Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 146 of 161
Found at i:45565666 original size:21 final size:22
Alignment explanation
Indices: 45565637--45565683 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
45565627 CAGAAGGAGT
*
45565637 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45565659 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45565680 GAGT
1 GAGT
45565684 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:45568876 original size:21 final size:22
Alignment explanation
Indices: 45568847--45568893 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
45568837 CAGAAGGAGT
*
45568847 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45568869 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45568890 GAGT
1 GAGT
45568894 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:45572086 original size:21 final size:22
Alignment explanation
Indices: 45572057--45572103 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
45572047 CAGAAGGAGT
*
45572057 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45572079 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45572100 GAGT
1 GAGT
45572104 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:45574550 original size:42 final size:42
Alignment explanation
Indices: 45574490--45574646 Score: 210
Period size: 42 Copynumber: 3.7 Consensus size: 42
45574480 TAGACACCGC
*
45574490 CGCTAAAGGCCATGACCTTTAGCAACGCTTTTATCACAAACG
1 CGCTAAAGACCATGACCTTTAGCAACGCTTTTATCACAAACG
*** *
45574532 TCGCTAAA-ACCATGACCTTTAGCGGTGCTTTTATCACAAACAC
1 -CGCTAAAGACCATGACCTTTAGCAACGCTTTTATCACAAAC-G
*
45574575 CGCTAAAGACCATGACCTTTAGCAACGCTTTTGTCACAAA-G
1 CGCTAAAGACCATGACCTTTAGCAACGCTTTTATCACAAACG
*
45574616 CTGCTAAAGACCATGACCTTTAGCGACGCTT
1 C-GCTAAAGACCATGACCTTTAGCAACGCTT
45574647 CTCGCAAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 64 0.64
43 35 0.35
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CGCTAAAGACCATGACCTTTAGCAACGCTTTTATCACAAACG
Found at i:45574851 original size:63 final size:63
Alignment explanation
Indices: 45574780--45575030 Score: 493
Period size: 63 Copynumber: 4.0 Consensus size: 63
45574770 AGGATAGATA
45574780 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
1 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
45574843 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
1 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
45574906 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
1 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
*
45574969 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAGCAAATAAAAGAAGC
1 CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGC
45575031 GTAAATAATA
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 187 1.00
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.28
Consensus pattern (63 bp):
CAAAAATATTATTTAAATTAAATTTTCTATGAAAATGATAAAAGAAAACAAATAAAAGAAGCT
Found at i:45579483 original size:18 final size:18
Alignment explanation
Indices: 45579462--45579496 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45579452 AATATTTATT
* *
45579462 ATTTTTTTTATAAATTAA
1 ATTTTTATTAGAAATTAA
45579480 ATTTTTATTAGAAATTA
1 ATTTTTATTAGAAATTA
45579497 TTTGTAGAAA
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTTATTAGAAATTAA
Found at i:45579775 original size:71 final size:71
Alignment explanation
Indices: 45579617--45579764 Score: 278
Period size: 71 Copynumber: 2.1 Consensus size: 71
45579607 CTAATTTCTA
*
45579617 TTTTATTAGAGATATTTCTTCCTAACTAAGATATAACTATTTTGCTAGATGCTCAATGTGAACTG
1 TTTT-TTAGAGATATTTCTTCCTAACTAAGATATAACTATTTTGCTAGATGCTCAATGTGAAATG
45579682 ATTTTAG
65 ATTTTAG
45579689 TTTTTTAGAGATATTTCTTCCTAACTAAGATATAACTATTTTGCTAGATGCTCAATGTGAAATGA
1 TTTTTTAGAGATATTTCTTCCTAACTAAGATATAACTATTTTGCTAGATGCTCAATGTGAAATGA
45579754 TTTTAG
66 TTTTAG
45579760 TTTTT
1 TTTTT
45579765 GTATTTTATT
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 71 0.95
72 4 0.05
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (71 bp):
TTTTTTAGAGATATTTCTTCCTAACTAAGATATAACTATTTTGCTAGATGCTCAATGTGAAATGA
TTTTAG
Found at i:45580093 original size:7 final size:7
Alignment explanation
Indices: 45580077--45580125 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
45580067 TATTAATCTA
*
45580077 AACCCTT
1 AACCCCT
45580084 AACCCCT
1 AACCCCT
45580091 AACCCCT
1 AACCCCT
*
45580098 AACCTCT
1 AACCCCT
* *
45580105 AATCGCT
1 AACCCCT
45580112 AACCCCT
1 AACCCCT
45580119 AACCCCT
1 AACCCCT
45580126 CTTTTACAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.29, C:0.49, G:0.02, T:0.20
Consensus pattern (7 bp):
AACCCCT
Found at i:45580405 original size:81 final size:82
Alignment explanation
Indices: 45580239--45580413 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 82
45580229 ACTAACTCTT
*
45580239 AACCTCTAACCCCTAATCCCTAACCCCAAACCACTAAACCTTATTTAATACATAAATTAAAAAAC
1 AACC-CTAA-CCCGAATCCCTAACCCCAAACCACTAAACCTTATTTAATA-ATAAATTAAAAAAC
45580304 ACTAATTAATCTAAACCCT-
63 ACTAATTAATCTAAACCCTA
* * *
45580323 AACTCCTAACCCGAATCCCTAACCCCTAACC-CATAAACCTTATTTAAT-ATAAGTTAAAACACA
1 AAC-CCTAACCCGAATCCCTAACCCCAAACCAC-TAAACCTTATTTAATAATAAATTAAAAAACA
45580386 CTAATTAATCTAAACCCTA
64 CTAATTAATCTAAACCCTA
45580405 AACCCTAAC
1 AACCCTAAC
45580414 ATGACACCGA
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
81 37 0.44
82 4 0.05
83 35 0.42
84 7 0.08
85 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (82 bp):
AACCCTAACCCGAATCCCTAACCCCAAACCACTAAACCTTATTTAATAATAAATTAAAAAACACT
AATTAATCTAAACCCTA
Found at i:45580455 original size:14 final size:14
Alignment explanation
Indices: 45580438--45580480 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
45580428 ATAAACTTTA
* *
45580438 AATCCCTAACTCTT
1 AATCCCTAACCCCT
*
45580452 AATCTCTAACCCCT
1 AATCCCTAACCCCT
45580466 AA-CCCTAACCCCT
1 AATCCCTAACCCCT
45580479 AA
1 AA
45580481 ATCACAACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.26
Consensus pattern (14 bp):
AATCCCTAACCCCT
Found at i:45580964 original size:41 final size:41
Alignment explanation
Indices: 45580900--45581432 Score: 622
Period size: 41 Copynumber: 13.0 Consensus size: 41
45580890 AAAATTTTTT
* *
45580900 GCGGCGCTTTTTCAAAAAAGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
45580941 GCGGGGCTTTTTCAAAAATGCCGCTAAAGTCCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
45580982 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCT-AGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAG-CCCTGAGCATTA
** *
45581023 GCAACGCTTCTTCAAAAACGCCGCTAAAAACCC-GAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCT-AAAGCCCTGAGCATTA
* * **
45581064 GTGGCGCTTCTTCAAAAACGTCGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
** * * * *
45581105 GTTGCGCTTCTTTAAAAACGCAGCTAAAGCCCTAAGTATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
45581146 GCGGGGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
45581187 GCAGCGCTTCTTCAAAAACGCCACTAAAGACCC-AAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAG-CCCTGAGCATTA
* * * **
45581228 GCAGCGCTTTTTCAAAAACGCCGCTAAAGACAAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* **
45581269 GTGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
45581310 GTGGCGCTTCTTTAAAAACGCAGCTAAAGCCTTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
45581351 GCGACGCATCTTCAAAAACGCCGCTAAATCCCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
45581392 GTGACACTTCTTCAAAAACGTCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
45581433 ACGTCGCTAA
Statistics
Matches: 421, Mismatches: 65, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
40 7 0.02
41 405 0.96
42 9 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:45587811 original size:16 final size:16
Alignment explanation
Indices: 45587786--45587818 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45587776 CAAATTTACT
*
45587786 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
45587802 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
45587818 A
1 A
45587819 AACACAGTTT
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:0.24, C:0.36, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:45587901 original size:16 final size:16
Alignment explanation
Indices: 45587880--45587917 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
45587870 GATTTGCTAT
45587880 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45587896 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45587912 TACACC
1 TACACC
45587918 GAACCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45592910 original size:31 final size:31
Alignment explanation
Indices: 45592875--45592957 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
45592865 CTTAACAGCC
** *
45592875 CAATGACTTAAATAAAAATTTTTGAATAGTT
1 CAATGACCAAAATAAAAACTTTTGAATAGTT
*
45592906 CAATGACCAAAATGAAAACTTTTGAATAGTT
1 CAATGACCAAAATAAAAACTTTTGAATAGTT
* *
45592937 CATTGACCAAAATGAAAACTT
1 CAATGACCAAAATAAAAACTT
45592958 ACCAATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (31 bp):
CAATGACCAAAATAAAAACTTTTGAATAGTT
Found at i:45599901 original size:50 final size:50
Alignment explanation
Indices: 45599780--45600061 Score: 253
Period size: 50 Copynumber: 5.5 Consensus size: 50
45599770 ACATGCTAAA
** * * * *
45599780 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--TACCAAA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAAC
* * * ** * * * *
45599829 GTCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
**
45599879 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
45599929 GCCATGTCCCAGACATGGTCTTACATGGGACCCCTCGTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * * * *
45599979 ACCATGTCCTAGACATGGTCTTACATGGGCCCTCTCATGATTTCAAGGATGCTAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAC
*
45600035 GTCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
45600062 AGATCTCTTT
Statistics
Matches: 188, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 32 0.17
50 121 0.64
53 3 0.02
55 2 0.01
56 29 0.15
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:45603518 original size:4 final size:4
Alignment explanation
Indices: 45603509--45603552 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
45603499 TTTAAGTTTG
45603509 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
45603553 ACAAGTTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:45604265 original size:25 final size:24
Alignment explanation
Indices: 45604228--45604280 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
45604218 AAAAAATATT
*
45604228 AAATTATTCTAATCCATTTCCTTA
1 AAATTATTCTAATACATTTCCTTA
* *
45604252 AAATTTTTACTAATACATTTTCTTA
1 AAATTATT-CTAATACATTTCCTTA
45604277 AAAT
1 AAAT
45604281 AATATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTATTCTAATACATTTCCTTA
Found at i:45605173 original size:29 final size:28
Alignment explanation
Indices: 45605141--45605217 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
45605131 GGTGATTATT
45605141 TTTTTATATTTAAAATTTAGTCTTCGTA
1 TTTTTATATTTAAAATTTAGTCTTCGTA
* * * **
45605169 CTTTTATTTTTAAGAATGTAGTCTTTTTA
1 TTTTTATATTTAA-AATTTAGTCTTCGTA
45605198 TTTTT-TATTTAAAAATTTAG
1 TTTTTATATTT-AAAATTTAG
45605218 ATCTAATTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTTTATATTTAAAATTTAGTCTTCGTA
Found at i:45605208 original size:28 final size:28
Alignment explanation
Indices: 45605141--45605211 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
45605131 GGTGATTATT
*
45605141 TTTTTATATTTAAAATTTAGTCTTCGTAC
1 TTTTT-TATTTAAAATGTAGTCTTCGTAC
**
45605170 TTTTATT-TTTAAGAATGTAGTCTTTTTA-
1 TTTT-TTATTTAA-AATGTAGTCTTCGTAC
45605198 TTTTTTATTTAAAA
1 TTTTTTATTTAAAA
45605212 ATTTAGATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 4 0.11
28 14 0.39
29 17 0.47
30 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTTATTTAAAATGTAGTCTTCGTAC
Found at i:45626383 original size:23 final size:23
Alignment explanation
Indices: 45626357--45626417 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
45626347 ATTTTTGAGG
45626357 ATATGCAATCTTAGATATGATAT
1 ATATGCAATCTTAGATATGATAT
45626380 ATATGCAATCTTAGATATGATAT
1 ATATGCAATCTTAGATATGATAT
45626403 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
45626418 AGATATGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (23 bp):
ATATGCAATCTTAGATATGATAT
Found at i:45627071 original size:23 final size:25
Alignment explanation
Indices: 45627031--45627077 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
45627021 CACACATATA
45627031 TATATTTTTTAAACGAATATTTTCC
1 TATATTTTTTAAACGAATATTTTCC
*
45627056 TATA-TTTTT-AATGAATATTTTC
1 TATATTTTTTAAACGAATATTTTC
45627078 ATATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 5 0.24
25 4 0.19
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTTAAACGAATATTTTCC
Found at i:45627841 original size:98 final size:98
Alignment explanation
Indices: 45627732--45628024 Score: 543
Period size: 98 Copynumber: 3.0 Consensus size: 98
45627722 TTAAAAATAA
* * *
45627732 TAAAGGAAATATTCCGAA-TTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCC-AAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
45627796 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
45627830 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
45627895 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
45627928 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
45627993 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
45628025 ATTTTATTGT
Statistics
Matches: 191, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
97 2 0.01
98 189 0.99
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:45630957 original size:3 final size:3
Alignment explanation
Indices: 45630949--45630973 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45630939 GGAACTTAAC
45630949 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
45630974 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:45630978 original size:3 final size:3
Alignment explanation
Indices: 45630972--45630996 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45630962 AATAATAATA
45630972 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
45630997 AAAATCAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:45633624 original size:17 final size:16
Alignment explanation
Indices: 45633602--45633656 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
45633592 GTTCAAGCTG
45633602 TTTTAGATTTTGATTTT
1 TTTTAGA-TTTGATTTT
45633619 TTTTAG-TTTGCATTTT
1 TTTTAGATTTG-ATTTT
* *
45633635 TCTTTAAATTTCATTTT
1 T-TTTAGATTTGATTTT
45633652 TTTTA
1 TTTTA
45633657 ACAAATGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 4 0.12
16 10 0.30
17 16 0.48
18 3 0.09
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.69
Consensus pattern (16 bp):
TTTTAGATTTGATTTT
Found at i:45635173 original size:42 final size:42
Alignment explanation
Indices: 45635106--45635185 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
45635096 ACAGTGAGTT
* * *
45635106 ACACGGCCTAGGCACACGCCTATGTCCTTACCCGTGTGTCCC
1 ACACGGACTAGGCACACACCCATGTCCTTACCCGTGTGTCCC
*
45635148 ACACGGACTAGGCACACACCCATGTCCTTGCCCGTGTG
1 ACACGGACTAGGCACACACCCATGTCCTTACCCGTGTG
45635186 GATCACACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.19, C:0.39, G:0.23, T:0.20
Consensus pattern (42 bp):
ACACGGACTAGGCACACACCCATGTCCTTACCCGTGTGTCCC
Found at i:45636680 original size:9 final size:9
Alignment explanation
Indices: 45636663--45636697 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
45636653 TGAGTTTTCG
45636663 AATTCGAAT
1 AATTCGAAT
*
45636672 AACTCGAAT
1 AATTCGAAT
*
45636681 AATTCAAAT
1 AATTCGAAT
45636690 AATTCGAA
1 AATTCGAA
45636698 CATCAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45636985 original size:16 final size:16
Alignment explanation
Indices: 45636961--45636996 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45636951 TAAAACTTTT
45636961 ATTACGAAGTGATGAA
1 ATTACGAAGTGATGAA
*
45636977 ATTATGAAGTGATGAA
1 ATTACGAAGTGATGAA
45636993 ATTA
1 ATTA
45636997 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (16 bp):
ATTACGAAGTGATGAA
Found at i:45637215 original size:5 final size:5
Alignment explanation
Indices: 45637205--45637230 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45637195 CTCGAAAATT
45637205 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
45637231 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:45637576 original size:20 final size:19
Alignment explanation
Indices: 45637522--45637584 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
45637512 TAATTGATTT
*
45637522 AAATATTTAAATGAAATTATA
1 AAATATTTAAAT-ATATTA-A
*
45637543 AAATA---AAATATATTTA
1 AAATATTTAAATATATTAA
45637559 AAATATTTAAATACTATTAA
1 AAATATTTAAATA-TATTAA
45637579 AAATAT
1 AAATAT
45637585 ACAAAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 6 0.17
17 4 0.11
18 4 0.11
19 5 0.14
20 11 0.31
21 5 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATATTTAAATATATTAA
Found at i:45652497 original size:9 final size:9
Alignment explanation
Indices: 45652483--45652509 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45652473 TAAAATATAC
45652483 TAATAGTAT
1 TAATAGTAT
45652492 TAATAGTAT
1 TAATAGTAT
45652501 TAATAGTAT
1 TAATAGTAT
45652510 CAACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
TAATAGTAT
Found at i:45652587 original size:3 final size:3
Alignment explanation
Indices: 45652579--45652620 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
45652569 TGACTATAAC
45652579 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45652621 TCTAATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45652995 original size:25 final size:25
Alignment explanation
Indices: 45652946--45652997 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
45652936 AGATAAATTA
*
45652946 AAATTATGGGGTAAAAATTAAAACC
1 AAATTATGAGGTAAAAATTAAAACC
45652971 AAATTATGAGGTAAAAATTAAAACC
1 AAATTATGAGGTAAAAATTAAAACC
45652996 AA
1 AA
45652998 TAAAAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (25 bp):
AAATTATGAGGTAAAAATTAAAACC
Found at i:45655867 original size:28 final size:28
Alignment explanation
Indices: 45655835--45655906 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
45655825 TAATGAGATT
* *
45655835 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* *
45655863 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
*
45655891 AGCACTAAGTATGCGA
1 AGCACTAAGTGTGCGA
45655907 ACTTATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Found at i:45656595 original size:23 final size:23
Alignment explanation
Indices: 45656560--45656819 Score: 243
Period size: 23 Copynumber: 11.1 Consensus size: 23
45656550 TTTTGGTTTG
* *
45656560 AATTTGGTATATATATGCTGCCC
1 AATTTGTTGTATATATGCTGCCC
*
45656583 AATTTGTTGTATATATGCTGTCC
1 AATTTGTTGTATATATGCTGCCC
* * * *
45656606 AATTTTTGGTGTAAAAATGCTGCTC
1 AA--TTTGTTGTATATATGCTGCCC
*
45656631 AATTTGTTGTATTTATGCTGCCC
1 AATTTGTTGTATATATGCTGCCC
* **
45656654 AAATTGTTGTATATATGCTATCC
1 AATTTGTTGTATATATGCTGCCC
* * * * *
45656677 AATTTTGATGTAAAAATGCTACTC
1 AA-TTTGTTGTATATATGCTGCCC
* *
45656701 AATTTGGTATATATATGCTGCCC
1 AATTTGTTGTATATATGCTGCCC
*
45656724 AATTTGTTGTATATATGCTGTCC
1 AATTTGTTGTATATATGCTGCCC
* * * *
45656747 AATTTTTGGTGTAAAAATGCTGCTC
1 AA--TTTGTTGTATATATGCTGCCC
45656772 AATTTGTTGTATATATGCTGCCC
1 AATTTGTTGTATATATGCTGCCC
*
45656795 AGA-TTGTTGTATATATGCTGTCC
1 A-ATTTGTTGTATATATGCTGCCC
45656818 AA
1 AA
45656820 ATTTTAGTGT
Statistics
Matches: 189, Mismatches: 42, Indels: 13
0.77 0.17 0.05
Matches are distributed among these distances:
22 1 0.01
23 134 0.71
24 18 0.10
25 36 0.19
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (23 bp):
AATTTGTTGTATATATGCTGCCC
Found at i:45656717 original size:141 final size:142
Alignment explanation
Indices: 45656560--45656878 Score: 509
Period size: 141 Copynumber: 2.3 Consensus size: 142
45656550 TTTTGGTTTG
45656560 AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
1 AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
*
45656625 CTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTATCC-AATTTT-GATGT
66 CTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTATCCAAATTTTAG-TGT
45656688 AAAAATGCTACTC-
130 AAAAATGCT-CTCT
45656701 AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
1 AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
* * *
45656766 CTGCTCAATTTGTTGTATATATGCTGCCCAGATTGTTGTATATATGCTGTCCAAATTTTAGTGTG
66 CTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTATCCAAATTTTAGTGTA
*
45656831 AAAATGCTGTCT
131 AAAATGCTCTCT
* * * * *
45656843 AGTTTGGTATATAAATGCTGTCCAAATTGATGTATA
1 AATTTGGTATATATATGCTGCCCAATTTGTTGTATA
45656879 AGAGCTGTCC
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
141 116 0.70
142 48 0.29
143 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (142 bp):
AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
CTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTATCCAAATTTTAGTGTA
AAAATGCTCTCT
Found at i:45656886 original size:71 final size:71
Alignment explanation
Indices: 45656560--45656891 Score: 445
Period size: 71 Copynumber: 4.7 Consensus size: 71
45656550 TTTTGGTTTG
* *
45656560 AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
1 AATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATG
45656625 CTGCTC
66 CTGCTC
* * * * *
45656631 AATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTATCC-AATTTTGATGTAAAAATG
1 AATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATG
*
45656695 CTACTC
66 CTGCTC
* *
45656701 AATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATG
1 AATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATG
45656766 CTGCTC
66 CTGCTC
* * * * *
45656772 AATTTGTTGTATATATGCTGCCCAGATTGTTGTATATATGCTGTCCAAATTTTAGTGTGAAAATG
1 AATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATG
45656837 CTG-TC
66 CTGCTC
* * * * *
45656842 TAGTTTGGTATATAAATGCTGTCCAAATTGATGTATA-AGAGCTGTCCAAA
1 -AATTTGGTATATATATGCTGCCCAAATTGTTGTATATA-TGCTGTCCAAA
45656892 CAGGGTAGAT
Statistics
Matches: 227, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
70 65 0.29
71 162 0.71
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (71 bp):
AATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATG
CTGCTC
Found at i:45666293 original size:52 final size:48
Alignment explanation
Indices: 45666274--45666476 Score: 256
Period size: 46 Copynumber: 4.3 Consensus size: 48
45666264 TGACAAGTGG
* *
45666274 AAAGTGATAAGTAATAGCTTTGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAA
*
45666320 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGAC-A---A
* * *
45666372 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAA
* *
45666418 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAA
45666464 AAAGTGATAAGTG
1 AAAGTGATAAGTG
45666477 GCTACACTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 99 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAA
Found at i:45666328 original size:98 final size:98
Alignment explanation
Indices: 45666208--45666476 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
45666198 TTTGAGTACT
*
45666208 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
45666273 GAAAGTGATAAGTAATAGCTTTGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
45666306 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
45666371 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
45666404 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
45666469 GATAAGTG
65 GAAAAGTG
45666477 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:45666484 original size:37 final size:37
Alignment explanation
Indices: 45666440--45666545 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
45666430 GATAGCTTTA
45666440 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
45666477 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
45666514 GCTACACTTATCTGATC-AGGGAC-AAGTGATAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAA
45666546 TTGATCATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 8 0.12
36 4 0.06
37 52 0.81
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:45669335 original size:34 final size:34
Alignment explanation
Indices: 45669292--45669359 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
45669282 TTTAGATAGG
45669292 ATCATTTGCAAGTGTTCTTCTATCGGCCGAATAC
1 ATCATTTGCAAGTGTTCTTCTATCGGCCGAATAC
45669326 ATCATTTGCAAGTGTTCTTCTATCGGCCGAATAC
1 ATCATTTGCAAGTGTTCTTCTATCGGCCGAATAC
45669360 TTTCTTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (34 bp):
ATCATTTGCAAGTGTTCTTCTATCGGCCGAATAC
Found at i:45671909 original size:48 final size:48
Alignment explanation
Indices: 45671853--45671949 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
45671843 GAGTCCATAC
45671853 TCCGTAAGTTAGGAGCATGACTCCTCGAATCCTGAAAATAACGAATAT
1 TCCGTAAGTTAGGAGCATGACTCCTCGAATCCTGAAAATAACGAATAT
*
45671901 TCCGTAAGTTAGGAGCATGATTCCTCGAATCCTGAAAATAACGAATAT
1 TCCGTAAGTTAGGAGCATGACTCCTCGAATCCTGAAAATAACGAATAT
45671949 T
1 T
45671950 GCCTCGGTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (48 bp):
TCCGTAAGTTAGGAGCATGACTCCTCGAATCCTGAAAATAACGAATAT
Found at i:45672234 original size:9 final size:9
Alignment explanation
Indices: 45672220--45672246 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45672210 TAAAATATAC
45672220 TAATAGTAT
1 TAATAGTAT
45672229 TAATAGTAT
1 TAATAGTAT
45672238 TAATAGTAT
1 TAATAGTAT
45672247 CAACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
TAATAGTAT
Found at i:45676761 original size:17 final size:17
Alignment explanation
Indices: 45676722--45676755 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45676712 ACATTTTTTA
*
45676722 GGTATTATTTGGAAAGG
1 GGTATTATTTGAAAAGG
45676739 GGTATTATTTGAAAAGG
1 GGTATTATTTGAAAAGG
45676756 TTTATTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (17 bp):
GGTATTATTTGAAAAGG
Found at i:45677100 original size:21 final size:22
Alignment explanation
Indices: 45677063--45677106 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
45677053 ATACACTTAT
*
45677063 AGACCTTAAATTGAGTTT-AAA
1 AGACCTTAAAATGAGTTTGAAA
45677084 AGACCTTAAAAAT-AGTTTGAAA
1 AGACCTT-AAAATGAGTTTGAAA
45677106 A
1 A
45677107 CAATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (22 bp):
AGACCTTAAAATGAGTTTGAAA
Found at i:45686748 original size:89 final size:89
Alignment explanation
Indices: 45686594--45686769 Score: 325
Period size: 89 Copynumber: 2.0 Consensus size: 89
45686584 TTTAGAATCT
*
45686594 TAGAAAACTGAAATTGCTTGAAAAAAAGGGTTATTGAGTGAATATCTAGTTTGATCGATAATAGT
1 TAGAAAACTGAAATTGCCTGAAAAAAAGGGTTATTGAGTGAATATCTAGTTTGATCGATAATAGT
45686659 TTGGAGTTGACCGTGTAACATTCG
66 TTGGAGTTGACCGTGTAACATTCG
* *
45686683 TAGAAAACTGAAATTGCCTGAAAAAAAGGGTTATTGAGTGAATATCTAGTTTGATTGATAGTAGT
1 TAGAAAACTGAAATTGCCTGAAAAAAAGGGTTATTGAGTGAATATCTAGTTTGATCGATAATAGT
45686748 TTGGAGTTGACCGTGTAACATT
66 TTGGAGTTGACCGTGTAACATT
45686770 TGAAGTTCGG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (89 bp):
TAGAAAACTGAAATTGCCTGAAAAAAAGGGTTATTGAGTGAATATCTAGTTTGATCGATAATAGT
TTGGAGTTGACCGTGTAACATTCG
Found at i:45700993 original size:16 final size:16
Alignment explanation
Indices: 45700985--45701021 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45700975 ATCCTTCTAG
45700985 TTTTCCATCATTCCAA
1 TTTTCCATCATTCCAA
* *
45701001 TTTTCCATCTTTTCAA
1 TTTTCCATCATTCCAA
45701017 TTTTC
1 TTTTC
45701022 TTTCCTCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTCCATCATTCCAA
Found at i:45707632 original size:42 final size:42
Alignment explanation
Indices: 45707564--45707729 Score: 196
Period size: 42 Copynumber: 4.0 Consensus size: 42
45707554 ATGCTATCAT
45707564 ATATCGATGCCAATAG--CCAG-CTATGGTCTTACACGAATCTC
1 ATATCGATGCCAA-AGTCCCAGAC-ATGGTCTTACACGAATCTC
* **
45707605 ATATCGATGGCAAAGTCTTAGACATGGTCTTACACGAATCTC
1 ATATCGATGCCAAAGTCCCAGACATGGTCTTACACGAATCTC
* * *
45707647 ATATCGATGCCAATA-TCCCAGACATGGTTTTACATGAATCAC
1 ATATCGATGCCAA-AGTCCCAGACATGGTCTTACACGAATCTC
* *
45707689 ATAACGATGCCAATGTCCCAGACATGGTCTTACACGTAATC
1 ATATCGATGCCAAAGTCCCAGACATGGTCTTACACG-AATC
45707730 ACATCTCAGT
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.02
41 12 0.11
42 86 0.81
43 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
ATATCGATGCCAAAGTCCCAGACATGGTCTTACACGAATCTC
Found at i:45707686 original size:84 final size:84
Alignment explanation
Indices: 45707564--45707729 Score: 219
Period size: 84 Copynumber: 2.0 Consensus size: 84
45707554 ATGCTATCAT
* * * * **
45707564 ATATCGATGCCAATAGCCAGCTATGGTCTTACACGAATCTCATATCGATGGCAAAGTCTTAGACA
1 ATATCGATGCCAATACCCAGCTATGGTCTTACACGAATCACATAACGATGCCAAAGTCCCAGACA
45707629 TGGTCTTACACG-AATCTC
66 TGGTCTTACACGTAATCTC
* * *
45707647 ATATCGATGCCAATATCCCAGAC-ATGGTTTTACATGAATCACATAACGATGCCAATGTCCCAGA
1 ATATCGATGCCAATA-CCCAG-CTATGGTCTTACACGAATCACATAACGATGCCAAAGTCCCAGA
45707711 CATGGTCTTACACGTAATC
64 CATGGTCTTACACGTAATC
45707730 ACATCTCAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
83 15 0.21
84 51 0.72
85 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (84 bp):
ATATCGATGCCAATACCCAGCTATGGTCTTACACGAATCACATAACGATGCCAAAGTCCCAGACA
TGGTCTTACACGTAATCTC
Found at i:45717275 original size:40 final size:40
Alignment explanation
Indices: 45717220--45717305 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
45717210 AAATATATTT
* * *
45717220 ATTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
45717260 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
45717300 ATTTTT
1 ATTTTT
45717306 AAAAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:45717301 original size:12 final size:11
Alignment explanation
Indices: 45717270--45717321 Score: 65
Period size: 10 Copynumber: 4.9 Consensus size: 11
45717260 ATTTTTTTAA
45717270 TTTTAAAATAT
1 TTTTAAAATAT
45717281 TTTTAAAATACT
1 TTTTAAAATA-T
*
45717293 TTTT-TAA-AT
1 TTTTAAAATAT
45717302 TTTTAAAA-AT
1 TTTTAAAATAT
45717312 TTTTAAAATA
1 TTTTAAAATA
45717322 AAAATGGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 5 0.14
10 13 0.36
11 13 0.36
12 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:45717303 original size:31 final size:31
Alignment explanation
Indices: 45717261--45717321 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
45717251 CTTTTTTTAA
*
45717261 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTAAAA-ATTTTTAAAATAC
45717292 TTTTTTAAATTTTTAAAAATTTTTAAAATA
1 TTTTTTAAATTTTTAAAAATTTTTAAAATA
45717322 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTTTAAATTTTTAAAAATTTTTAAAATAC
Found at i:45720202 original size:17 final size:18
Alignment explanation
Indices: 45720180--45720219 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
45720170 ATGTATAATC
45720180 AATTATTTTT-TAAATAT
1 AATTATTTTTATAAATAT
45720197 AATTATTTTTAGTAAATAT
1 AATTATTTTTA-TAAATAT
45720216 AATT
1 AATT
45720220 TTTATATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AATTATTTTTATAAATAT
Found at i:45720374 original size:32 final size:33
Alignment explanation
Indices: 45720296--45720374 Score: 115
Period size: 33 Copynumber: 2.3 Consensus size: 33
45720286 ATCAAATAAT
45720296 TATTTCAAATATCATTATTATTTTTATATGTAAAAA
1 TATTTCAAATATC---ATTATTTTTATATGTAAAAA
45720332 TATTTCAAATATCATTATTTTTATATGT-AAAA
1 TATTTCAAATATCATTATTTTTATATGTAAAAA
*
45720364 TATTTTAAATA
1 TATTTCAAATA
45720375 ATTACTTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
32 14 0.33
33 15 0.36
36 13 0.31
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (33 bp):
TATTTCAAATATCATTATTTTTATATGTAAAAA
Found at i:45720799 original size:19 final size:19
Alignment explanation
Indices: 45720777--45720814 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45720767 ATCACTGTCA
45720777 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
**
45720796 CCCACTGTAATCAAATTTG
1 CCCACCATAATCAAATTTG
45720815 TTATTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:45722577 original size:37 final size:37
Alignment explanation
Indices: 45722496--45722577 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
45722486 TACTCCCTAT
* * * *
45722496 TCTGGTGTGTTTCGGTTGGATTAGCTCTTCGGAGCCA
1 TCTGGTGTGTATCGGGTAGATTAGCTCTTAGGAGCCA
* *
45722533 -CTAGTGTGTCATCGGGTAGATTAGCTCTTATGAG-CA
1 TCTGGTGTGT-ATCGGGTAGATTAGCTCTTAGGAGCCA
45722569 TCTGGTGTG
1 TCTGGTGTG
45722578 CATTGGATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
36 10 0.28
37 26 0.72
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.37
Consensus pattern (37 bp):
TCTGGTGTGTATCGGGTAGATTAGCTCTTAGGAGCCA
Found at i:45724904 original size:19 final size:19
Alignment explanation
Indices: 45724867--45724906 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45724857 AATTCCAAAA
45724867 TTATTATTTTATTAAATTT
1 TTATTATTTTATTAAATTT
*
45724886 TTATATATTTT-TTAGATTT
1 TTAT-TATTTTATTAAATTT
45724905 TT
1 TT
45724907 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTATTATTTTATTAAATTT
Found at i:45724917 original size:18 final size:18
Alignment explanation
Indices: 45724896--45724932 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45724886 TTATATATTT
*
45724896 TTTAGATTTTTTTAAAAA
1 TTTAGAATTTTTTAAAAA
*
45724914 TTTATAATTTTTTAAAAA
1 TTTAGAATTTTTTAAAAA
45724932 T
1 T
45724933 ATAAAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTAGAATTTTTTAAAAA
Found at i:45724974 original size:18 final size:20
Alignment explanation
Indices: 45724943--45724980 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
45724933 ATAAAGTTTA
*
45724943 GAATTTCTATAAA-TATTTT
1 GAATTTCTAAAAATTATTTT
45724962 GAATTT-TAAAAATTATTTT
1 GAATTTCTAAAAATTATTTT
45724981 CAAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
GAATTTCTAAAAATTATTTT
Found at i:45725761 original size:18 final size:18
Alignment explanation
Indices: 45725740--45725782 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45725730 CCTGCACCAG
*
45725740 CTCCACCGCCAAACCCAC
1 CTCCACCACCAAACCCAC
* * *
45725758 CTCCTCCACCGAAGCCAC
1 CTCCACCACCAAACCCAC
45725776 CTCCACC
1 CTCCACC
45725783 TCCAGCTCCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.60, G:0.07, T:0.09
Consensus pattern (18 bp):
CTCCACCACCAAACCCAC
Found at i:45725829 original size:24 final size:25
Alignment explanation
Indices: 45725776--45725839 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
45725766 CCGAAGCCAC
* * *
45725776 CTCCACCTCCAGCTCCACCTCCAAA
1 CTCCACCACCAGCACCACCACCAAA
*
45725801 C-CCACCACCAGCACCACCACC-TA
1 CTCCACCACCAGCACCACCACCAAA
* *
45725824 CTCCACCGCCACCACC
1 CTCCACCACCAGCACC
45725840 TCCTCCGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.06
24 29 0.91
25 1 0.03
ACGTcount: A:0.25, C:0.61, G:0.05, T:0.09
Consensus pattern (25 bp):
CTCCACCACCAGCACCACCACCAAA
Found at i:45725859 original size:24 final size:24
Alignment explanation
Indices: 45725793--45725887 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
45725783 TCCAGCTCCA
* * *
45725793 CCTCCAAACCCACCACCAGCACCA
1 CCTCCAAGCCCACCACCACCACCT
* * *
45725817 CCACCTA-CTCCACCGCCACCACCT
1 CCTCCAAGC-CCACCACCACCACCT
*
45725841 CCTCCGAA-CCCTCCACCACCACCT
1 CCTCC-AAGCCCACCACCACCACCT
*
45725865 CCTCCAAGCCCACCACCTCCACC
1 CCTCCAAGCCCACCACCACCACC
45725888 AACGCCACCA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
23 3 0.05
24 52 0.91
25 2 0.04
ACGTcount: A:0.24, C:0.62, G:0.04, T:0.09
Consensus pattern (24 bp):
CCTCCAAGCCCACCACCACCACCT
Found at i:45725877 original size:21 final size:20
Alignment explanation
Indices: 45725812--45725900 Score: 69
Period size: 18 Copynumber: 4.4 Consensus size: 20
45725802 CCACCACCAG
*
45725812 CACCACCACCTACTCC-A-C
1 CACCACCACCTCCTCCAACC
*
45725830 CGCCACCACCTCCTCCGAACCCTC
1 CACCACCACCTCCTCC-AA--C-C
*
45725854 CACCACCACCTCCTCCAA-G
1 CACCACCACCTCCTCCAACC
*
45725873 C-CCACCACCTCCACCAACGC
1 CACCACCACCTCCTCCAAC-C
45725893 CACCACCA
1 CACCACCA
45725901 GCACCAGCGC
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
18 29 0.52
19 1 0.02
20 2 0.04
21 6 0.11
23 2 0.04
24 16 0.29
ACGTcount: A:0.25, C:0.62, G:0.04, T:0.09
Consensus pattern (20 bp):
CACCACCACCTCCTCCAACC
Found at i:45725905 original size:18 final size:18
Alignment explanation
Indices: 45725856--45725918 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
45725846 GAACCCTCCA
* *
45725856 CCACCACCTCCTCCAA-G
1 CCACCACCACCACCAACG
*
45725873 CCCACCACCTCCACCAACG
1 -CCACCACCACCACCAACG
* *
45725892 CCACCACCAGCACCAGCG
1 CCACCACCACCACCAACG
*
45725910 CCCCCACCA
1 CCACCACCA
45725919 AATCCAGCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 38 0.97
19 1 0.03
ACGTcount: A:0.25, C:0.62, G:0.08, T:0.05
Consensus pattern (18 bp):
CCACCACCACCACCAACG
Found at i:45725948 original size:24 final size:24
Alignment explanation
Indices: 45725921--45725977 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
45725911 CCCCACCAAA
* * *
45725921 TCCAGCTCCACCACCTAGCCCTCC
1 TCCACCTCCACCACCAAACCCTCC
45725945 TCCACCTCCACCACCAAACCCTCC
1 TCCACCTCCACCACCAAACCCTCC
*
45725969 ACCACCTCC
1 TCCACCTCC
45725978 TCCTCCTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.61, G:0.04, T:0.14
Consensus pattern (24 bp):
TCCACCTCCACCACCAAACCCTCC
Found at i:45727414 original size:107 final size:107
Alignment explanation
Indices: 45727228--45727540 Score: 439
Period size: 115 Copynumber: 2.9 Consensus size: 107
45727218 AAGATGTAAG
* * * * * *
45727228 AGGATATTTAGCCATTCGGTCCAACGAG-AAATTGAAACCCAGCACATTAGGGCACATTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
45727292 AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
* * *
45727334 AGGATATTTGGCTATTTGGTTGAACGAGAAAATCGAAACCCAGCACATTAGAGCACGTTTTTTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
* *
45727399 AATTTTCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAAATTTTAAA
66 AATTTCCAAACGCAAAACATTGCC-----TT---ATTTTAAAATTTTAAA
*
45727449 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
45727514 AATTTCCAAACGCAAAACATTGCCTTA
66 AATTTCCAAACGCAAAACATTGCCTTA
45727541 AAAAATTAAA
Statistics
Matches: 181, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
106 23 0.13
107 55 0.30
110 2 0.01
112 2 0.01
115 99 0.55
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
Found at i:45727438 original size:8 final size:8
Alignment explanation
Indices: 45727425--45727449 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45727415 ACATTGCCTT
45727425 ATTTTAAA
1 ATTTTAAA
45727433 ATTTTAAA
1 ATTTTAAA
45727441 ATTTTAAA
1 ATTTTAAA
45727449 A
1 A
45727450 GGATATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:45727786 original size:17 final size:16
Alignment explanation
Indices: 45727766--45727858 Score: 66
Period size: 17 Copynumber: 5.4 Consensus size: 16
45727756 CAATAATGAG
45727766 AATAAATAAATAAAAAT
1 AATAAA-AAATAAAAAT
*
45727783 AATAAAATAATAATAAT
1 AATAAAA-AATAAAAAT
45727800 AATAAAATGTAA-AAAAAT
1 AATAAAA---AATAAAAAT
*
45727818 AA-AATAGAAAAAAAAAT
1 AATAA-A-AAATAAAAAT
45727835 AATAGAAAACAT-AAAAT
1 AATA-AAAA-ATAAAAAT
45727852 AATAAAA
1 AATAAAA
45727859 TCTATGTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 19
0.74 0.03 0.22
Matches are distributed among these distances:
16 6 0.09
17 42 0.66
18 11 0.17
19 5 0.08
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAAAAATAAAAAT
Found at i:45727790 original size:14 final size:14
Alignment explanation
Indices: 45727773--45727859 Score: 58
Period size: 12 Copynumber: 6.3 Consensus size: 14
45727763 GAGAATAAAT
45727773 AAATAAAAATAATA
1 AAATAAAAATAATA
*
45727787 AAATAATAATAAT-
1 AAATAAAAATAATA
* *
45727800 -AATAAAATGTAAAA
1 AAATAAAA-ATAATA
*
45727814 AAAT-AAAAT-AGA
1 AAATAAAAATAATA
45727826 AAA-AAAAATAATAGA
1 AAATAAAAATAAT--A
*
45727841 AAACATAAAATAATA
1 AAATA-AAAATAATA
45727856 AAAT
1 AAAT
45727860 CTATGTATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
12 16 0.29
13 5 0.09
14 15 0.27
15 11 0.20
16 1 0.02
17 8 0.14
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAATA
Found at i:45727858 original size:15 final size:14
Alignment explanation
Indices: 45727773--45727858 Score: 58
Period size: 15 Copynumber: 6.1 Consensus size: 14
45727763 GAGAATAAAT
45727773 AAATAAAAATAAT-A
1 AAAT-AAAATAATAA
45727787 AAAT--AATAATAA
1 AAATAAAATAATAA
*
45727799 TAATAAAATGTAA-AA
1 AAATAAAA--TAATAA
*
45727814 AAATAAAAT-AGAA
1 AAATAAAATAATAA
45727827 AAA-AAAATAATAGAA
1 AAATAAAATAAT--AA
45727842 AACATAAAATAATAA
1 AA-ATAAAATAATAA
45727857 AA
1 AA
45727859 TCTATGTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
11 6 0.10
12 10 0.17
13 7 0.12
14 6 0.10
15 17 0.29
16 4 0.07
17 8 0.14
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:45728534 original size:12 final size:12
Alignment explanation
Indices: 45728517--45728547 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
45728507 CTTGCGGGTT
45728517 GGGTCGGTTCTC
1 GGGTCGGTTCTC
45728529 GGGTCGGTTCTC
1 GGGTCGGTTCTC
45728541 GGGTCGG
1 GGGTCGG
45728548 CTATAAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.48, T:0.29
Consensus pattern (12 bp):
GGGTCGGTTCTC
Found at i:45729854 original size:132 final size:132
Alignment explanation
Indices: 45729687--45730015 Score: 496
Period size: 132 Copynumber: 2.5 Consensus size: 132
45729677 ACTACTTTGA
* *
45729687 GAAGATAAGATTCACCCTCTTTGATCTGCTTCACTACTGCTTAGGGAGACAAAATTTGCAATCTT
1 GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGCAATCTT
* * *
45729752 CAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTCCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATT
45729817 GG
131 GG
* *
45729819 GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAATGTT
1 GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGCAATCTT
* * * *
45729884 CAACCTATTCCGCTACTCCTTAGGGAGATAGGACTAATTGCTTAAATCTGCTTCTCCACTATATT
66 CAACCTACTCCACTACTCCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATT
45729949 GG
131 GG
* * ** * * *
45729951 GAATATAATATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTATCTT
1 GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGCAATCTT
45730016 TAATATGTTT
Statistics
Matches: 177, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 177 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGCAATCTT
CAACCTACTCCACTACTCCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATT
GG
Found at i:45730114 original size:45 final size:45
Alignment explanation
Indices: 45730050--45730274 Score: 183
Period size: 45 Copynumber: 5.0 Consensus size: 45
45730040 GTGTCTTTGA
*
45730050 TCTGCTTCGCAGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAG
1 TCTGCTTCGCCGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAG
* * * ** *
45730095 TCTGCTCCGCTGTCAGTACAGGAAGG-TAAGGCTTG-TGTCTTC-G
1 TCTGCTTCGCCGTCAGTACAGGAAGGCAAAATC-TGCTATCTTCAG
* * *
45730138 ATCTGCTTCGCCATCAGTATAGGAAGGCAATATCTGCTATCTTCAG
1 -TCTGCTTCGCCGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAG
* * * ** * * *
45730184 TCTGC-TCTACTGTCAGTACAGAAAGGC-AAGGCTGGTGTCTT-TG
1 TCTGCTTC-GCCGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAG
* * *
45730227 ATCTGCTTCGCCATCAGTACACGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCCGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAG
45730273 TC
1 TC
45730275 GAATTAACTG
Statistics
Matches: 133, Mismatches: 37, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
43 2 0.02
44 63 0.47
45 66 0.50
46 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTGCTTCGCCGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAG
Found at i:45730155 original size:44 final size:44
Alignment explanation
Indices: 45730040--45730262 Score: 170
Period size: 44 Copynumber: 5.0 Consensus size: 44
45730030 GTAAACTATG
* *
45730040 GTGTCTTTGATCTGCTTCG-CAGTCAGTACAGGAAGGCAAAATCT
1 GTGTCTTCGATCTGCTTCGCCA-TCAGTACAGGAAGGCAAGATCT
* * ** * *
45730084 GCTATCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGTAAG-GCTT
1 G-TGTCTTCGA-TCTGCTTCGCCATCAGTACAGGAAGGCAAGATC-T
* *
45730129 GTGTCTTCGATCTGCTTCGCCATCAGTATAGGAAGGCAATATCT
1 GTGTCTTCGATCTGCTTCGCCATCAGTACAGGAAGGCAAGATCT
* * ** * *
45730173 GCTATCTTC-AGTCTGC-TCTACTGTCAGTACAGAAAGGCAAG-GCT
1 G-TGTCTTCGA-TCTGCTTC-GCCATCAGTACAGGAAGGCAAGATCT
* *
45730217 GGTGTCTTTGATCTGCTTCGCCATCAGTACACGAAGGCAAGATCT
1 -GTGTCTTCGATCTGCTTCGCCATCAGTACAGGAAGGCAAGATCT
45730262 G
1 G
45730263 CTATCTTCAG
Statistics
Matches: 134, Mismatches: 32, Indels: 26
0.70 0.17 0.14
Matches are distributed among these distances:
44 68 0.51
45 66 0.49
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (44 bp):
GTGTCTTCGATCTGCTTCGCCATCAGTACAGGAAGGCAAGATCT
Found at i:45730197 original size:89 final size:89
Alignment explanation
Indices: 45730038--45730274 Score: 368
Period size: 89 Copynumber: 2.7 Consensus size: 89
45730028 CTGTAAACTA
45730038 TGGTGTCTTTGATCTGCTTCG-CAGTCAGTACAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTC
1 TGGTGTCTTTGATCTGCTTCGCCA-TCAGTACAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTC
* * *
45730102 CGCTGTCAGTACAGGAAGGTAAGGC
65 CACTGTCAGTACAGAAAGGCAAGGC
* * * * *
45730127 TTGTGTCTTCGATCTGCTTCGCCATCAGTATAGGAAGGCAATATCTGCTATCTTCAGTCTGCTCT
1 TGGTGTCTTTGATCTGCTTCGCCATCAGTACAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTCC
45730192 ACTGTCAGTACAGAAAGGCAAGGC
66 ACTGTCAGTACAGAAAGGCAAGGC
* *
45730216 TGGTGTCTTTGATCTGCTTCGCCATCAGTACACGAAGGCAAGATCTGCTATCTTCAGTC
1 TGGTGTCTTTGATCTGCTTCGCCATCAGTACAGGAAGGCAAAATCTGCTATCTTCAGTC
45730275 GAATTAACTG
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 132 0.99
90 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (89 bp):
TGGTGTCTTTGATCTGCTTCGCCATCAGTACAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTCC
ACTGTCAGTACAGAAAGGCAAGGC
Found at i:45730455 original size:50 final size:49
Alignment explanation
Indices: 45730293--45730975 Score: 350
Period size: 50 Copynumber: 13.7 Consensus size: 49
45730283 TGCAATGTCG
* * * * *
45730293 GGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTCCACTACACTGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCGCCT
* * * * * * * * * ** *
45730343 GAGAGGTAAGGTTTGTCGTTGTGGCCTCAATCTTT-TAATTACAATGTC-
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACCGCCT
* * * * *
45730391 GAGGGAGCAAGATTCGACGTCGTAGCTTCAATCTGTTCTGCTGCACCGCCT
1 G-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCGCCT
* * * * * ** * *
45730442 GGGAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACCGCCT
* * **
45730492 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCGCTGCACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCGCCT
* * * * ** * *
45730542 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACCGCCT
* * **
45730592 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCGCTGCACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCGCCT
* * * * ** * *
45730642 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACCGCCT
** * *
45730692 GGGAAGTAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCGCCT
* * * * * * ** *
45730742 GGGAAGTAAGATTCACCATTGTGGCCTCAATCTTTTTAATTGCAATG-TT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACCGCCT
** * * * *
45730791 GGGGAAGTAATTTTCACTGTTGTAGCTTTAA-CTGTTCCACTGCACCGCCT
1 -GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCGCCT
* * ** * * * * ** * *
45730841 GGGAAGTAAGATTCACCATTGCGGCCTCAATCTTTTTAATTGTAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACCGCCT
* * *
45730891 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACCG-CCT
* * * *
45730942 -GGAAGTAAGATTCGCCATGGTGGCCTCAATCTTT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
45730976 TAATTGCAAA
Statistics
Matches: 453, Mismatches: 161, Indels: 39
0.69 0.25 0.06
Matches are distributed among these distances:
48 1 0.00
49 76 0.17
50 365 0.81
51 11 0.02
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (49 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCTACTGCACCGCCT
Found at i:45730523 original size:100 final size:100
Alignment explanation
Indices: 45730278--45730984 Score: 974
Period size: 100 Copynumber: 7.1 Consensus size: 100
45730268 TTCAGTCGAA
* * * ** * * *
45730278 TTAACTGCAATGTCGGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTCCACTACACTGCCT
1 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
* * * * *
45730343 GAGAGGTAAGGTTTGTCGTTGTGGCCTCAATC-TT
66 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
* * * * **
45730377 TTAATTACAATGTCGAGGG-AGCAAGATTCGACGTCGTAGCTTCAATCTGTTCTGCTGCACCGCC
1 TTAATTGCAATGTCG-GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCC
*
45730441 TGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTTT
65 TGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
* *
45730477 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCGCTGCACCGCCT
1 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
45730542 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
* *
45730577 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCGCTGCACCGCCT
1 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
45730642 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
* * *
45730677 TTAATTGCAATGTCGGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGCCT
1 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
* *
45730742 GGGAAGTAAGATTCACCATTGTGGCCTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
* * ** * ** *
45730777 TTAATTGCAATGTTGGGGAAGTAATTTTCACTGTTGTAGCTTTAA-CTGTTCCACTGCACCGCCT
1 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
* * *
45730841 GGGAAGTAAGATTCACCATTGCGGCCTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
*
45730876 TTAATTGTAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCC
1 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCG-CC
* *
45730941 T-GGAAGTAAGATTCGCCATGGTGGCCTCAATC-TT
65 TGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
45730975 TTAATTGCAA
1 TTAATTGCAA
45730985 ACTATGGTTT
Statistics
Matches: 550, Mismatches: 53, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
99 177 0.32
100 370 0.67
101 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (100 bp):
TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
GGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
Found at i:45737578 original size:33 final size:33
Alignment explanation
Indices: 45737541--45737606 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
45737531 TGCTATCCTT
* * *
45737541 GTAGGGAAAGGATATAGGTTATTGGATTATGAC
1 GTAGGGAAAAGATACAGGTTATTAGATTATGAC
*
45737574 GTAGGGAAAAGATACAGGTTTTTAGATTATGAC
1 GTAGGGAAAAGATACAGGTTATTAGATTATGAC
45737607 CCTTGGTGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (33 bp):
GTAGGGAAAAGATACAGGTTATTAGATTATGAC
Found at i:45739083 original size:17 final size:18
Alignment explanation
Indices: 45739058--45739091 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45739048 TGTATTTTTG
*
45739058 AAATGATAAAT-ATTTAT
1 AAATAATAAATAATTTAT
45739075 AAATAATAAATAATTTA
1 AAATAATAAATAATTTA
45739092 CAATCAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATAATAAATAATTTAT
Found at i:45739538 original size:25 final size:25
Alignment explanation
Indices: 45739510--45739584 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
45739500 ATTTATACCT
45739510 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
*
45739535 GAATATATA--T-ATACAT--ATTC
1 GAATACATAGCTAATACATACATTC
45739555 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
45739580 GAATA
1 GAATA
45739585 TATATACATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 12 0.28
22 7 0.16
23 7 0.16
25 17 0.40
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
GAATACATAGCTAATACATACATTC
Found at i:45739556 original size:20 final size:21
Alignment explanation
Indices: 45739523--45739590 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 21
45739513 TACATAGCTA
45739523 ATACATACATTCGAATATATAT
1 ATACATA-ATTCGAATATATAT
*
45739545 ATACAT-ATTCGAATACATAGCT
1 ATACATAATTCGAATATATA--T
45739567 AATACATACATTCGAATATATAT
1 -ATACATA-ATTCGAATATATAT
45739590 A
1 A
45739591 CATATTCATC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 12 0.31
22 8 0.21
23 7 0.18
25 12 0.31
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (21 bp):
ATACATAATTCGAATATATAT
Found at i:45739563 original size:45 final size:43
Alignment explanation
Indices: 45739510--45739597 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 43
45739500 ATTTATACCT
45739510 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCG-A-ATATATATACATATTC
45739555 GAATACATAGCTAATACATACATTCGAATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATACATATTC
45739598 ATCATATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 16 0.37
44 1 0.02
45 26 0.60
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (43 bp):
GAATACATAGCTAATACATACATTCGAATATATATACATATTC
Found at i:45740049 original size:41 final size:41
Alignment explanation
Indices: 45739947--45740055 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 41
45739937 ACCGGCTTTT
* * * * * *
45739947 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
* * *
45739988 AGCCTACTAGACGTAAAGTCTGAATTATTTCATCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
45740029 AGCCTGCTAGACGTAAAGTCTGTATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTA
45740056 CATTCGATCA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
Found at i:45743028 original size:107 final size:107
Alignment explanation
Indices: 45742842--45743334 Score: 842
Period size: 107 Copynumber: 4.5 Consensus size: 107
45742832 CACAGTTTTA
* * * * * *
45742842 AATGTTTTGCGTTTGGAAATTCGAGGAACCATGCCCTAATGTGCTAGGTTTCGATTTTCTCGTTC
1 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
45742907 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
66 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
45742949 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
1 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
45743014 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATTTTAAAATAAGGC
66 GACCAAATAGCCAAATATCC--------TTTTAAAATTTTAAAATAAGGC
45743064 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
1 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
45743129 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
66 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
45743171 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
1 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
45743236 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
66 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
* *
45743278 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTACTGGGTTTCGATTT
1 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
45743335 CTCGTTGGAC
Statistics
Matches: 370, Mismatches: 8, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
107 263 0.71
115 107 0.29
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (107 bp):
AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGC
Found at i:45743045 original size:8 final size:8
Alignment explanation
Indices: 45743034--45743058 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45743024 CCAAATATCC
45743034 TTTTAAAA
1 TTTTAAAA
45743042 TTTTAAAA
1 TTTTAAAA
45743050 TTTTAAAA
1 TTTTAAAA
45743058 T
1 T
45743059 AAGGCAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:45743228 original size:222 final size:214
Alignment explanation
Indices: 45742842--45743345 Score: 857
Period size: 222 Copynumber: 2.3 Consensus size: 214
45742832 CACAGTTTTA
* * * *
45742842 AATGTTTTGCGTTTGGAAATTCGAGGAACCATGCCCTAATGTGCTAGGTTTCGATTTTCTCGTTC
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTC
45742907 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCG
66 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCG
45742972 AGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTCGACCAAATAGCCAAATATCCTTT
131 AGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTCGACCAAATAGCCAAATATCC---
45743037 TAAAATTTTAAAATTTTAAAATAAGGC
193 -----TTTTAAAATTTTAAAATAAGGC
* *
45743064 AATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTC
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTC
45743129 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCG
66 GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCG
45743194 AGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTCGACCAAATAGCCAAATATCCTTT
131 AGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTCGACCAAATAGCCAAATATCCTTT
45743259 TAAAATTTTAAAATAAGGC
196 TAAAATTTTAAAATAAGGC
* *
45743278 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTACTGGGTTTCGA-TTTCTCGTTG
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTC
45743342 GACC
66 GACC
45743346 GAATGGATAA
Statistics
Matches: 272, Mismatches: 10, Indels: 9
0.93 0.03 0.03
Matches are distributed among these distances:
213 12 0.04
214 74 0.27
222 186 0.68
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (214 bp):
AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTC
GACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCG
AGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTTGTTCGACCAAATAGCCAAATATCCTTT
TAAAATTTTAAAATAAGGC
Found at i:45760217 original size:19 final size:18
Alignment explanation
Indices: 45760182--45760217 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45760172 GAAGCAAGCT
*
45760182 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
45760200 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
45760218 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:45772288 original size:17 final size:17
Alignment explanation
Indices: 45772266--45772310 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
45772256 TATTCTTTTG
45772266 AATAAAAAATTATATTA
1 AATAAAAAATTATATTA
* *
45772283 AATAAAAAA-AATATTT
1 AATAAAAAATTATATTA
45772299 AATATAAAAATT
1 AATA-AAAAATT
45772311 TGATGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAAAAATTATATTA
Found at i:45772292 original size:18 final size:18
Alignment explanation
Indices: 45772269--45772308 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
45772259 TCTTTTGAAT
*
45772269 AAAAAATTATATTAA-ATA
1 AAAAAAATAT-TTAATATA
45772287 AAAAAAATATTTAATATA
1 AAAAAAATATTTAATATA
45772305 AAAA
1 AAAA
45772309 TTTGATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAAATATTTAATATA
Found at i:45772358 original size:31 final size:31
Alignment explanation
Indices: 45772316--45772378 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
45772306 AAATTTGATG
* * *
45772316 ATTATTGATAGAGAGTGGATGAAACATGTTA
1 ATTATTAATAGAGAGTGAATGAAAAATGTTA
45772347 ATTATTAATAGAGAGTGAATGAAAAATGTTA
1 ATTATTAATAGAGAGTGAATGAAAAATGTTA
45772378 A
1 A
45772379 GAAGTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.32
Consensus pattern (31 bp):
ATTATTAATAGAGAGTGAATGAAAAATGTTA
Found at i:45779615 original size:16 final size:16
Alignment explanation
Indices: 45779591--45779629 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
45779581 GAAAAAATTA
*
45779591 AATATAAAAAATGAAGG
1 AATA-AAAAAATAAAGG
45779608 AATAAAAAAATAAAGG
1 AATAAAAAAATAAAGG
45779624 AATAAA
1 AATAAA
45779630 GGAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (16 bp):
AATAAAAAAATAAAGG
Found at i:45779672 original size:4 final size:4
Alignment explanation
Indices: 45779637--45779726 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
45779627 AAAGGAATTA
* * * *
45779637 AAAT AAA- AAGT AAAT AAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
** * *
45779683 AAGC AAGT AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAA
45779727 AGGAAATAGT
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
3 9 0.14
4 52 0.79
5 5 0.08
ACGTcount: A:0.68, C:0.01, G:0.09, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:45781293 original size:44 final size:44
Alignment explanation
Indices: 45781239--45781357 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
45781229 TCATTTTAAC
* * * * * *
45781239 CCACTACAACTTCATAGATATAGGATTTGTTGCTTCAATCTGCT
1 CCACTACAACTTCAGAGAGATAAGACTTGTAGCTTCAATCTACT
* *
45781283 CCACTTCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTACT
1 CCACTACAACTTCAGAGAGATAAGACTTGTAGCTTCAATCTACT
* * *
45781327 CCACTGCAACTTCAGGGAGATAAGATTTGTA
1 CCACTACAACTTCAGAGAGATAAGACTTGTA
45781358 ACTTGTAGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
CCACTACAACTTCAGAGAGATAAGACTTGTAGCTTCAATCTACT
Found at i:45781366 original size:51 final size:51
Alignment explanation
Indices: 45781307--45781691 Score: 335
Period size: 51 Copynumber: 8.0 Consensus size: 51
45781297 GGGAGATAAG
* *
45781307 ACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* * * * *
45781358 ACTTGTAGCTTTAATCTGTTCCACTGCAACCTCAAGAAAATAAGATTTGT-
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* * * **
45781408 A---GT---TTCAATCTGCTTCACTGCAACTTGAGGGAGATAAGATTTAAA
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* *
45781453 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTG-A
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* * * * *
45781503 A-----A-CTTCAATATGCTCCATTGCAACATCAGGAAAATAAAATTTGTA
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* * * * * *
45781548 ACTTGTAGTTTTAATTTGTTCCACTGCAACTTTAGGGAAATAAAATTTG--
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* *
45781597 A-----AGCTTCAATCTGCTCCACTGCGACTTCAGGGAGATAAGATTTGTA
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
* * * * *
45781643 ACTTGTAGTTTTAATCTGTTCCATTGCAACTTTAGGGAAATAAGATTTG
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG
45781692 AAGCTCCAAT
Statistics
Matches: 260, Mismatches: 53, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
44 100 0.38
45 4 0.02
46 1 0.00
47 2 0.01
48 2 0.01
49 1 0.00
50 4 0.02
51 146 0.56
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
Found at i:45781408 original size:95 final size:95
Alignment explanation
Indices: 45781265--45781736 Score: 604
Period size: 95 Copynumber: 5.0 Consensus size: 95
45781255 GATATAGGAT
* * * * * * * *
45781265 TTGTTGCTTCAATCTGCTCCACTTCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTACTCCA
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAGCTTCAATCTGCTCCA
45781330 CTGCAACTTCAGGGAGATAAGATTTGTAAC
66 CTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * * * *
45781360 TTGTAGCTTTAATCTGTTCCACTGCAACCTCAAGAAAATAAGATTTGTAGTTTCAATCTGCTTCA
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAGCTTCAATCTGCTCCA
* **
45781425 CTGCAACTTGAGGGAGATAAGATTTAAAAC
66 CTGCAACTTCAGGGAGATAAGATTTGTAAC
* *
45781455 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAACTTCAATATGCTCCA
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAGCTTCAATCTGCTCCA
* * * * *
45781520 TTGCAACATCAGGAAAATAAAATTTGTAAC
66 CTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * *
45781550 TTGTAGTTTTAATTTGTTCCACTGCAACTTTAGGGAAATAAAATTTGAAGCTTCAATCTGCTCCA
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAGCTTCAATCTGCTCCA
*
45781615 CTGCGACTTCAGGGAGATAAGATTTGTAAC
66 CTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * *
45781645 TTGTAGTTTTAATCTGTTCCATTGCAACTTTAGGGAAATAAGATTTGAAGCTCCAATCTGCTCCA
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAGCTTCAATCTGCTCCA
** *
45781710 CTATAAC-ACTAGGGAGATAAGATTTGT
66 CTGCAACTTC-AGGGAGATAAGATTTGT
45781737 GGCTTTAATC
Statistics
Matches: 325, Mismatches: 51, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
94 1 0.00
95 324 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (95 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGAAGCTTCAATCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTTGTAAC
Found at i:45781445 original size:44 final size:44
Alignment explanation
Indices: 45781262--45781777 Score: 218
Period size: 44 Copynumber: 11.1 Consensus size: 44
45781252 ATAGATATAG
* * * *
45781262 GATTTGTTGCTTCAATCTGCTCCACTTCAACTTCAGGGAGATAA
1 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTCAGGGAGATAA
* * * *
45781306 GACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTCAGGGAGATAA
* * * * *
45781350 GATTTGTAACTTGTAGCTTTAATCTG-TTCCACTGCAACCTCAAGAAAATAA
1 GATTTGT-A---GT---TTCAATCTGCTT-CACTGCAACTTCAGGGAGATAA
*
45781401 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTGAGGGAGATAA
1 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTCAGGGAGATAA
*
45781445 GATTTAAAACTTGTAGCTTT-AATCTG-TTCCACTGCAACTTCAGGGAAATAA
1 GA--T-----TTGTAG-TTTCAATCTGCTT-CACTGCAACTTCAGGGAGATAA
* ** * * * * * *
45781496 GATTTGAAACTTCAATATGCTCCATTGCAACATCAGGAAAATAAAA
1 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTCAGGGAGAT--AA
* * * * *
45781542 TTTGTAACTTGTAGTTTTAATTTG-TTCCACTGCAACTTTAGGGAAATAA
1 ---G--ATTTGTAGTTTCAATCTGCTT-CACTGCAACTTCAGGGAGATAA
* * * * *
45781591 AATTTGAAGCTTCAATCTGCTCCACTGCGACTTCAGGGAGATAA
1 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTCAGGGAGATAA
* * * *
45781635 GATTTGTAACTTGTAGTTTTAATCTG-TTCCATTGCAACTTTAGGGAAATAA
1 GA----T---TTGTAGTTTCAATCTGCTT-CACTGCAACTTCAGGGAGATAA
* * * * ** *
45781686 GATTTGAAGCTCCAATCTGCTCCACTATAAC-ACTAGGGAGATAA
1 GATTTGTAGTTTCAATCTGCTTCACTGCAACTTC-AGGGAGATAA
* * * * *
45781730 GATTTGTGGCTTT-AATCTACTTTACTACAACTGCAGGGAGATAA
1 GATTTGTAG-TTTCAATCTGCTTCACTGCAACTTCAGGGAGATAA
45781774 GATT
1 GATT
45781778 CGCCACGATG
Statistics
Matches: 352, Mismatches: 79, Indels: 82
0.69 0.15 0.16
Matches are distributed among these distances:
43 2 0.01
44 194 0.55
45 8 0.02
46 3 0.01
47 3 0.01
48 2 0.01
49 4 0.01
50 6 0.02
51 127 0.36
52 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (44 bp):
GATTTGTAGTTTCAATCTGCTTCACTGCAACTTCAGGGAGATAA
Found at i:45786288 original size:7 final size:7
Alignment explanation
Indices: 45786274--45786303 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
45786264 AAGATGTATT
45786274 ATCATTC
1 ATCATTC
*
45786281 ACCATTC
1 ATCATTC
45786288 ATCATTC
1 ATCATTC
45786295 ATCATTC
1 ATCATTC
45786302 AT
1 AT
45786304 GGTTTTTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (7 bp):
ATCATTC
Found at i:45787433 original size:20 final size:19
Alignment explanation
Indices: 45787408--45787445 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
45787398 ATGTCATAAG
45787408 GAAAAGCAAAATTACAAAAA
1 GAAAAG-AAAATTACAAAAA
*
45787428 GAAAAGTAAATTACAAAA
1 GAAAAGAAAATTACAAAA
45787446 CATGTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.13
Consensus pattern (19 bp):
GAAAAGAAAATTACAAAAA
Found at i:45794514 original size:5 final size:5
Alignment explanation
Indices: 45794506--45794532 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45794496 TTTTTTATTT
45794506 TTAAA TTAAA TTAAA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TT
45794533 TTATTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:45794725 original size:3 final size:3
Alignment explanation
Indices: 45794717--45794744 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45794707 TTTTAATTAA
45794717 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45794745 TAACTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45795567 original size:3 final size:3
Alignment explanation
Indices: 45795552--45795582 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
45795542 TCACGTAGTT
45795552 TTC TTC TTGC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC
45795583 ATTTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:45803924 original size:12 final size:12
Alignment explanation
Indices: 45803899--45803936 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
45803889 ATAAAATCTA
45803899 TATTTTTTATTT
1 TATTTTTTATTT
45803911 TATTTATTTA-TT
1 TATTT-TTTATTT
45803923 TATTTTTCTATTT
1 TATTTTT-TATTT
45803936 T
1 T
45803937 TCTATTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.09
12 14 0.61
13 7 0.30
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:45803942 original size:16 final size:16
Alignment explanation
Indices: 45803899--45803942 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
45803889 ATAAAATCTA
*
45803899 TATTTTTTATTTTATT
1 TATTTTTTATTTTATC
45803915 TATTTATTTATTTT-TC
1 TATTT-TTTATTTTATC
45803931 TATTTTTCTATT
1 TATTTTT-TATT
45803943 ACTTTGCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 8 0.32
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTATTTTATC
Found at i:45807618 original size:21 final size:21
Alignment explanation
Indices: 45807589--45807628 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45807579 TTAATGGCAC
45807589 TTTGAAATTTGGAATTTAGAT
1 TTTGAAATTTGGAATTTAGAT
* *
45807610 TTTGGAATTTGGAGTTTAG
1 TTTGAAATTTGGAATTTAG
45807629 CTCTCAGAAG
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:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTGAAATTTGGAATTTAGAT
Found at i:45809681 original size:3 final size:3
Alignment explanation
Indices: 45809675--45809714 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
45809665 TATTTTTTTA
45809675 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
45809715 CCATTACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:45824259 original size:115 final size:111
Alignment explanation
Indices: 45824041--45824251 Score: 289
Period size: 115 Copynumber: 1.8 Consensus size: 111
45824031 TTTTCTGAAA
* * * *
45824041 ATACAATTTTTTTTAATTTTGGTTTCTAATTTTCAAAAAAAAATCAAGAATTTTCTTTTAAATCT
1 ATACAATTTTTTTCAATTCTGGTTTCTAATTTTAAAAAAAAAATCAAGAATTTTATTTTAAATCT
45824106 TTTTGTGCTTATAAATAACAACATGCATACAAAAAAAAAGGTAAAAG
66 TTTTGTGCTTATAAATAACAACATGCA-ACAAAAAAAAAGGTAAAAG
*
45824153 ATACAA-TTTTTTCAATTCTGGTTTCTAATTTTGAAAAGAAAAAAAATCAATAATTTTATTTTAA
1 ATACAATTTTTTTCAATTCTGGTTTCTAATTTT---AA-AAAAAAAATCAAGAATTTTATTTTAA
*
45824217 ATATTTTTTGTGCTTAATGAAATAACAACATGCAA
62 AT-CTTTTTGTGCTT-AT-AAATAACAACATGCAA
45824252 ACCAAAAACA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
111 24 0.28
112 6 0.07
114 1 0.01
115 26 0.30
116 11 0.13
117 3 0.03
118 15 0.17
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (111 bp):
ATACAATTTTTTTCAATTCTGGTTTCTAATTTTAAAAAAAAAATCAAGAATTTTATTTTAAATCT
TTTTGTGCTTATAAATAACAACATGCAACAAAAAAAAAGGTAAAAG
Found at i:45824399 original size:137 final size:137
Alignment explanation
Indices: 45824145--45824399 Score: 352
Period size: 139 Copynumber: 1.8 Consensus size: 137
45824135 CAAAAAAAAA
* * *
45824145 GGTAAAAGATACAATTTTTTCAATTCTGGTTTCTAATTTTGAAAAGAAAAAAAATCAATAATTTT
1 GGTAAAAGATACAATTTTTTCAATTCTGGTTTCTAATTTTCAAAAG--AAAAAATCAAGAATCTT
*
45824210 ATTTTAAATATTTTTTGTGCTTAATGAAATAACAACATGCAAACCAAAAACAAAAATAAGTGAAA
64 ATTTTAAATATTTTTTGTGCTTAATAAAATAACAACATGCAAACCAAAAACAAAAATAAGTGAAA
45824275 AGAATTTTC
129 AGAATTTTC
* * * *
45824284 GGTAGAAGATACAATTTTTGT-AATTCTGGTTTTTTATTTTCAAAAG-AAACATCAAGAATCTTA
1 GGTAAAAGATACAATTTTT-TCAATTCTGGTTTCTAATTTTCAAAAGAAAAAATCAAGAATCTTA
* * * *
45824347 TTTTAAATCTTTTTTTGTGTTTAATAAAATAACAACATGTAAACCAATAACAA
65 TTTTAAAT-ATTTTTTGTGCTTAATAAAATAACAACATGCAAACCAAAAACAA
45824400 GTGAAAAGGG
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
136 22 0.22
137 39 0.38
139 40 0.39
140 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (137 bp):
GGTAAAAGATACAATTTTTTCAATTCTGGTTTCTAATTTTCAAAAGAAAAAATCAAGAATCTTAT
TTTAAATATTTTTTGTGCTTAATAAAATAACAACATGCAAACCAAAAACAAAAATAAGTGAAAAG
AATTTTC
Found at i:45831737 original size:32 final size:33
Alignment explanation
Indices: 45831701--45831787 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
45831691 ACTTTTACGA
* *
45831701 AAAATATTTT-CAGGAAATC-TGCCAAACAGCAG
1 AAAATATTTTACAGTAAATCAT-CCAAACACCAG
*
45831733 AAAATATTTTACA-TAGATTCATCCAAACACCAG
1 AAAATATTTTACAGTA-AATCATCCAAACACCAG
*
45831766 AAAATATTTTCCAGTAAATCAT
1 AAAATATTTTACAGTAAATCAT
45831788 TTTACAGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 11 0.24
33 32 0.70
34 3 0.07
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (33 bp):
AAAATATTTTACAGTAAATCATCCAAACACCAG
Found at i:45831784 original size:14 final size:15
Alignment explanation
Indices: 45831762--45831838 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45831752 CATCCAAACA
45831762 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45831776 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45831791 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45831811 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
45831825 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
45831839 ATTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45831803 original size:20 final size:20
Alignment explanation
Indices: 45831778--45831817 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45831768 AATATTTTCC
*
45831778 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45831798 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45831818 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45831823 original size:34 final size:35
Alignment explanation
Indices: 45831766--45831832 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45831756 CAAACACCAG
*
45831766 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45831801 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45831833 CATTTTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45839866 original size:5 final size:5
Alignment explanation
Indices: 45839856--45839881 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45839846 TGAGCATTCG
45839856 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
45839882 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:45841613 original size:31 final size:31
Alignment explanation
Indices: 45841578--45841647 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
45841568 ATAAAAACTT
* * *
45841578 AAGTATCAAATTGAACATTAAAATTAAATTC
1 AAGTACCAAATTAAACATTAAAACTAAATTC
*
45841609 AAGTACCGAATTAAACATTAAAACTAAATTC
1 AAGTACCAAATTAAACATTAAAACTAAATTC
45841640 AAGTACCA
1 AAGTACCA
45841648 GATAATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.27
Consensus pattern (31 bp):
AAGTACCAAATTAAACATTAAAACTAAATTC
Found at i:45844775 original size:3 final size:3
Alignment explanation
Indices: 45844767--45844802 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45844757 TGAATTGTAC
45844767 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
45844803 CTGTCTGCAA
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:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:45846500 original size:28 final size:26
Alignment explanation
Indices: 45846439--45846500 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
45846429 AATTTTCAAG
*
45846439 TAAAATTA-TAATTATTTTATATAAG
1 TAAAATTATTAATTATTTTATATAAA
*
45846464 TAAACTTATTAATTATCATTTAT-TAAA
1 TAAAATTATTAATTAT--TTTATATAAA
45846491 TAAAAATTAT
1 T-AAAATTAT
45846501 CTCAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 7 0.23
26 7 0.23
27 4 0.13
28 12 0.40
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAATTATTAATTATTTTATATAAA
Found at i:45846526 original size:16 final size:16
Alignment explanation
Indices: 45846489--45846533 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
45846479 TCATTTATTA
45846489 AATAAAA-ATTATCTC
1 AATAAAATATTATCTC
*
45846504 AATTAAAATATTATTTC
1 AA-TAAAATATTATCTC
45846521 AATAAAATGATTA
1 AATAAAAT-ATTA
45846534 AATTTCACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 13 0.50
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (16 bp):
AATAAAATATTATCTC
Found at i:45847824 original size:20 final size:20
Alignment explanation
Indices: 45847799--45847842 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
45847789 GAAAATTTAT
45847799 TAAAATTGGGTGACTAATTA
1 TAAAATTGGGTGACTAATTA
45847819 TAAAATTGGGTGACTAATTA
1 TAAAATTGGGTGACTAATTA
45847839 TAAA
1 TAAA
45847843 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (20 bp):
TAAAATTGGGTGACTAATTA
Found at i:45848417 original size:24 final size:21
Alignment explanation
Indices: 45848379--45848427 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 21
45848369 AAAAATTTAT
45848379 AAAATATAATATAATAAAATA
1 AAAATATAATATAATAAAATA
45848400 AAAATATATATTAGTAATAAAATA
1 AAAATATA-A-TA-TAATAAAATA
45848424 AAAA
1 AAAA
45848428 ATTGAGGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 2 0.08
24 14 0.56
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATATAATATAATAAAATA
Found at i:45848809 original size:3 final size:3
Alignment explanation
Indices: 45848796--45848892 Score: 87
Period size: 3 Copynumber: 33.7 Consensus size: 3
45848786 AGAGCCCTGG
* *
45848796 GAA GTA GAA GAA GAA GATA -AA -AA GAA GAA TAA G-A GAA GAA GAA
1 GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
45848839 GAA GAA GAA GAA AAA GAA GAA AAA GAA -AA CAA GAA G-A GGA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
45848885 GAA TAA GA
1 GAA GAA GA
45848893 GAAAATGGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
2 9 0.12
3 67 0.87
4 1 0.01
ACGTcount: A:0.67, C:0.01, G:0.28, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:45848832 original size:8 final size:8
Alignment explanation
Indices: 45848804--45848895 Score: 57
Period size: 8 Copynumber: 11.5 Consensus size: 8
45848794 GGGAAGTAGA
45848804 AGAAGAAG
1 AGAAGAAG
* *
45848812 ATAAAAAG
1 AGAAGAAG
*
45848820 AAGAATAAG
1 -AGAAGAAG
45848829 AGAAGAAG
1 AGAAGAAG
45848837 AAGAAGAAG
1 -AGAAGAAG
45848846 AAGAA-AA-
1 -AGAAGAAG
45848853 AGAAGAA-
1 AGAAGAAG
*
45848860 A-AAGAAA
1 AGAAGAAG
*
45848867 ACAAGAAG
1 AGAAGAAG
*
45848875 AGGAGAAG
1 AGAAGAAG
*
45848883 AAGAATAAG
1 -AGAAGAAG
45848892 AGAA
1 AGAA
45848896 AATGGAAGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
6 9 0.13
7 4 0.06
8 30 0.44
9 25 0.37
ACGTcount: A:0.68, C:0.01, G:0.27, T:0.03
Consensus pattern (8 bp):
AGAAGAAG
Done.