Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 163 of 410
Found at i:49821664 original size:27 final size:27
Alignment explanation
Indices: 49821634--49821831 Score: 265
Period size: 27 Copynumber: 7.3 Consensus size: 27
49821624 TATTGAAATG
* *
49821634 CCCTCGATTTGTAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
49821661 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
49821688 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
49821715 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
49821742 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
49821769 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
49821796 CCCTC-AGTTTACTA-AATTACCATTTTA
1 CCCTCGA-TTTA-TAGAATTACCGTTTTA
49821823 CCCTCGATT
1 CCCTCGATT
49821832 GTGAAATTAT
Statistics
Matches: 156, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 153 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:49821749 original size:81 final size:81
Alignment explanation
Indices: 49821634--49821831 Score: 310
Period size: 81 Copynumber: 2.4 Consensus size: 81
49821624 TATTGAAATG
* * * *
49821634 CCCTCGATTTGTAGAATTACCGTTTCACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
*
49821699 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
*
49821715 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
49821780 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
49821796 CCCTC-AGTTTACTA-AATTACCATTTTACCCTCGATT
1 CCCTCGA-TTTA-TAGAATTACCATTTTACCCTCGATT
49821832 GTGAAATTAT
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.01
81 106 0.97
82 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:49821893 original size:27 final size:27
Alignment explanation
Indices: 49821863--49821986 Score: 126
Period size: 27 Copynumber: 4.6 Consensus size: 27
49821853 TGTAGGATAG
49821863 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
49821890 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
49821917 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
49821944 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
49821971 AATTACAAAAATACCC
1 AATTACCAAAATACCC
49821987 TTGACTTTCT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.04
27 72 0.91
28 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:49821904 original size:54 final size:53
Alignment explanation
Indices: 49821821--49821962 Score: 137
Period size: 54 Copynumber: 2.7 Consensus size: 53
49821811 ATTACCATTT
* * *
49821821 TACCCTCGA-TTGTGAAATTATTGAAATACCCCTGTAGGAT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTATCGAAATACCCCTGTAGG-TGA-AATTACCAAAA
* * ** *
49821874 TACCC-CTAGTTTGTAAAATTATCGAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTATCGAAATACCCCT-GTAGGTGAAATTACCAAAA
* *
49821928 TACCCTCAATTTGTAAAATTACCAAAATACCCCTG
1 TACCCTCAATTTGTAAAATTATCGAAATACCCCTG
49821963 ATTTACAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.08
54 60 0.83
55 5 0.07
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTATCGAAATACCCCTGTAGGTGAAATTACCAAAA
Found at i:49821974 original size:54 final size:55
Alignment explanation
Indices: 49821863--49822043 Score: 154
Period size: 54 Copynumber: 3.3 Consensus size: 55
49821853 TGTAGGATAG
* * * * ***
49821863 AATTACCAAAATACCC-CTAGTTTGTAAAATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* *
49821917 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* * * * * * *
49821971 AATTACAAAAATACCCT-TGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTAAAA
1 AATTACCAAAATACCCTCT-AATTTGT-AAAATTACCA-AAATACCACTGATTTACAA
*
49822027 AATTACTAAAATACCCT
1 AATTACCAAAATACCCT
49822044 TGGTTTGTAG
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
54 58 0.56
55 7 0.07
56 38 0.37
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:49822038 original size:27 final size:27
Alignment explanation
Indices: 49821942--49822049 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
49821932 CTCAATTTGT
* * * *
49821942 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCTTGGTTTAA
* * *
49821969 AAAATTACAAAAATACCCTTGACTTTCTA
1 AAAATTACTAAAATACCCTTG-GTTT-AA
*
49821998 AAAATTA-TAGAAATACCATTGGTTTAA
1 AAAATTACTA-AAATACCCTTGGTTTAA
49822025 AAAATTACTAAAATACCCTTGGTTT
1 AAAATTACTAAAATACCCTTGGTTT
49822050 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
27 41 0.61
28 9 0.13
29 17 0.25
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTAA
Found at i:49822051 original size:110 final size:108
Alignment explanation
Indices: 49821863--49822069 Score: 243
Period size: 110 Copynumber: 1.9 Consensus size: 108
49821853 TGTAGGATAG
* * * * *** *
49821863 AATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGTTTGTGAAATTACCGAAA
1 AATTACAAAAATACCCCTACTTTCTAAAATTATAGAAATACCACTGGTTTAAAAAATTACCAAAA
*
49821928 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
66 TACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAA
* * *
49821971 AATTACAAAAATACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTAAAAAATTACTAA
1 AATTACAAAAATACCCCT-ACTTTCT-AAAATTATAGAAATACCACTGGTTTAAAAAATTACCAA
*** * *
49822036 AATACCCTTGGTTTGTAGATTTACCAAAACACCC
64 AATACCCTCAATTTGTAAAATTACCAAAACACCC
49822070 TTGTCGGATG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
108 16 0.20
109 5 0.06
110 59 0.74
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (108 bp):
AATTACAAAAATACCCCTACTTTCTAAAATTATAGAAATACCACTGGTTTAAAAAATTACCAAAA
TACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAA
Found at i:49822141 original size:27 final size:26
Alignment explanation
Indices: 49822080--49822167 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
49822070 TTGTCGGATG
* *
49822080 AAATGACTAAAATACCCCTAATAGGTA
1 AAATGACCATAATACCCCT-ATAGGTA
* *
49822107 AAAAGACCGTAA-AGCCCCTATAGGGTA
1 AAATGACCATAATA-CCCCTATA-GGTA
* *
49822134 AAGTGACCATAATACCCCTGTATGGTA
1 AAATGACCATAATACCCCTATA-GGTA
49822161 AAATGAC
1 AAATGAC
49822168 GAATATGCCC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.08
27 43 0.90
28 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATGACCATAATACCCCTATAGGTA
Found at i:49822993 original size:25 final size:25
Alignment explanation
Indices: 49822955--49823024 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
49822945 AGGAAATGCT
* *
49822955 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
49822980 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
49823005 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49823025 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:49823037 original size:24 final size:24
Alignment explanation
Indices: 49822954--49823049 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
49822944 GAGGAAATGC
*
49822954 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
49822979 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
49823003 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
49823027 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
49823050 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:49823048 original size:50 final size:50
Alignment explanation
Indices: 49822955--49823049 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
49822945 AGGAAATGCT
**
49822955 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
49823005 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
49823050 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:49823293 original size:31 final size:31
Alignment explanation
Indices: 49823244--49823388 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
49823234 CGCTTACAGT
*
49823244 AAAGGCTTCGG-CCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49823274 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
49823305 AAAGGCTTCGGACCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
49823336 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49823367 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
49823389 TCAAGACTAA
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 16 0.15
31 92 0.85
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:49824778 original size:16 final size:16
Alignment explanation
Indices: 49824757--49824789 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49824747 TGGTGGAGAT
49824757 TGCTTCTACTCTCATG
1 TGCTTCTACTCTCATG
49824773 TGCTTCTACTCTCATG
1 TGCTTCTACTCTCATG
49824789 T
1 T
49824790 TGGATGACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.45
Consensus pattern (16 bp):
TGCTTCTACTCTCATG
Found at i:49830440 original size:32 final size:32
Alignment explanation
Indices: 49830380--49830443 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
49830370 ATGAATACAA
*
49830380 AGGATATCAAACATGTTCTTCTATATCTCAAT
1 AGGATATCAAACATGTTCTTCTAAATCTCAAT
49830412 AGGATATCAAACCAT-TTCTT-TAAAATCTCAAT
1 AGGATATCAAA-CATGTTCTTCT-AAATCTCAAT
49830444 GGTTCATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 1 0.03
32 25 0.86
33 3 0.10
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (32 bp):
AGGATATCAAACATGTTCTTCTAAATCTCAAT
Found at i:49836776 original size:15 final size:16
Alignment explanation
Indices: 49836756--49836785 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49836746 TATTTGGCAA
49836756 TATAAAT-TATAATTT
1 TATAAATATATAATTT
49836771 TATAAATATATAATT
1 TATAAATATATAATT
49836786 ATAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAAATATATAATTT
Found at i:49836787 original size:22 final size:21
Alignment explanation
Indices: 49836754--49836809 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
49836744 TATATTTGGC
49836754 AATATA-AATTATAATTTTATA
1 AATATATAATTATAATTTTA-A
49836775 AATATATAATTATAATTTTAA
1 AATATATAATTATAATTTTAA
49836796 AATATAGTAATTAT
1 AATATA-TAATTAT
49836810 TATAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AATATATAATTATAATTTTAA
Found at i:49836815 original size:19 final size:19
Alignment explanation
Indices: 49836764--49836816 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
49836754 AATATAAATT
49836764 ATAATT-TTATAAATATATA
1 ATAATTATTATAAA-ATATA
* * *
49836783 ATTATAATTTTAAAATATA
1 ATAATTATTATAAAATATA
*
49836802 GTAATTATTATAAAA
1 ATAATTATTATAAAA
49836817 ATTATTAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATTATTATAAAATATA
Found at i:49836819 original size:12 final size:12
Alignment explanation
Indices: 49836804--49836844 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
49836794 AAAATATAGT
49836804 AATTATTATAAA
1 AATTATTATAAA
49836816 AATTATTA-AAA
1 AATTATTATAAA
49836827 AATTTATT-TAAA
1 AA-TTATTATAAA
49836839 CAATTA
1 -AATTA
49836845 ATAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.19
12 19 0.73
13 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
AATTATTATAAA
Found at i:49836991 original size:22 final size:22
Alignment explanation
Indices: 49836966--49837013 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 22
49836956 AGGAGATTAA
49836966 TAAAAGAACATATAAT-TATAT-T
1 TAAAA-AA-ATATAATGTATATCT
49836988 T-AAAAAATATAATGTATATCT
1 TAAAAAAATATAATGTATATCT
49837009 TAAAA
1 TAAAA
49837014 TTAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 5 0.22
22 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
TAAAAAAATATAATGTATATCT
Found at i:49836997 original size:19 final size:21
Alignment explanation
Indices: 49836975--49837013 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
49836965 ATAAAAGAAC
49836975 ATATAAT-TATAT-TTAAAAA
1 ATATAATGTATATCTTAAAAA
49836994 ATATAATGTATATCTTAAAA
1 ATATAATGTATATCTTAAAA
49837014 TTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (21 bp):
ATATAATGTATATCTTAAAAA
Found at i:49847250 original size:46 final size:43
Alignment explanation
Indices: 49847186--49847300 Score: 124
Period size: 37 Copynumber: 2.8 Consensus size: 43
49847176 TGTAACCCGC
49847186 CCATAA-TGAACT--GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGC--TCGCAT
49847229 CCATAAGTGAACTCGGACTCAACTCAA--AGCT---CTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCTCGCAT
*
49847267 CC-TAAGTGAACTCGGACTCAACT-AACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
49847301 ATGCCTAGTT
Statistics
Matches: 63, Mismatches: 1, Indels: 18
0.77 0.01 0.22
Matches are distributed among these distances:
36 2 0.03
37 21 0.33
38 11 0.17
40 1 0.02
43 6 0.10
44 10 0.16
46 12 0.19
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (43 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCTCGCAT
Found at i:49847815 original size:30 final size:30
Alignment explanation
Indices: 49847770--49847829 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49847760 ATTTAATACG
*
49847770 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
49847800 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
49847830 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:49855082 original size:29 final size:29
Alignment explanation
Indices: 49855048--49855125 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
49855038 GTGACGAGAT
* *
49855048 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
49855077 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
49855106 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
49855126 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:49861595 original size:14 final size:16
Alignment explanation
Indices: 49861566--49861597 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49861556 GGATTATGTA
49861566 GAAAAAATAAAGAAAT
1 GAAAAAATAAAGAAAT
49861582 GAAAAAA-AAA-AAAT
1 GAAAAAATAAAGAAAT
49861596 GA
1 GA
49861598 GCATGGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (16 bp):
GAAAAAATAAAGAAAT
Found at i:49862774 original size:29 final size:29
Alignment explanation
Indices: 49862740--49862817 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
49862730 GTGACGAGAT
* *
49862740 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
49862769 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
49862798 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
49862818 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:49869186 original size:27 final size:27
Alignment explanation
Indices: 49869151--49869212 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
49869141 TATACATCAC
49869151 ATAAGGGCAAAACAATCATCTTACCAT
1 ATAAGGGCAAAACAATCATCTTACCAT
* * * *
49869178 ATAAGGGCAAAATAGTCATTTTATCAT
1 ATAAGGGCAAAACAATCATCTTACCAT
49869205 ATATAGGG
1 ATA-AGGG
49869213 GGTCTAGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (27 bp):
ATAAGGGCAAAACAATCATCTTACCAT
Found at i:49874982 original size:31 final size:31
Alignment explanation
Indices: 49874941--49875004 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49874931 CCTTTTCACA
*
49874941 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
49874972 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
49875003 TT
1 TT
49875005 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:49875261 original size:24 final size:24
Alignment explanation
Indices: 49875197--49875361 Score: 221
Period size: 23 Copynumber: 7.0 Consensus size: 24
49875187 GCTTTATCAT
*
49875197 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
49875222 ACAACTGGGGTA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49875245 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
49875268 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49875292 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49875316 ATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49875339 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49875362 TCACTTCCTC
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
23 59 0.47
24 59 0.47
25 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49875361 original size:47 final size:48
Alignment explanation
Indices: 49875197--49875361 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 48
49875187 GCTTTATCAT
* * *
49875197 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGTA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
49875245 ATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
49875292 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
49875339 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49875362 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
46 13 0.12
47 62 0.59
48 30 0.29
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:49875435 original size:20 final size:20
Alignment explanation
Indices: 49875410--49875476 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
49875400 TTATGATTAC
49875410 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49875430 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49875450 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49875470 ACCATGT
1 ATCATGT
49875477 TTATCAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49875441 original size:11 final size:11
Alignment explanation
Indices: 49875410--49875465 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
49875400 TTATGATTAC
49875410 ATCATGTGCAT
1 ATCATGTGCAT
*
49875421 ATCA--TACAT
1 ATCATGTGCAT
49875430 ATCATGTGCAT
1 ATCATGTGCAT
*
49875441 ATCA--TACAT
1 ATCATGTGCAT
*
49875450 GTCATGTGCAT
1 ATCATGTGCAT
49875461 ATCAT
1 ATCAT
49875466 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:49875545 original size:25 final size:25
Alignment explanation
Indices: 49875513--49875560 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49875503 ATACATAAAC
* * *
49875513 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
49875538 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49875561 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:49876821 original size:27 final size:27
Alignment explanation
Indices: 49876721--49876804 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
49876711 GGGCATATTC
* *
49876721 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
49876748 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49876775 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49876802 GTC
1 GTC
49876805 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:49876933 original size:56 final size:52
Alignment explanation
Indices: 49876866--49877057 Score: 172
Period size: 56 Copynumber: 3.6 Consensus size: 52
49876856 GTAAATCTAC
49876866 AAATCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTA
1 AAATCAAGGGTATTTCAGTAATTTTGTAAACCAA-GGTATTT-TGATAA-TTTTA
* * * * *
49876920 GAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTAA
1 -AAA-TCAAGGGTATTTCAGTAATTTTGTAAACCA-AGGTATTTTGATAATTTT-A
** * *** *
49876976 AAATTGAGGGTATTTCGGTAATTTCACAAACTAAGGTATTTTGATAATTTTA
1 AAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGTATTTTGATAATTTTA
* *
49877028 CAAA-CTAGGGTATTTTAGTAATTTTGTAAA
1 -AAATCAAGGGTATTTCAGTAATTTTGTAAA
49877058 TCGAGGGTAA
Statistics
Matches: 109, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
52 20 0.18
53 19 0.17
54 21 0.19
55 11 0.10
56 38 0.35
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (52 bp):
AAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGTATTTTGATAATTTTA
Found at i:49876936 original size:29 final size:28
Alignment explanation
Indices: 49876866--49877093 Score: 131
Period size: 27 Copynumber: 8.4 Consensus size: 28
49876856 GTAAATCTAC
49876866 AAATCAAGGGTATTTC-AGTAATTTTGT
1 AAATCAAGGGTATTTCTAGTAATTTTGT
* *
49876893 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAATCAAGGGTATTTCTAGTAATTTTGT
*
49876919 AGAAAGTCAAGGGTATTTCT-GTAACTTTGT
1 --AAA-TCAAGGGTATTTCTAGTAATTTTGT
* * **
49876949 AAATCAGGGGTATTT-TGGTAATTTTAA
1 AAATCAAGGGTATTTCTAGTAATTTTGT
** * ***
49876976 AAATTGAGGGTATTTC-GGTAATTTCAC
1 AAATCAAGGGTATTTCTAGTAATTTTGT
**
49877003 AAA-CTAA-GGTATTT-T-GATAATTTTAC
1 AAATC-AAGGGTATTTCTAG-TAATTTTGT
*
49877029 AAA-CTAGGGTATTT-TAGTAATTTTGT
1 AAATCAAGGGTATTTCTAGTAATTTTGT
* *** *
49877055 AAATCGAGGGTAAAAC-AGTAATTCTGT
1 AAATCAAGGGTATTTCTAGTAATTTTGT
49877082 AAATCAAGGGTA
1 AAATCAAGGGTA
49877094 AAATAGTAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
25 2 0.01
26 39 0.24
27 93 0.58
28 7 0.04
29 18 0.11
30 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (28 bp):
AAATCAAGGGTATTTCTAGTAATTTTGT
Found at i:49876979 original size:27 final size:26
Alignment explanation
Indices: 49876956--49877052 Score: 122
Period size: 26 Copynumber: 3.7 Consensus size: 26
49876946 TGTAAATCAG
* *
49876956 GGGTATTTTGGTAATTTTAAAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
* *
49876983 GGGTATTTCGGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
* *
49877009 AGGTATTTTGATAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
*
49877035 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
49877053 GTAAATCGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
26 38 0.64
27 21 0.36
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:49877074 original size:27 final size:27
Alignment explanation
Indices: 49877044--49877253 Score: 275
Period size: 27 Copynumber: 7.9 Consensus size: 27
49877034 AGGGTATTTT
*
49877044 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49877071 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49877098 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49877125 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49877152 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49877179 -GATAATTATGTAAATCAAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
49877206 GGTAATTATGTAAATCG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
49877232 -GATAATTCTGTAAATCG-GGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
49877254 CTTTGGTAAT
Statistics
Matches: 165, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
25 1 0.01
26 29 0.18
27 134 0.81
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49877289 original size:27 final size:26
Alignment explanation
Indices: 49877259--49877348 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
49877249 GGGTACTTTG
49877259 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
49877286 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
49877313 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
49877340 GTAATTTTA
1 GTAATTTTA
49877349 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:49877362 original size:27 final size:27
Alignment explanation
Indices: 49877259--49877363 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
49877249 GGGTACTTTG
* *
49877259 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
49877286 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
49877313 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
49877340 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
49877364 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:49879962 original size:31 final size:31
Alignment explanation
Indices: 49879921--49879984 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49879911 CCTTTTCATA
*
49879921 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
49879952 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
49879983 TT
1 TT
49879985 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:49880245 original size:24 final size:24
Alignment explanation
Indices: 49880177--49880340 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
49880167 GCTTTATCAT
*
49880177 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
49880202 A-AACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49880224 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
49880247 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49880271 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49880295 ATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49880318 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49880341 TCACTTCCTC
Statistics
Matches: 129, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
22 7 0.05
23 61 0.47
24 60 0.47
25 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49880340 original size:47 final size:47
Alignment explanation
Indices: 49880177--49880340 Score: 235
Period size: 47 Copynumber: 3.5 Consensus size: 47
49880167 GCTTTATCAT
* *
49880177 ATAACTGGAGGCCT-AGCCTCTTTTAAAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTATAACTGGGGCATAAGCCCTTTTA
* *
49880224 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
*
49880271 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTA
49880318 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49880341 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
46 19 0.18
47 72 0.67
48 16 0.15
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:49880414 original size:20 final size:20
Alignment explanation
Indices: 49880389--49880455 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
49880379 TTATGATTAC
49880389 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49880409 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49880429 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49880449 ACCATGT
1 ATCATGT
49880456 TTATCAAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49880420 original size:11 final size:11
Alignment explanation
Indices: 49880389--49880444 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
49880379 TTATGATTAC
49880389 ATCATGTGCAT
1 ATCATGTGCAT
*
49880400 ATCA--TACAT
1 ATCATGTGCAT
49880409 ATCATGTGCAT
1 ATCATGTGCAT
*
49880420 ATCA--TACAT
1 ATCATGTGCAT
*
49880429 GTCATGTGCAT
1 ATCATGTGCAT
49880440 ATCAT
1 ATCAT
49880445 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:49880523 original size:25 final size:25
Alignment explanation
Indices: 49880491--49880538 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49880481 ATACATAAAC
* * *
49880491 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
49880516 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49880539 CATGTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:49881708 original size:26 final size:27
Alignment explanation
Indices: 49881675--49881772 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
49881665 TCATACGAAA
*
49881675 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCACTTTAC
*
49881700 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
49881727 CCTACAGGGCT-TTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
49881753 CCTACAGGGGCT-TTACGGTC
1 CATACA-GGGCTATTACGGTC
49881773 TTTTTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
25 8 0.12
26 26 0.40
27 31 0.48
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCACTTTAC
Found at i:49881789 original size:27 final size:27
Alignment explanation
Indices: 49881690--49881772 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
49881680 GGGCATATTC
* *
49881690 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
49881717 GTCACTTTACCCTACA-GGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49881743 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49881770 GTC
1 GTC
49881773 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.46
27 28 0.54
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:49881864 original size:27 final size:27
Alignment explanation
Indices: 49881838--49882063 Score: 129
Period size: 27 Copynumber: 8.3 Consensus size: 27
49881828 ATCTACAAAC
*
49881838 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
49881865 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
49881894 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
49881921 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ***
49881948 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* **
49881974 CTAAGGGTATTT-TGATAATTTTACAAA-
1 C-AAGGGTATTTCAG-TAATTTTGTAAAT
* *
49882001 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* *** *
49882029 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
49882056 CAAGGGTA
1 CAAGGGTA
49882064 AAATAGTAAT
Statistics
Matches: 156, Mismatches: 33, Indels: 20
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.01
27 127 0.81
28 9 0.06
29 17 0.11
30 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:49882035 original size:54 final size:54
Alignment explanation
Indices: 49881811--49882036 Score: 195
Period size: 54 Copynumber: 4.1 Consensus size: 54
49881801 TTTCATCCTA
* * * * * *
49881811 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
* * * * *
49881865 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTGTAAAT
* * * * * * ***
49881921 CAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
* *
49881974 CTAAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
*
49882029 CGAGGGTA
1 CAAGGGTA
49882037 AAACAGTAAT
Statistics
Matches: 132, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
53 1 0.01
54 78 0.59
55 18 0.14
56 35 0.27
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:49882064 original size:27 final size:27
Alignment explanation
Indices: 49882014--49882225 Score: 250
Period size: 27 Copynumber: 7.9 Consensus size: 27
49882004 GGGGTATTTT
*
49882014 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49882041 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49882068 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
49882095 TGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49882122 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49882149 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
49882176 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49882203 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
49882226 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
26 3 0.02
27 160 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49882252 original size:27 final size:27
Alignment explanation
Indices: 49882231--49882320 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
49882221 GGGTACTTTG
*
49882231 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
49882258 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
49882285 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
49882312 GTAATTTTA
1 GTAATTTTA
49882321 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:49882272 original size:54 final size:54
Alignment explanation
Indices: 49882214--49882320 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
49882204 ATAATTCTGT
* * *
49882214 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
49882268 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
49882321 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:49882334 original size:27 final size:27
Alignment explanation
Indices: 49882231--49882335 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
49882221 GGGTACTTTG
* *
49882231 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
49882258 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
49882285 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
49882312 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
49882336 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:49884403 original size:27 final size:28
Alignment explanation
Indices: 49884372--49884429 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
49884362 CATCACATAG
49884372 GGGCAAAATAGTCATCTTACCATATA-A
1 GGGCAAAATAGTCATCTTACCATATATA
* *
49884399 GGGCAAAATAGTCATTTTATCATATATA
1 GGGCAAAATAGTCATCTTACCATATATA
49884427 GGG
1 GGG
49884430 GGTTTAGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (28 bp):
GGGCAAAATAGTCATCTTACCATATATA
Found at i:49887751 original size:40 final size:40
Alignment explanation
Indices: 49887693--49887860 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
49887683 CAATTGAATG
* *
49887693 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
49887734 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
49887773 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
49887813 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
49887853 ATATCCGG
1 ATATCCGG
49887861 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:49887831 original size:80 final size:79
Alignment explanation
Indices: 49887693--49887860 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
49887683 CAATTGAATG
* * *
49887693 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
49887758 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
49887773 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
49887837 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
49887853 ATATCCGG
1 ATATCCGG
49887861 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:49895333 original size:40 final size:40
Alignment explanation
Indices: 49895275--49895442 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
49895265 CAATTGAATG
* *
49895275 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
49895316 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
49895355 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
49895395 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
49895435 ATATCCGG
1 ATATCCGG
49895443 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:49895413 original size:80 final size:79
Alignment explanation
Indices: 49895275--49895442 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
49895265 CAATTGAATG
* * *
49895275 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
49895340 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
49895355 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
49895419 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
49895435 ATATCCGG
1 ATATCCGG
49895443 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:49903415 original size:29 final size:29
Alignment explanation
Indices: 49903382--49903513 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
49903372 GTGACGAGAT
49903382 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49903411 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
49903440 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49903469 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49903498 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49903514 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49916986 original size:29 final size:29
Alignment explanation
Indices: 49916952--49917083 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
49916942 TACTCGATTT
** * *
49916952 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
49916981 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
49917010 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49917039 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49917068 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49917084 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49923856 original size:78 final size:81
Alignment explanation
Indices: 49923747--49923928 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 81
49923737 TACTCGTTCA
* * *
49923747 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
49923810 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
49923826 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
49923889 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
49923905 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49923929 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:49923928 original size:40 final size:40
Alignment explanation
Indices: 49923745--49923928 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
49923735 GCTACTCGTT
* *
49923745 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
49923785 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
49923825 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
49923863 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
49923904 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49923929 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 21 0.16
40 68 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:49930241 original size:15 final size:15
Alignment explanation
Indices: 49930209--49930237 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49930199 ATTTTCTATG
49930209 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
49930224 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
49930238 ATTTTCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:49931240 original size:14 final size:15
Alignment explanation
Indices: 49931203--49931244 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
49931193 AAATACAAAC
49931203 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
49931219 TATA-ATGTGATA-G
1 TATATATGTGAAATG
49931232 TATATATGTGAAA
1 TATATATGTGAAA
49931245 GCCGAACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:49931536 original size:43 final size:43
Alignment explanation
Indices: 49931413--49931537 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 43
49931403 TTGCATTTAT
* *
49931413 ATATGTGATTACGTGTAAGACCATGTTTGGAACATTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTTTGGAACGTTGGCATCG
* *
49931456 -TATTTGATT-TGTGTAAGACC-C-TATCTGGAACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCACGT-T-TGGAAC-GTTGGCATCG
* *
49931497 ATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTTTGGAACGTTGGCAT
49931538 TGTAGATATG
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 24 0.36
42 17 0.26
43 20 0.30
44 2 0.03
45 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTTTGGAACGTTGGCATCG
Found at i:49933834 original size:25 final size:25
Alignment explanation
Indices: 49933800--49933876 Score: 120
Period size: 25 Copynumber: 3.1 Consensus size: 25
49933790 ACAAACGCAA
49933800 CTCTTTATGAGCGTCCTGATATAGG
1 CTCTTTATGAGCGTCCTGATATAGG
49933825 CTCTTTATGAGCGTCCTGATATAGG
1 CTCTTTATGAGCGTCCTGATATAGG
* * *
49933850 CTCTTTGTGAGCTTTCTGATAT-GG
1 CTCTTTATGAGCGTCCTGATATAGG
49933874 CTC
1 CTC
49933877 GCTTGAACTA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 5 0.10
25 44 0.90
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (25 bp):
CTCTTTATGAGCGTCCTGATATAGG
Found at i:49933967 original size:23 final size:24
Alignment explanation
Indices: 49933940--49933989 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
49933930 GAGTTACTTG
*
49933940 TTAAACTC-AATGAGCTTCTTATT
1 TTAAACTCTAATGAGCTTCCTATT
* *
49933963 TTAAACTCTTATGAGTTTCCTATT
1 TTAAACTCTAATGAGCTTCCTATT
49933987 TTA
1 TTA
49933990 GCCCGGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (24 bp):
TTAAACTCTAATGAGCTTCCTATT
Found at i:49937375 original size:24 final size:24
Alignment explanation
Indices: 49937348--49937400 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
49937338 AAGGTAACGT
49937348 GTTCATCATTAAGTTGCATGGTCA
1 GTTCATCATTAAGTTGCATGGTCA
*
49937372 GTTCATCATTAAGTTGCATTGTCA
1 GTTCATCATTAAGTTGCATGGTCA
49937396 GTTCA
1 GTTCA
49937401 CCTTTGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
GTTCATCATTAAGTTGCATGGTCA
Found at i:49946676 original size:21 final size:21
Alignment explanation
Indices: 49946650--49946690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49946640 TAATCAGTGT
* *
49946650 TTGCAGTAGAGCTGCTAGTAA
1 TTGCAGCAGAGCTGCCAGTAA
49946671 TTGCAGCAGAGCTGCCAGTA
1 TTGCAGCAGAGCTGCCAGTA
49946691 TAGTACACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
TTGCAGCAGAGCTGCCAGTAA
Found at i:49954361 original size:21 final size:21
Alignment explanation
Indices: 49954343--49954383 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49954333 TAATCAGTGT
49954343 TTGCAGCAGAGCTGCCAGTAA
1 TTGCAGCAGAGCTGCCAGTAA
*
49954364 TTGCAGTAGAGCTGCCAGTA
1 TTGCAGCAGAGCTGCCAGTA
49954384 CAGTACACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (21 bp):
TTGCAGCAGAGCTGCCAGTAA
Found at i:49970687 original size:32 final size:33
Alignment explanation
Indices: 49970627--49970690 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
49970617 CTATGGGCCA
49970627 TACTGTTATCTGAAAAGGGGCTCAGGCCCAGTT
1 TACTGTTATCTGAAAAGGGGCTCAGGCCCAGTT
49970660 TACTG-TATTCTGAAAA-GGGCTTC-GGCCCAGT
1 TACTGTTA-TCTGAAAAGGGGC-TCAGGCCCAGT
49970691 ACCCGCTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGGCTCAGGCCCAGTT
Found at i:49973086 original size:48 final size:48
Alignment explanation
Indices: 49972996--49973566 Score: 971
Period size: 48 Copynumber: 11.9 Consensus size: 48
49972986 TATATATGTG
* *
49972996 TGTGGTAAAGCCGAATGGCTAATGTGAAATATCTATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATA--TGTATGAGATATGTATA
49973046 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
49973094 TGTGGTGAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
49973142 TGTGGTGAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
49973190 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
49973238 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
49973286 TGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
49973334 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGAAATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
49973382 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
49973430 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
49973478 TGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
49973526 TTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
49973567 GTGTGTATAT
Statistics
Matches: 499, Mismatches: 22, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
48 469 0.94
50 30 0.06
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:49973757 original size:37 final size:37
Alignment explanation
Indices: 49973707--49973809 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
49973697 GGAAATATAT
49973707 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49973744 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49973781 TCTGGGTAAGACCCGATAACTACATGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
49973810 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49980948 original size:49 final size:48
Alignment explanation
Indices: 49980799--49980978 Score: 156
Period size: 49 Copynumber: 3.7 Consensus size: 48
49980789 GCATCAAAGT
49980799 CGATGCCATGTCCCAGACAGGTCTTACACT-GACTTCCATATA-TCGAGG-
1 CGATGCCATGTCCCAGACAGGTCTTACACTAG-CTT--ATATATTCGAGGC
* * * * * * *
49980847 CTATTGCCGTGTCCCAAATAGGTCTTATACTGGCTCCTATCTATT-G-GTGC
1 CGA-TGCCATGTCCCAGACAGGTCTTACACTAGCT--TATATATTCGAG-GC
* *
49980897 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTTTATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTATATAT-TCGAGGC
*
49980946 CGATG-CATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCT
49980979 CTTGTCTCAA
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
47 5 0.05
48 31 0.29
49 65 0.61
50 5 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTATATATTCGAGGC
Found at i:49981069 original size:48 final size:47
Alignment explanation
Indices: 49980895--49981116 Score: 186
Period size: 48 Copynumber: 4.7 Consensus size: 47
49980885 ATCTATTGGT
* *
49980895 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTTTATCTCGAG
1 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTTG-TTATCTCAAG
* * *
49980944 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TCTTGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTGTTATCTCAAG
* * * * *
49980990 GCCGATACATGTCCTA-AGCATGTATTACACTGGCTTGTATCTCTCAAG
1 GCCGATGCATGTCCCAGA-CATGTCTTACACTAGCTTGT-TATCTCAAG
* * * * * *
49981038 GCCGATGTATGTCCTAGACATGTTTTACACTGGCTCTCGTAATGT---G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-T-GTTATCTCAAG
* *
49981084 G-TGATGCATGTCCCAGACGTGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
49981117 ACACATATCA
Statistics
Matches: 143, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
45 27 0.19
46 37 0.26
47 3 0.02
48 63 0.44
49 11 0.08
50 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTGTTATCTCAAG
Found at i:49983594 original size:30 final size:30
Alignment explanation
Indices: 49983558--49983717 Score: 204
Period size: 29 Copynumber: 5.5 Consensus size: 30
49983548 GACAAGATAG
* * * * *
49983558 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49983588 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49983616 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49983645 GCACTAAGTGTGCGAGCTAAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49983675 GCACTAAATGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49983704 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49983718 GATTCACTAT
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 47 0.41
30 43 0.37
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49983687 original size:59 final size:57
Alignment explanation
Indices: 49983587--49983717 Score: 208
Period size: 59 Copynumber: 2.3 Consensus size: 57
49983577 AAAATTGTAC
*** *
49983587 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTAAAATTATATAGCACTAAATGTGCGAGCTGAAAATATAT
49983644 AGCACTAAGTGTGCGAGCTAAAAATTATATAGCACTAAATGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAG-T-AAAATTATATAGCACTAAATGTGCGAGCTGAAAATATAT
49983703 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49983718 GATTCACTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 17 0.25
58 1 0.01
59 50 0.74
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTAAAATTATATAGCACTAAATGTGCGAGCTGAAAATATAT
Found at i:49985645 original size:17 final size:17
Alignment explanation
Indices: 49985618--49985655 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49985608 CCCTTGTCCT
*
49985618 CTAAGGGGAAGTAGAAA
1 CTAAGGGGAAGAAGAAA
49985635 GCTAA-GGGAAGAAGAAA
1 -CTAAGGGGAAGAAGAAA
49985652 CTAA
1 CTAA
49985656 CTAAGTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 11 0.58
18 4 0.21
ACGTcount: A:0.50, C:0.08, G:0.32, T:0.11
Consensus pattern (17 bp):
CTAAGGGGAAGAAGAAA
Found at i:49987987 original size:50 final size:49
Alignment explanation
Indices: 49987881--49988010 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 49
49987871 CTGGTACGCA
* * * ** *
49987881 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGACACACG
* * *
49987930 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGACACACG
49987980 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
49988011 TTGAAGTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
49 29 0.41
50 41 0.59
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGACACACG
Found at i:49990034 original size:39 final size:39
Alignment explanation
Indices: 49989953--49990115 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
49989943 TATGGTAACC
* *
49989953 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
49989993 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49990032 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49990071 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
49990110 CGCACA
1 CGCACA
49990116 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50002821 original size:29 final size:29
Alignment explanation
Indices: 50002788--50003006 Score: 188
Period size: 29 Copynumber: 7.6 Consensus size: 29
50002778 GTGACGAGAT
50002788 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
50002817 TGGCACTAAGTGTGCATACTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50002846 TAGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
50002875 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * ** *
50002904 TGACACCATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
50002933 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * * * *
50002962 TGGCACTGTGTGTGCGGGCT-TAAATTGTG
1 TGGCACTAAGTGTGCGTGCTGGAAA-TATA
50002991 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50003007 AAATCGAGTA
Statistics
Matches: 156, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
28 2 0.01
29 154 0.99
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50002939 original size:87 final size:87
Alignment explanation
Indices: 50002789--50002948 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
50002779 TGACGAGATT
* * * * * *
50002789 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATACTGGAAATATATAGCACTA
1 GGCACTAAGTGTGCATGCTGGAAAAATATGACACCAAGTGTGCATACTGGAAAAATACAGCACTA
50002854 AGTGTGCGTGCTGGAAATATAA
66 AGTGTGCGTGCTGGAAATATAA
* *
50002876 GGCACTAAGTGTGCATGCTGGAAAAATATGACACCATGTGTGCA-AGCTGGAAAAATACGGCACT
1 GGCACTAAGTGTGCATGCTGGAAAAATATGACACCAAGTGTGCATA-CTGGAAAAATACAGCACT
**
50002940 GGGTGTGCG
65 AAGTGTGCG
50002949 AGCTCGAAGG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
86 1 0.02
87 61 0.98
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (87 bp):
GGCACTAAGTGTGCATGCTGGAAAAATATGACACCAAGTGTGCATACTGGAAAAATACAGCACTA
AGTGTGCGTGCTGGAAATATAA
Found at i:50005353 original size:40 final size:40
Alignment explanation
Indices: 50005296--50005441 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
50005286 TCGAATGATG
* * *
50005296 TCCGGGATAAGTTCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
*
50005336 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
50005376 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
* * *
50005417 -CCGGGCTATGTCCCGAAGACATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
50005442 AACGAGTAGC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 87 0.91
41 9 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:50005448 original size:80 final size:80
Alignment explanation
Indices: 50005296--50005464 Score: 202
Period size: 80 Copynumber: 2.1 Consensus size: 80
50005286 TCGAATGATG
* * * *
50005296 TCCGGGATAAGTTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGGCTAAGTCCCGAAGACATTT
**
50005361 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* *
50005376 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATAA-CCGGGCTATGTCCCGAAGACAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTA-AATCCGGGCTAAGTCCCGAAGACAT
*
50005439 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
50005456 TCC-GGTTAA
1 TCCGGGTTAA
50005465 ACTCCGAAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
79 8 0.10
80 60 0.78
81 9 0.12
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGGCTAAGTCCCGAAGACATTT
GAACGAGTAGCTAAA
Found at i:50010511 original size:21 final size:20
Alignment explanation
Indices: 50010469--50010528 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
50010459 AGCTTCCATC
50010469 AGCTCACTTGAGCTCGATTT
1 AGCTCACTTGAGCTCGATTT
* *
50010489 AGCTCGCTTGAGCTTGAATTT
1 AGCTCACTTGAGCTCG-ATTT
* *
50010510 AGCTCATTTCAGCTC-ATTT
1 AGCTCACTTGAGCTCGATTT
50010529 CTTCTTCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
21 15 0.45
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (20 bp):
AGCTCACTTGAGCTCGATTT
Found at i:50010756 original size:13 final size:13
Alignment explanation
Indices: 50010738--50010772 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
50010728 ATTATATGAA
*
50010738 TAATTATTTTATT
1 TAATTATGTTATT
50010751 TAATTATGTTATT
1 TAATTATGTTATT
50010764 TAATTATGT
1 TAATTATGT
50010773 AAGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:50018408 original size:54 final size:54
Alignment explanation
Indices: 50018298--50018474 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
50018288 TTAGTTTACC
* * * * * *
50018298 AAATTACTAAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCCTCAATTAT--A
1 AAATTACCAAAATACCCTCGATTTGCAAAAATACCGAAA-TACCCTCAGTT-TGCA
* *
50018350 AAATTACCCAAATACCCTCGATTTGCAAAAATATCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCTCGATTTGCAAAAATACCGAAATACCCTCAGTTTGCA
* * * *
50018404 AAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCTCGATTTGCAAAAATACCGAAATACCCTCAGTTTGCA
* *
50018458 AAATTACTAAAACACCC
1 AAATTACCAAAATACCC
50018475 CTGTAGGGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
52 16 0.15
53 22 0.21
54 67 0.64
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATTTGCAAAAATACCGAAATACCCTCAGTTTGCA
Found at i:50018474 original size:27 final size:27
Alignment explanation
Indices: 50018298--50018474 Score: 150
Period size: 27 Copynumber: 6.6 Consensus size: 27
50018288 TTAGTTTACC
* *
50018298 AAATTACTAAAATACCCCCAG-TTGTA
1 AAATTACTAAAATACCCTCAGTTTGCA
* * *
50018324 AAATTACCAAAGTACCCTCAATTAT--A
1 AAATTACTAAAATACCCTCAGTT-TGCA
**
50018350 AAATTACCCAAATACCCTC-GATTTGCA
1 AAATTACTAAAATACCCTCAG-TTTGCA
* *
50018377 AAAATA-TCGAAATACCCTCAGTTTGCA
1 AAATTACT-AAAATACCCTCAGTTTGCA
* *
50018404 AAATTACTAAAATACCTTC-GATTTGTA
1 AAATTACTAAAATACCCTCAG-TTTGCA
**
50018431 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTAAAATACCCTCAGTTTGCA
*
50018458 AAATTACTAAAACACCC
1 AAATTACTAAAATACCC
50018475 CTGTAGGGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
25 1 0.01
26 38 0.32
27 77 0.64
28 4 0.03
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAGTTTGCA
Found at i:50018490 original size:54 final size:54
Alignment explanation
Indices: 50018384--50018605 Score: 192
Period size: 54 Copynumber: 4.2 Consensus size: 54
50018374 GCAAAAATAT
* * ** *
50018384 CGAAATACCCTCAGTTTGCAAAATTACTAAAATA-CCTTCG-ATTTGTAAAATTAC
1 CGAAATACCCTCAGTTGGCAAAATTACTAAAATACCCCT-GTA-GGGTAGAATTAC
* *
50018438 CGAAATACCCTCAGTTTGCAAAATTACTAAAACACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTCAGTTGGCAAAATTACTAAAATACCCCTGTAGGGTAGAATTAC
* * * * * *
50018492 TGAAATAACCCT--GTAGGGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTAC
1 CGAAAT-ACCCTCAGT-TGGCAAAATTACTAAAATACCCCTGTAGGGTAGAATTAC
* * *
50018546 CGAAATA--C-CAG--GGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTCAGTTGGCAAAATTACTAAAATACCCCTGTAGGGTAGAATTAC
*
50018595 AGAAATACCCT
1 CGAAATACCCT
50018606 TGCATGGTAG
Statistics
Matches: 141, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
49 41 0.29
51 2 0.01
52 1 0.01
53 3 0.02
54 85 0.60
55 9 0.06
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (54 bp):
CGAAATACCCTCAGTTGGCAAAATTACTAAAATACCCCTGTAGGGTAGAATTAC
Found at i:50018580 original size:76 final size:79
Alignment explanation
Indices: 50018478--50018677 Score: 248
Period size: 76 Copynumber: 2.5 Consensus size: 79
50018468 AACACCCCTG
* *
50018478 TAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTACCA-AAATAACCC-TGTAGGGTAGA
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGAAAT-ACCCTTGCAGGGTAGA
*
50018541 ATTACCGAAATA-CC
65 AATACCGAAATACCC
*
50018555 -AGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CAGAAATACCCTTGCATGGTAGAA
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGAAATACCCTTGCAGGGTAGAA
50018618 ATACCGAAATACCC
66 ATACCGAAATACCC
* * * * *
50018632 TTTTAAGGTAGAATTACCGAGATACCCTTGTAGGGTAAAATTACCA
1 ---TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCA
50018678 TTTTGCCCCT
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
75 6 0.06
76 62 0.58
77 2 0.02
81 34 0.32
82 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (79 bp):
TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGAAATACCCTTGCAGGGTAGAA
ATACCGAAATACCC
Found at i:50018600 original size:103 final size:103
Alignment explanation
Indices: 50018459--50018657 Score: 276
Period size: 103 Copynumber: 1.9 Consensus size: 103
50018449 CAGTTTGCAA
* * *
50018459 AATTACTAAAACACCCCTGTAGGGTAGAATTACTGAAATAACCC-TGTAGGGTAGAATTACCAAA
1 AATTACTAAAACACCCCTGTAGGGTAGAATTACAGAAAT-ACCCTTGCAGGGTAGAAATACCAAA
*
50018523 ATAACCC-TGTAGGGTAGAATTACCGAAATACCAGGGTAG
65 AT-ACCCTTGTAAGGTAGAATTACCGAAATACCAGGGTAG
* * * *
50018562 AATTACTGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCTTGCATGGTAGAAATACCGAAA
1 AATTACTAAAACACCCCTGTAGGGTAGAATTACAGAAATACCCTTGCAGGGTAGAAATACCAAAA
* *
50018627 TACCCTTTTAAGGTAGAATTACCGAGATACC
66 TACCCTTGTAAGGTAGAATTACCGAAATACC
50018658 CTTGTAGGGT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 8 0.10
103 76 0.90
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (103 bp):
AATTACTAAAACACCCCTGTAGGGTAGAATTACAGAAATACCCTTGCAGGGTAGAAATACCAAAA
TACCCTTGTAAGGTAGAATTACCGAAATACCAGGGTAG
Found at i:50018676 original size:27 final size:26
Alignment explanation
Indices: 50018473--50018676 Score: 227
Period size: 27 Copynumber: 7.8 Consensus size: 26
50018463 ACTAAAACAC
*
50018473 CCCTGTAGGGTAGAATTACTGAAATAA
1 CCCTGTAGGGTAGAATTACCGAAAT-A
*
50018500 CCCTGTAGGGTAGAATTACCAAAATAA
1 CCCTGTAGGGTAGAATTACCGAAAT-A
50018527 CCCTGTAGGGTAGAATTACCGAAATA
1 CCCTGTAGGGTAGAATTACCGAAATA
*
50018553 -CC---AGGGTAGAATTACTGAAATA
1 CCCTGTAGGGTAGAATTACCGAAATA
*
50018575 CCCCTGTAGGGTAGAATTACAGAAATA
1 -CCCTGTAGGGTAGAATTACCGAAATA
* * *
50018602 CCCTTGCATGGTAGAAATACCGAAATA
1 CCC-TGTAGGGTAGAATTACCGAAATA
* * *
50018629 CCCTTTTAAGGTAGAATTACCGAGATA
1 CCC-TGTAGGGTAGAATTACCGAAATA
*
50018656 CCCTTGTAGGGTAAAATTACC
1 CCC-TGTAGGGTAGAATTACC
50018677 ATTTTGCCCC
Statistics
Matches: 154, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
22 19 0.12
24 2 0.01
25 2 0.01
26 4 0.03
27 127 0.82
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (26 bp):
CCCTGTAGGGTAGAATTACCGAAATA
Found at i:50018842 original size:16 final size:16
Alignment explanation
Indices: 50018821--50018851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50018811 CAAATATGGG
*
50018821 CATGACATTTTGCATA
1 CATGACATGTTGCATA
50018837 CATGACATGTTGCAT
1 CATGACATGTTGCAT
50018852 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:50018919 original size:24 final size:25
Alignment explanation
Indices: 50018882--50018950 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
50018872 AGGAAGTGCT
* *
50018882 AAAAGGGCTATGCCCCAGTTTA-CC
1 AAAAGGGCTTTGCCCCAGTTTATCA
* *
50018906 GAAAGGACTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
50018931 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
50018951 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:50019206 original size:31 final size:31
Alignment explanation
Indices: 50019171--50019241 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
50019161 CGTTTACAGT
*
50019171 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCACAATGATATGATTTATGA
*
50019202 AAAGGCTTCGGCACAGTGATATGATTTATGA
1 AAAGGCTTCGGCACAATGATATGATTTATGA
50019233 AAAGGCTTC
1 AAAGGCTTC
50019242 AACCTAGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCACAATGATATGATTTATGA
Found at i:50021550 original size:27 final size:27
Alignment explanation
Indices: 50021503--50021632 Score: 140
Period size: 27 Copynumber: 4.8 Consensus size: 27
50021493 ATACCCCCGG
50021503 TTGTAAAATTA-CCAAAGTACCCTC-AGT
1 TTGTAAAATTACCCAAA-TACCCTCGA-T
* * *
50021530 TTATAAAATTTCCCAAATACCCTCGAC
1 TTGTAAAATTACCCAAATACCCTCGAT
*
50021557 TTGTAAAATTACCGAAATACCCTC-AGT
1 TTGTAAAATTACCCAAATACCCTCGA-T
**
50021584 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCCAAATACCCTCGAT
**
50021611 TTGTAAAATTACTGAAATACCC
1 TTGTAAAATTACCCAAATACCC
50021633 CTGTAGGGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.01
27 83 0.91
28 7 0.08
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCCAAATACCCTCGAT
Found at i:50021579 original size:54 final size:54
Alignment explanation
Indices: 50021503--50021632 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
50021493 ATACCCCCGG
*
50021503 TTGTAAAATTACC-AAAGTACCCTCAGTTTATAAAATTTCCCAAATACCCTCGAC
1 TTGTAAAATTACCGAAA-TACCCTCAGTTTATAAAATTACCCAAATACCCTCGAC
* ** *
50021557 TTGTAAAATTACCGAAATACCCTCAGTTTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCAGTTTATAAAATTACCCAAATACCCTCGAC
*
50021611 TTGTAAAATTACTGAAATACCC
1 TTGTAAAATTACCGAAATACCC
50021633 CTGTAGGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
54 66 0.96
55 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCTCAGTTTATAAAATTACCCAAATACCCTCGAC
Found at i:50021647 original size:27 final size:27
Alignment explanation
Indices: 50021617--50021811 Score: 250
Period size: 27 Copynumber: 7.2 Consensus size: 27
50021607 CGATTTGTAA
50021617 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
50021644 AATTACTGAAATAACCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
50021671 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
50021698 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
50021725 AATTACAGAAATGCCCTTGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
50021752 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
50021779 AATTACCGAGATACCCTTGT-GGGTTAA
1 AATTACTGAAATACCCCTGTAGGG-TAG
50021806 AATTAC
1 AATTAC
50021812 CATTTGGCCC
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
26 4 0.03
27 143 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:50021812 original size:27 final size:27
Alignment explanation
Indices: 50021559--50021812 Score: 221
Period size: 27 Copynumber: 9.4 Consensus size: 27
50021549 CCCTCGACTT
* **
50021559 GTAAAATTACCGAAATACCCTCAGT-TT
1 GTAAAATTACCGAAATACCC-CTGTAGG
* **
50021586 GTAAAATTACTGAAATA-CCCTCG-ATTT
1 GTAAAATTACCGAAATACCCCT-GTA-GG
*
50021613 GTAAAATTACTGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* * * *
50021640 GTAGAATTACTGAAATAACCCTATAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* *
50021667 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* *
50021694 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* * * * *
50021721 GTAGAATTACAGAAATGCCCTTGTATG
1 GTAAAATTACCGAAATACCCCTGTAGG
50021748 GTAGAAA-TACCGAAATACCCCTGTAGG
1 GTA-AAATTACCGAAATACCCCTGTAGG
* * *
50021775 GTAGAATTACCGAGATACCCTTGT-GG
1 GTAAAATTACCGAAATACCCCTGTAGG
50021801 GTTAAAATTACC
1 G-TAAAATTACC
50021813 ATTTGGCCCT
Statistics
Matches: 193, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 8 0.04
27 177 0.92
28 7 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGTAGG
Found at i:50022090 original size:24 final size:25
Alignment explanation
Indices: 50022040--50022090 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
50022030 CAGTTTACCG
50022040 AAAGGACTTTGCCCCAGTTTATTAA
1 AAAGGACTTTGCCCCAGTTTATTAA
* *
50022065 AAAGGGCTTTGCCCTAG-TTATTAA
1 AAAGGACTTTGCCCCAGTTTATTAA
50022089 AA
1 AA
50022091 GAGGCTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (25 bp):
AAAGGACTTTGCCCCAGTTTATTAA
Found at i:50022096 original size:24 final size:25
Alignment explanation
Indices: 50022015--50022090 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 25
50022005 AGGAAGTGCT
* **
50022015 AAAAGGGCTATGCCCCAGTTTA-CC
1 AAAAGGGCTTTGCCCCAGTTTATTA
* *
50022039 GAAAGGACTTTGCCCCAGTTTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
*
50022064 AAAAGGGCTTTGCCCTAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
50022088 AAA
1 AAA
50022091 GAGGCTAGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 28 0.65
25 15 0.35
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTA
Found at i:50022298 original size:31 final size:31
Alignment explanation
Indices: 50022260--50022330 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
50022250 CGTTTACAGT
50022260 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCGACCCAATGATATGATTTATGA
* *
50022291 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGACCCAATGATATGATTTATGA
50022322 AAAGGCTTC
1 AAAGGCTTC
50022331 AGCCCAGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGACCCAATGATATGATTTATGA
Found at i:50022336 original size:31 final size:30
Alignment explanation
Indices: 50022260--50022338 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 30
50022250 CGTTTACAGT
*
50022260 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCG-CCCAGTGATATGATTTATGA
50022291 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-GCCCAGTGATATGATTTATGA
50022322 AAAGGCTTCAGCCCAGT
1 AAAGGCTTC-GCCCAGT
50022339 AACCGGAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 44 0.98
32 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTGATATGATTTATGA
Found at i:50024626 original size:27 final size:27
Alignment explanation
Indices: 50024568--50024718 Score: 157
Period size: 27 Copynumber: 5.6 Consensus size: 27
50024558 TTAGTTTACC
* * *
50024568 AAATTACTAAAATACCCCCG-GTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
*
50024594 AAATTAC-CAAAGTACCCTC-AGTTTATA
1 AAATTACTCAAA-TACCCTCGA-TTTGTA
*
50024621 AAATTACCCAAATACCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
50024648 AAATTACTGAAATACCCAC-AGTTTGCA
1 AAATTACTCAAATACCCTCGA-TTTGTA
*
50024675 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
*
50024702 AAATTACTGAAATACCC
1 AAATTACTCAAATACCC
50024719 CTGTAGGGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
25 3 0.03
26 14 0.13
27 84 0.79
28 6 0.06
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:50024670 original size:54 final size:54
Alignment explanation
Indices: 50024560--50024718 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 54
50024550 AGAATACTTT
* ** * * * *
50024560 AGTTTACCAAATTACTAAAATACCCCCG-GTTGTAAAATTAC-CAAAGTACCCTC
1 AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAA-TACCCAC
*
50024613 AGTTTATAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAATACCCAC
1 AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAATACCCAC
* **
50024667 AGTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCC
1 AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAATACCC
50024719 CTGTAGGGTA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 23 0.25
54 66 0.72
55 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAATACCCAC
Found at i:50024704 original size:81 final size:80
Alignment explanation
Indices: 50024568--50024718 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 80
50024558 TTAGTTTACC
* *
50024568 AAATTACTAAAATACCCCCGGTTGTAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAA
1 AAATTACTAAAATACCCCAGGTTGCAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAA
50024633 TACCCTCGATTTGTA
66 TACCCTCGATTTGTA
* * * * **
50024648 AAATTACTGAAATACCCACAGTTTGCAAAATTACTGAAA-TACCCTC-GATTTGTAAAATTACTG
1 AAATTACTAAAATACCC-CAGGTTGCAAAATTAC-CAAAGTACCCTCAG-TTTATAAAATTACCC
50024711 AAATACCC
63 AAATACCC
50024719 CTGTAGGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
80 17 0.28
81 40 0.67
82 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (80 bp):
AAATTACTAAAATACCCCAGGTTGCAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAA
TACCCTCGATTTGTA
Found at i:50024733 original size:27 final size:27
Alignment explanation
Indices: 50024703--50024898 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
50024693 CGATTTGTAA
*
50024703 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
50024730 AATTACTGAAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
50024757 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50024784 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
50024811 AATTACAGAAATGCCCTTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
50024838 AAATACCGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
50024865 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
50024892 AATTACC
1 AATTACC
50024899 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:50024734 original size:54 final size:55
Alignment explanation
Indices: 50024630--50024897 Score: 224
Period size: 54 Copynumber: 5.0 Consensus size: 55
50024620 AAAATTACCC
** * ** * *
50024630 AAATACCCTCGAT-TTGTAAAATTACTGAAATACCCACAGT-TTGCAAAATTACTG
1 AAATACCCTCGATAGGGTAAAATTACTGAAATACCC-CTGTAGGGTAGAATTACTG
**
50024684 AAATACCCTCGAT-TTGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTCGATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
* * * *
50024738 AAATAACCTTG-TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTCGATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
* * * * * * * *
50024792 AAATACCC-CTATAGGGTAGAATTACAGAAATGCCCTTGTATGGTAGAAATACCG
1 AAATACCCTCGATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
* * * * * * * *
50024846 AAATACCC-CTATAGGATAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTCGATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTAC
50024898 CATTTTGCCC
Statistics
Matches: 183, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.02
54 179 0.98
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (55 bp):
AAATACCCTCGATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
Found at i:50024890 original size:81 final size:81
Alignment explanation
Indices: 50024703--50024897 Score: 273
Period size: 81 Copynumber: 2.4 Consensus size: 81
50024693 CGATTTGTAA
* *
50024703 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCTTGTAGGGTAGAATTACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACAGAAATAACCTTGTAGGGTAGAAATACCGAAA
* *
50024768 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
* ** *
50024784 AATTACTGAAATACCCCTATAGGGTAGAATTACAGAAATGCCCTTGTATGGTAGAAATACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACAGAAATAACCTTGTAGGGTAGAAATACCGAAA
50024849 TACCCCTATAGGATAG
66 TACCCCTATAGGATAG
* * * * *
50024865 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACTGAAATACCCCTGTAGGGTAGAATTAC
50024898 CATTTTGCCC
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACAGAAATAACCTTGTAGGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:50025138 original size:24 final size:25
Alignment explanation
Indices: 50025101--50025169 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
50025091 AGGAAGTGCT
* *
50025101 AAAAGGGCTATGCCCCAGTTTA-CC
1 AAAAGGGCTTTGCCCCAGTTTATCA
* * * *
50025125 GAAAGGACTTTGCCCTAGTTTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
50025150 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
50025170 ATTAAAAGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:50025160 original size:25 final size:24
Alignment explanation
Indices: 50025126--50025176 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
50025116 CAGTTTACCG
*
50025126 AAAGGACTTTGCCCTAGTTTATTAA
1 AAAGGACTTTGCCCCAG-TTATTAA
*
50025151 AAAGGGCTTTGCCCCAGTTATTAA
1 AAAGGACTTTGCCCCAGTTATTAA
50025175 AA
1 AA
50025177 GAGGTTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (24 bp):
AAAGGACTTTGCCCCAGTTATTAA
Found at i:50025381 original size:31 final size:31
Alignment explanation
Indices: 50025346--50025416 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
50025336 CATTTACAGT
50025346 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCGACCCAATGATATGATTTATGA
* * *
50025377 AAAGGCTTCGGCCCAGTGATATGATTTGTGA
1 AAAGGCTTCGACCCAATGATATGATTTATGA
50025408 AAAGGCTTC
1 AAAGGCTTC
50025417 AGCCCAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGACCCAATGATATGATTTATGA
Found at i:50025422 original size:31 final size:30
Alignment explanation
Indices: 50025346--50025424 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 30
50025336 CATTTACAGT
*
50025346 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCG-CCCAGTGATATGATTTATGA
*
50025377 AAAGGCTTCGGCCCAGTGATATGATTTGTGA
1 AAAGGCTTC-GCCCAGTGATATGATTTATGA
50025408 AAAGGCTTCAGCCCAGT
1 AAAGGCTTC-GCCCAGT
50025425 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTGATATGATTTATGA
Found at i:50026585 original size:25 final size:25
Alignment explanation
Indices: 50026556--50026634 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
50026546 ACTTGGCCCT
50026556 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** ** *
50026581 ATCACAT-TGGCCA-TTTGGCCTT-
1 ATCACATATATACACTTTCACATTC
*
50026603 ATCACATATATACACGTTCACATTC
1 ATCACATATATACACTTTCACATTC
50026628 ATCACAT
1 ATCACAT
50026635 CGGCCATTGG
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 7 0.18
23 9 0.24
24 8 0.21
25 14 0.37
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:50026680 original size:49 final size:49
Alignment explanation
Indices: 50026506--50026924 Score: 645
Period size: 49 Copynumber: 8.7 Consensus size: 49
50026496 CCCTTCGGGA
* * *
50026506 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
50026553 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50026600 CTTATCAC--ATATATACACGTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50026647 CTTAACACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50026696 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50026745 CTTATCACATAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50026794 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50026843 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50026892 CTTAGCACATATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
50026925 GCATAAAATC
Statistics
Matches: 348, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 3 0.01
47 88 0.25
49 257 0.74
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50030665 original size:40 final size:40
Alignment explanation
Indices: 50030621--50030812 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
50030611 CCAGCATGAT
* * *
50030621 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* * *
50030661 TGCTCTTTGGAACTTAGTCCGGATACATCGCTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
50030701 TGCTCTTCGGGACTTAGTCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* *
50030741 TGCTCTTCGGGACTTAGTCTGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* * *
50030781 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGTCCGGATACATCACT
50030813 CTCAATTCTC
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
Found at i:50032543 original size:25 final size:25
Alignment explanation
Indices: 50032515--50032593 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
50032505 ACTCGGCCTT
*
50032515 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
50032540 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
50032562 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
50032587 ATCACAT
1 ATCACAT
50032594 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:50032686 original size:49 final size:49
Alignment explanation
Indices: 50032465--50032979 Score: 839
Period size: 49 Copynumber: 10.7 Consensus size: 49
50032455 CCCTTCGGGA
* * * * *
50032465 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50032512 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032559 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032606 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032653 CTTATCACATATATATACACGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032702 CTTATTACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50032751 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032800 CTTATCACATAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032849 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032898 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032947 CTTATCACATATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
50032980 GCATAAAATC
Statistics
Matches: 449, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 140 0.31
49 308 0.69
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50037894 original size:22 final size:23
Alignment explanation
Indices: 50037846--50037894 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
50037836 ACTATAAATA
*
50037846 CCATCCCTCACTTCTCACTCAAT
1 CCATCCCTCACTACTCACTCAAT
50037869 -CATCCCTCA-TCACTCACT-AAT
1 CCATCCCTCACT-ACTCACTCAAT
50037890 CCATC
1 CCATC
50037895 TATACATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (23 bp):
CCATCCCTCACTACTCACTCAAT
Found at i:50040050 original size:40 final size:39
Alignment explanation
Indices: 50040005--50040212 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
50039995 CGGAATACAA
*
50040005 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
50040045 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
50040085 CCAGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
50040125 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
50040165 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
50040205 CCGGATAT
1 CCGGATAT
50040213 CATTTAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Done.