 GAACAATATT
Statistics
Matches: 448, Mismatches: 54, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
98 2 0.00
99 1 0.00
100 76 0.17
101 2 0.00
102 4 0.01
104 4 0.01
105 2 0.00
106 87 0.19
107 2 0.00
108 41 0.09
109 219 0.49
110 6 0.01
111 2 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (107 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
TTTCAACTCCACGACGGAGGATATCTGCGACTCGAGACAACA
Found at i:107754 original size:37 final size:36
Alignment explanation
Indices: 107656--107756 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
107646 TTTCGTCCTA
107656 CTAGGATTCAAACT-CTCAAAAATAGGATAGAATTCTG
1 CTAGGATT-AAACTCCT-AAAAATAGGATAGAATTCTG
* *
107693 CTAGGATTCAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
** *
107729 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTAAACTCCTAAAAATAGGAT
107757 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 26 0.46
37 30 0.54
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (36 bp):
CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
Found at i:108231 original size:2 final size:2
Alignment explanation
Indices: 108226--108310 Score: 138
Period size: 2 Copynumber: 43.0 Consensus size: 2
108216 TAAAGTTATC
108226 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
*
108268 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT TT AT A- ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
108309 AT
1 AT
108311 TTATTATTAT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
1 2 0.03
2 75 0.96
3 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:108366 original size:50 final size:51
Alignment explanation
Indices: 108312--108420 Score: 195
Period size: 50 Copynumber: 2.2 Consensus size: 51
108302 ACTATATATT
108312 TATTATTATTTTACTATTAACGTATATAAATAT-ATTTTCTCTTTTGCTAC
1 TATTATTATTTTACTATTAACGTATATAAATATGATTTTCTCTTTTGCTAC
*
108362 TATTATTA-TTTACTATTAACGTATATAAATATGTTTTTCTCTTTTGCTAC
1 TATTATTATTTTACTATTAACGTATATAAATATGATTTTCTCTTTTGCTAC
108412 TATTATTAT
1 TATTATTAT
108421 CATTATATGT
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 24 0.43
50 32 0.57
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (51 bp):
TATTATTATTTTACTATTAACGTATATAAATATGATTTTCTCTTTTGCTAC
Found at i:108568 original size:15 final size:16
Alignment explanation
Indices: 108543--108575 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
108533 CATGTATTTA
108543 TATTATATTACATTAT
1 TATTATATTACATTAT
*
108559 TATTAT-TTACTTTAT
1 TATTATATTACATTAT
108574 TA
1 TA
108576 AATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:111354 original size:36 final size:35
Alignment explanation
Indices: 111307--111377 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 35
111297 TTAGTTTTAC
111307 ACAAATTTAAGATCGTTGGATGAGAGAAAATAGATG
1 ACAAATTTAAGATCGTTGGATGAGAG-AAATAGATG
111343 ACAAATTTAAGATCGTTGGATGAGAGAAATAGATG
1 ACAAATTTAAGATCGTTGGATGAGAGAAATAGATG
111378 GTTTAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 9 0.26
36 26 0.74
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (35 bp):
ACAAATTTAAGATCGTTGGATGAGAGAAATAGATG
Done.