Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 6 of 313
Found at i:1630812 original size:50 final size:50
Alignment explanation
Indices: 1630740--1630875 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 50
1630730 ACGAGATGTG
* * *
1630740 TCAGTGTAAGACAATGTTTGGGACATGGCATCGACACGGAC-ATG-TGAGAGC
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC--ACGATGATGA-ACC
* * *
1630791 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGATGATCC
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACACACGATGATGAACC
*
1630839 TCAGTGTAAGACCATGTCTAGGACATGGCATCGACAC
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC
1630876 CTCACCTACG
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
47 1 0.01
48 4 0.05
49 36 0.49
50 32 0.44
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGACACACGATGATGAACC
Found at i:1631978 original size:21 final size:21
Alignment explanation
Indices: 1631952--1631996 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1631942 GTGGGACACA
1631952 GGCGTGTTACCCTTCAACATG
1 GGCGTGTTACCCTTCAACATG
*
1631973 GGCGTGTTACCCTTCCACATG
1 GGCGTGTTACCCTTCAACATG
1631994 GGC
1 GGC
1631997 AGTTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.27
Consensus pattern (21 bp):
GGCGTGTTACCCTTCAACATG
Found at i:1635982 original size:43 final size:43
Alignment explanation
Indices: 1635902--1636072 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 43
1635892 TCTGAACTAA
* **
1635902 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * * *
1635944 TTCACCGGCATTATAACCTGCTAGGCCCGAGGCTCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
1635987 CTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
1636030 TTCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
1636073 CATTTCGATA
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 12 0.11
43 93 0.84
44 6 0.05
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:1637714 original size:603 final size:603
Alignment explanation
Indices: 1636894--1638099 Score: 2259
Period size: 603 Copynumber: 2.0 Consensus size: 603
1636884 TAACTAACAC
1636894 TTAAAACATAAATCCTATAGCATTTACTCTGCTTTTATTCTCATTTAATAACTTCAATAATGATT
1 TTAAAACATAAATCCTATAGCATTTACTCTGCTTTTATTCTCATTTAATAACTTCAATAATGATT
1636959 GCATTAACCCCTTTAACACATCAATTGGCATTCGGTCATACATCTGCAGCATCAAACACTCCTTA
66 GCATTAACCCCTTTAACACATCAATTGGCATTCGGTCATACATCTGCAGCATCAAACACTCCTTA
1637024 TCTCAAATTTCAGACTTAATAAATACATCACCATTTATTCATTTGCAACTTCAACCATTATTAAC
131 TCTCAAATTTCAGACTTAATAAATACATCACCATTTATTCATTTGCAACTTCAACCATTATTAAC
*
1637089 ATGATTTAAAGTCACTCAGACCACATTTATTAACATTTAAATGACAATTTACTGCTACTTTAACA
196 ATGATTTAAAGTCACTCAGACCACATTTATTAACATTTAAATGACAATTTACTGCTACGTTAACA
* * *
1637154 CACCAAACGGCAAATCCATAAAACATACATACATAGACTTTTTTTTAAACATCCTTATTACTGCA
261 CACCAAACGGAAAATCCATAAAACATACATACATACACTTTTTTTTAAACATCCTTATCACTGCA
* * *
1637219 ATATTCAACAGCGTTTACACCTCCACCGAACAGTATAAAAAGAGCAGCAGTTAATATTTTTAATG
326 ATATTCAACAGCATTTACACCTCCACCGAACAGTATAAAAAGAGCAGCAATTAATATTATTAATG
1637284 GGGGTAAAATTCAGACAGCAATTTAACAGATTCCAAAAATTATCAAACACTAAAGAATAAAGAAA
391 GGGGTAAAATTCAGACAGCAATTTAACAGATTCCAAAAATTATCAAACACTAAAGAATAAAGAAA
*
1637349 AATATTCAAGGAAAGCTTATTAATATTTCCCAACTCCGATTACAACAATTCAATTTGTTCCTTCC
456 AATATTCAAGGAAAGCTTACTAATATTTCCCAACTCCGATTACAACAATTCAATTTGTTCCTTCC
*
1637414 CTCACACATTCGGTCAAAATTAAACCAACAACTTAACCAGAATTTATCAACAAAAAGCTATAGGT
521 CTCACACATTCGGTCAAAATTAAACCAACAACTTAACCAGAATTTATCAACAAAAAGCTATAGAT
1637479 AAAAGAGAGTGTAGAAGT
586 AAAAGAGAGTGTAGAAGT
1637497 TTAAAACATAAATCCTATAGCATTTACTCTGCTTTTATTCTCATTTAATAACTTCAATAATGATT
1 TTAAAACATAAATCCTATAGCATTTACTCTGCTTTTATTCTCATTTAATAACTTCAATAATGATT
1637562 GCATTAACCCCTTTAACACATCAATTGGCATTCGGTCATACATCTGCAGCATCAAACACTCCTTA
66 GCATTAACCCCTTTAACACATCAATTGGCATTCGGTCATACATCTGCAGCATCAAACACTCCTTA
1637627 TCTCAAATTTCAGACTTAATAAATACATCACCATTTATTCATTTGCAACTTCAACCATTATTAAC
131 TCTCAAATTTCAGACTTAATAAATACATCACCATTTATTCATTTGCAACTTCAACCATTATTAAC
1637692 ATGATTTAAAGTCACTCAGACCACATTTATTAACATTTAAATGACAATTTACTGCTACGTTAACA
196 ATGATTTAAAGTCACTCAGACCACATTTATTAACATTTAAATGACAATTTACTGCTACGTTAACA
*
1637757 CACCAAATGGAAAATCCATAAAACATACATACATACACTTTTTTTTAAACATCCTTATCACTGCA
261 CACCAAACGGAAAATCCATAAAACATACATACATACACTTTTTTTTAAACATCCTTATCACTGCA
* * *
1637822 ATATTCAACAGCATTTATACCTCCACTGAACAGTATAAAAAGAGTAGCAATTAATATTATTAATG
326 ATATTCAACAGCATTTACACCTCCACCGAACAGTATAAAAAGAGCAGCAATTAATATTATTAATG
1637887 GGGGTAAAATTCAGACAGCAATTTAACAGATTCCAAAAATTATCAAACACTAAAGAATAAAGAAA
391 GGGGTAAAATTCAGACAGCAATTTAACAGATTCCAAAAATTATCAAACACTAAAGAATAAAGAAA
*
1637952 AATATTCAAGGAAAGCTTACTAATATTTCCCAACTCCGATTATAACAATTCAATTTGTTCCTTCC
456 AATATTCAAGGAAAGCTTACTAATATTTCCCAACTCCGATTACAACAATTCAATTTGTTCCTTCC
*
1638017 CTCACACATTCGGTCAAAATTAAACCAACAACTTAACTAGAATTTATCAACAAAAAGCTATAGAT
521 CTCACACATTCGGTCAAAATTAAACCAACAACTTAACCAGAATTTATCAACAAAAAGCTATAGAT
**
1638082 AACGGAGAGTGTAGAAGT
586 AAAAGAGAGTGTAGAAGT
1638100 GTTACCATGC
Statistics
Matches: 586, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
603 586 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (603 bp):
TTAAAACATAAATCCTATAGCATTTACTCTGCTTTTATTCTCATTTAATAACTTCAATAATGATT
GCATTAACCCCTTTAACACATCAATTGGCATTCGGTCATACATCTGCAGCATCAAACACTCCTTA
TCTCAAATTTCAGACTTAATAAATACATCACCATTTATTCATTTGCAACTTCAACCATTATTAAC
ATGATTTAAAGTCACTCAGACCACATTTATTAACATTTAAATGACAATTTACTGCTACGTTAACA
CACCAAACGGAAAATCCATAAAACATACATACATACACTTTTTTTTAAACATCCTTATCACTGCA
ATATTCAACAGCATTTACACCTCCACCGAACAGTATAAAAAGAGCAGCAATTAATATTATTAATG
GGGGTAAAATTCAGACAGCAATTTAACAGATTCCAAAAATTATCAAACACTAAAGAATAAAGAAA
AATATTCAAGGAAAGCTTACTAATATTTCCCAACTCCGATTACAACAATTCAATTTGTTCCTTCC
CTCACACATTCGGTCAAAATTAAACCAACAACTTAACCAGAATTTATCAACAAAAAGCTATAGAT
AAAAGAGAGTGTAGAAGT
Found at i:1643156 original size:43 final size:43
Alignment explanation
Indices: 1643094--1643260 Score: 221
Period size: 43 Copynumber: 3.9 Consensus size: 43
1643084 AACTCATTCC
* **
1643094 CCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCATTTCA
1 CCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATTTCA
* * * * *
1643136 CCGGCATTTTAACCTGCTAGGCCC-AAGGCTCGATATTATCTCA
1 CCGGCATTATAGCCTGCTAGGCCCGAA-GCCCGATATCATTTCA
*
1643179 CCGGCATTATAGCCTACTAGGCCCGAAGCCCGATATCATTTCA
1 CCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATTTCA
1643222 CCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATCA
1 CCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
1643261 CATTTCGATA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 10 0.09
43 89 0.83
44 8 0.07
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (43 bp):
CCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATTTCA
Found at i:1649681 original size:46 final size:44
Alignment explanation
Indices: 1649590--1649701 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 44
1649580 ATTGAGACGA
* *
1649590 GTGCTAGTGTAAGACATGTCTTGGACATGCATCGGCCTCAGGAT
1 GTGCCAGTGTAAGACATGTCTTGGAAATGCATCGGCCTCAGGAT
1649634 GTAAGCCAGTGTAAGACATGT-TTGGGAAATGCATCGG-CTACTA-GAT
1 GT--GCCAGTGTAAGACATGTCTT-GGAAATGCATCGGCCT-C-AGGAT
*
1649680 GTGTCAGTGTAAGACCATGTCT
1 GTGCCAGTGTAAGA-CATGTCT
1649702 GAGACATGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
44 13 0.22
45 9 0.16
46 35 0.60
47 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTTGGAAATGCATCGGCCTCAGGAT
Found at i:1649714 original size:46 final size:46
Alignment explanation
Indices: 1649546--1649813 Score: 160
Period size: 49 Copynumber: 5.7 Consensus size: 46
1649536 TTATGAGAGC
* *** * * *
1649546 CAGTGTAAGACCATGTTTGGGACATGGCATTTTCATTGAGACG-AGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAG-GATGTAGT
* *
1649592 GCTAGTGTAAGA-CATGTCTTGGACAT-GCATCGGCCTCAGGATGTAAGC
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-AGGATGT-AGT
* *
1649640 CAGTGTAAGA-CATGTTTGGGAAAT-GCATCGGCTACTA-GATGT-GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC--CTAGGATGTAGT
* * *
1649684 CAGTGTAAGACCATGTCTGAGACATGGCATCAG-C-ACGGATATGAAAAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTA-GG--ATG--TAGT
* * * *
1649732 CTAGTGTAAGACCGTGTCTGGGACATGGCATCGGCCTCGATGAGGATCGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT--AGGATG-TAGT
1649782 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1649814 ACACCTCACC
Statistics
Matches: 174, Mismatches: 26, Indels: 40
0.73 0.11 0.17
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.07
45 11 0.06
46 51 0.29
47 16 0.09
48 14 0.08
49 62 0.36
50 4 0.02
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGGATGTAGT
Found at i:1649738 original size:93 final size:98
Alignment explanation
Indices: 1649636--1649812 Score: 240
Period size: 98 Copynumber: 1.9 Consensus size: 98
1649626 CTCAGGATGT
* * *
1649636 AAGCCAGTGTAAGA-CATGTTTGGGAAAT-GCATCGG-CTACTA-GATG-T-GTCAGTGTAAGAC
1 AAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCT-CGATGAGGATCGTCAGTGTAAGAC
1649695 CATGTCTGAGACATGGCATCAGCACGGATATGAA
65 CATGTCTGAGACATGGCATCAGCACGGATATGAA
* * *
1649729 AAGCTAGTGTAAGACCGTGTCTGGGACATGGCATCGGCCTCGATGAGGATCGTCAGTGTAAGACC
1 AAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCTCGATGAGGATCGTCAGTGTAAGACC
*
1649794 ATGTCTGGGACATGGCATC
66 ATGTCTGAGACATGGCATC
1649813 GACACCTCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
93 13 0.18
94 11 0.15
95 9 0.13
96 5 0.07
97 1 0.01
98 32 0.45
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (98 bp):
AAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCTCGATGAGGATCGTCAGTGTAAGACC
ATGTCTGAGACATGGCATCAGCACGGATATGAA
Found at i:1650879 original size:21 final size:21
Alignment explanation
Indices: 1650850--1650894 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1650840 GGCACGGGCA
1650850 TGTTACCCTTCAACACAGGCG
1 TGTTACCCTTCAACACAGGCG
* * *
1650871 TGTTGCCCTTCCACATAGGCG
1 TGTTACCCTTCAACACAGGCG
1650892 TGT
1 TGT
1650895 GCCTGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (21 bp):
TGTTACCCTTCAACACAGGCG
Found at i:1659975 original size:55 final size:54
Alignment explanation
Indices: 1659907--1660040 Score: 214
Period size: 55 Copynumber: 2.4 Consensus size: 54
1659897 CAAGTTTGAG
*
1659907 CACGGCTAAGGCACACGGGTGTGTGGCTAGCCGTGTGGCTCAAGTCAGATTCAAC
1 CACGGCCAAGGCACACGGG-GTGTGGCTAGCCGTGTGGCTCAAGTCAGATTCAAC
* *
1659962 CACGGCCAAGGCACACAGGCGTGTGGCTAGCCGTGTGGCTCAAGTCAGATTGAAC
1 CACGGCCAAGGCACAC-GGGGTGTGGCTAGCCGTGTGGCTCAAGTCAGATTCAAC
1660017 CACGGCCAAGGCACACAGGGGTGT
1 CACGGCCAAGGCACAC-GGGGTGT
1660041 CTTGTGGCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
55 72 0.97
56 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.34, T:0.16
Consensus pattern (54 bp):
CACGGCCAAGGCACACGGGGTGTGGCTAGCCGTGTGGCTCAAGTCAGATTCAAC
Found at i:1674227 original size:46 final size:46
Alignment explanation
Indices: 1674126--1674213 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
1674116 TGTAACCCGC
* * *
1674126 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
1674172 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
1674214 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:1679027 original size:9 final size:9
Alignment explanation
Indices: 1679013--1679040 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1679003 TACGTAGTAA
1679013 TATGCAAAT
1 TATGCAAAT
1679022 TATGCAAAT
1 TATGCAAAT
1679031 TATGCAAAT
1 TATGCAAAT
1679040 T
1 T
1679041 CTGTGTGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (9 bp):
TATGCAAAT
Found at i:1685637 original size:14 final size:14
Alignment explanation
Indices: 1685618--1685645 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1685608 GGTCTAGTCA
1685618 ATTAGTTAAAGTTT
1 ATTAGTTAAAGTTT
1685632 ATTAGTTAAAGTTT
1 ATTAGTTAAAGTTT
1685646 CCCCTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
ATTAGTTAAAGTTT
Found at i:1686810 original size:55 final size:54
Alignment explanation
Indices: 1686687--1686981 Score: 346
Period size: 55 Copynumber: 5.5 Consensus size: 54
1686677 CTTAACATTA
** * *
1686687 CCATGTCTTGACATGGTCTTATGTGGTATCC-ATGCCTTAT-GAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTA-CCTTTGCCTTATAGAACTCATCAATG
* * *
1686740 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATG
* * * *
1686795 CCATGTCTTAACATGGTCTTACATGGTATCTTTTCCTTAT-GAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATG
* * *
1686848 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATG
* * * *
1686903 CCATGTCTTGACATGGTCTTACATGATTTCC-TTGTCTTATAGAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAATG
* *
1686957 CCATGACTTGGCATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
1686982 ATATCCTTAT
Statistics
Matches: 206, Mismatches: 30, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 76 0.37
54 37 0.18
55 89 0.43
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATG
Found at i:1686876 original size:108 final size:108
Alignment explanation
Indices: 1686687--1686981 Score: 457
Period size: 108 Copynumber: 2.7 Consensus size: 108
1686677 CTTAACATTA
** ** *
1686687 CCATGTCTTGACATGGTCTTATGTGGTATCCATGCCTTATGAACTCACCAATGCCATGCCTTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCTTTTCCTTATGAACTCACCAATGCCATGCCTTGGC
1686752 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
66 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
*
1686795 CCATGTCTTAACATGGTCTTACATGGTATCTTTTCCTTATGAACTCACCAATGCCATGCCTTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCTTTTCCTTATGAACTCACCAATGCCATGCCTTGGC
1686860 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
66 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
* * * * * *
1686903 CCATGTCTTGACATGGTCTTACATGATTTCCTTGT-CTTATAGAACTTATCAATGCCATGACTTG
1 CCATGTCTTGACATGGTCTTACATGGTAT-CTTTTCCTTAT-GAACTCACCAATGCCATGCCTTG
1686967 GCATGGTCTTACATG
64 GCATGGTCTTACATG
1686982 ATATCCTTAT
Statistics
Matches: 172, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
108 133 0.77
109 39 0.23
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (108 bp):
CCATGTCTTGACATGGTCTTACATGGTATCTTTTCCTTATGAACTCACCAATGCCATGCCTTGGC
ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
Found at i:1687023 original size:47 final size:47
Alignment explanation
Indices: 1686968--1687089 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
1686958 CATGACTTGG
* *
1686968 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1687015 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1687062 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
1687090 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:1687580 original size:144 final size:144
Alignment explanation
Indices: 1687317--1687604 Score: 567
Period size: 144 Copynumber: 2.0 Consensus size: 144
1687307 TATTTATGGC
1687317 CAAAATATCACTTTATCATTCAAATATGCATAATTAAATGCTTATTAAACATATGAACTTACCTC
1 CAAAATATCACTTTATCATTCAAATATGCATAATTAAATGCTTATTAAACATATGAACTTACCTC
*
1687382 GATACTAAAACGACCATTTTACCAACTTTCCCGATTTTCAGTTTTTCTCTCGTTCTAGGTCCAAA
66 GATACTAAAACGACCATTTTACCAACTTTCCCGATTTTCAGTTTTTCTCCCGTTCTAGGTCCAAA
1687447 TCTCACTTTTCGGG
131 TCTCACTTTTCGGG
1687461 CAAAATATCACTTTATCATTCAAATATGCATAATTAAATGCTTATTAAACATATGAACTTACCTC
1 CAAAATATCACTTTATCATTCAAATATGCATAATTAAATGCTTATTAAACATATGAACTTACCTC
1687526 GATACTAAAACGACCATTTTACCAACTTTCCCGATTTTCAGTTTTTCTCCCGTTCTAGGTCCAAA
66 GATACTAAAACGACCATTTTACCAACTTTCCCGATTTTCAGTTTTTCTCCCGTTCTAGGTCCAAA
1687591 TCTCACTTTTCGGG
131 TCTCACTTTTCGGG
1687605 ATATAAAACA
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (144 bp):
CAAAATATCACTTTATCATTCAAATATGCATAATTAAATGCTTATTAAACATATGAACTTACCTC
GATACTAAAACGACCATTTTACCAACTTTCCCGATTTTCAGTTTTTCTCCCGTTCTAGGTCCAAA
TCTCACTTTTCGGG
Found at i:1687701 original size:31 final size:30
Alignment explanation
Indices: 1687665--1687725 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1687655 TCCCTAACTC
1687665 AAACTTTGGGAAAATTACAATTTTGCCCCTA
1 AAACTTT-GGAAAATTACAATTTTGCCCCTA
** * *
1687696 AAACTTTTTAGAATTACGATTTTGCCCCTA
1 AAACTTTGGAAAATTACAATTTTGCCCCTA
1687726 GGCTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAATTACAATTTTGCCCCTA
Found at i:1697499 original size:32 final size:32
Alignment explanation
Indices: 1697463--1697527 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1697453 GTGATATGTG
1697463 TTTGTACATTGAGTTTAGTTGATGATTTTGGA
1 TTTGTACATTGAGTTTAGTTGATGATTTTGGA
1697495 TTTGTACATTGAGTTTAGTTGATGATTTTGGA
1 TTTGTACATTGAGTTTAGTTGATGATTTTGGA
1697527 T
1 T
1697528 ATGGCATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.51
Consensus pattern (32 bp):
TTTGTACATTGAGTTTAGTTGATGATTTTGGA
Found at i:1701399 original size:24 final size:25
Alignment explanation
Indices: 1701334--1701399 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 25
1701324 TCATGTACAT
* * *
1701334 GTATACTCATACAAGCTTTGAATAG
1 GTATGCTCACACAAGCTGTGAATAG
* * *
1701359 GTATGCTCACTCGAGCTGT-AATCG
1 GTATGCTCACACAAGCTGTGAATAG
*
1701383 GTATGCTCTCACAAGCT
1 GTATGCTCACACAAGCT
1701400 TTGGGTCGAA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTGAATAG
Found at i:1702368 original size:19 final size:19
Alignment explanation
Indices: 1702332--1702370 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1702322 TTTTCATCAT
* *
1702332 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
1702351 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
1702370 A
1 A
1702371 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:1702873 original size:55 final size:56
Alignment explanation
Indices: 1702808--1702922 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
1702798 AGCATGGCTG
* *
1702808 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
1702864 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
1702919 CCAG
1 CCAG
1702923 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:1702885 original size:27 final size:27
Alignment explanation
Indices: 1702833--1702922 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
1702823 GTGACAGAGT
1702833 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
1702862 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
1702889 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
1702917 CACCAG
1 CACCAG
1702923 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:1703075 original size:28 final size:28
Alignment explanation
Indices: 1703028--1703092 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
1703018 AAATTAACCC
*
1703028 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
1703056 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
1703084 TAGGGGTAT
1 TAGGGGTAT
1703093 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:1704179 original size:12 final size:13
Alignment explanation
Indices: 1704160--1704192 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1704150 GGGTTCGGCT
1704160 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
1704173 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
1704185 ATGGAGAA
1 ATGGAGAA
1704193 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:1710851 original size:14 final size:14
Alignment explanation
Indices: 1710832--1710858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1710822 AGACACGGTC
1710832 GTGTGGTGGTGTGA
1 GTGTGGTGGTGTGA
1710846 GTGTGGTGGTGTG
1 GTGTGGTGGTGTG
1710859 GGCTACACGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.00, G:0.59, T:0.37
Consensus pattern (14 bp):
GTGTGGTGGTGTGA
Found at i:1724780 original size:40 final size:40
Alignment explanation
Indices: 1724731--1724905 Score: 332
Period size: 40 Copynumber: 4.4 Consensus size: 40
1724721 CGGATGTAAC
* *
1724731 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1724771 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1724811 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1724851 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1724891 AACCCGCACGAATGC
1 AACCCGCACGAATGC
1724906 TATGCACATA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
Found at i:1736195 original size:19 final size:19
Alignment explanation
Indices: 1736166--1736203 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1736156 CATAATGCTA
1736166 ATTTGGTATCAA-ATTTTT
1 ATTTGGTATCAATATTTTT
1736184 ATTTGAGTATCAATATTTTT
1 ATTTG-GTATCAATATTTTT
1736204 TCATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
ATTTGGTATCAATATTTTT
Found at i:1737353 original size:14 final size:14
Alignment explanation
Indices: 1737328--1737367 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1737318 ATTTAATAAA
* *
1737328 TAAAAATAAAAATCC
1 TAAAACTAAAAGT-C
1737343 TAAAACTAAAAGTC
1 TAAAACTAAAAGTC
1737357 TAAAACTAAAA
1 TAAAACTAAAA
1737368 CACACGACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAAACTAAAAGTC
Found at i:1737784 original size:16 final size:18
Alignment explanation
Indices: 1737749--1737791 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
1737739 GTAAATGGGA
1737749 TGGTTTATGGAAAGCTGC
1 TGGTTTATGGAAAGCTGC
*
1737767 TGGTTT-TGGGAA-CTGC
1 TGGTTTATGGAAAGCTGC
1737783 TGGTTTATG
1 TGGTTTATG
1737792 AGAGTGCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 7 0.30
18 6 0.26
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (18 bp):
TGGTTTATGGAAAGCTGC
Found at i:1741589 original size:29 final size:29
Alignment explanation
Indices: 1741533--1741617 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 29
1741523 CATACATGCA
* * **
1741533 TATGGCCCACTAGGCCC-AATCTTATTCG
1 TATGACCCATTAGGCCCAAATCACATTCG
* *
1741561 TATTACGCATTAGGCCCAAATCACATTCG
1 TATGACCCATTAGGCCCAAATCACATTCG
* *
1741590 TATGGCCCATTAGGTCCAAATCACATTC
1 TATGACCCATTAGGCCCAAATCACATTC
1741618 ATATACATGC
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
28 13 0.28
29 33 0.72
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TATGACCCATTAGGCCCAAATCACATTCG
Found at i:1742699 original size:35 final size:36
Alignment explanation
Indices: 1742660--1742729 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
1742650 TCTTCACTCC
*
1742660 TCATCTCCT-AATTTTTCTCC-CTGATAACTCCCTAA
1 TCATCTCCTCAA-ATTTCTCCTCTGATAACTCCCTAA
* *
1742695 TCATCTCCTCAAATTTCTCCTCTTATCACTCCCTA
1 TCATCTCCTCAAATTTCTCCTCTGATAACTCCCTA
1742730 CAGTGTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.21, C:0.37, G:0.01, T:0.40
Consensus pattern (36 bp):
TCATCTCCTCAAATTTCTCCTCTGATAACTCCCTAA
Found at i:1746458 original size:28 final size:28
Alignment explanation
Indices: 1746418--1746486 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
1746408 TATAGTAAGT
*
1746418 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
*
1746446 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
1746474 TCGCACACTTAGT
1 TCGCACACTTAGT
1746487 ACCAATCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:1756615 original size:49 final size:47
Alignment explanation
Indices: 1756545--1756765 Score: 202
Period size: 49 Copynumber: 4.6 Consensus size: 47
1756535 TGAGGTGTCG
*
1756545 ATGCCATGTCCCAGACATGGTCTTACACTAACGATCATCATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC-ATCATCATCGA-GCCA
* * *
1756594 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCA-CATATCCGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC-ATCATC--AT-CGAGCCA
* *
1756644 ATGCCATGTCCCAGACATGGTCTTACATTGACA-CATC-TCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACATCATCATCG-AGCCA
* ** * *
1756690 ATG-CATGTCCCAGACAT-GTCTTACATTGGCACTCGTC-TCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACA-TCATCATCGA-GCCA
* *
1756736 ATGCCATGTCCCATACATGGTCTTAAACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
1756766 GCTCTCATAA
Statistics
Matches: 145, Mismatches: 17, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
44 13 0.09
45 17 0.12
46 20 0.14
47 13 0.09
48 11 0.08
49 35 0.24
50 34 0.23
51 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACATCATCATCGAGCCA
Found at i:1756736 original size:46 final size:47
Alignment explanation
Indices: 1756545--1756760 Score: 196
Period size: 50 Copynumber: 4.5 Consensus size: 47
1756535 TGAGGTGTCG
* * * *
1756545 ATGCCATGTCCCAGACATGGTCTTACACTAACGATCATCATCG-AGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATTGAC-A-CATC-TCGTATGCCA
** *
1756594 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCACATATCCG--TGCCA
1 ATGCCATGTCCCAGACATGGTCTT--AC-AT-TGACACATCT-CGTATGCCA
1756644 ATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTA-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTATGCCA
*
1756690 ATG-CATGTCCCAGACAT-GTCTTACATTGGCAC-TCGTC-TCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATTGACACATC-TCGT--ATGCCA
*
1756736 ATGCCATGTCCCATACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
1756761 AACTAGCTCT
Statistics
Matches: 143, Mismatches: 11, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
43 3 0.02
44 16 0.11
45 17 0.12
46 21 0.15
47 15 0.10
48 8 0.06
49 24 0.17
50 28 0.20
51 7 0.05
52 2 0.01
53 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTATGCCA
Found at i:1756758 original size:92 final size:99
Alignment explanation
Indices: 1756545--1756765 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 99
1756535 TGAGGTGTCG
*
1756545 ATGCCATGTCCCAGACATGGTCTTACACTAACGATCATCATCGAGGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAACGATCATCATCGAGGCCAATGCCATGTCCCAGAC
* * **
1756610 ATGGTCTTACACTATCTCTCACATATCCGTGCCA
66 ATGGTCTTACACTATCGCACACATATCAATGCCA
* *
1756644 ATGCCATGTCCCAGACATGGTCTTACATTGAC-A-CATC-TCGTA-GCCAATG-CATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACGATCATCATCG-AGGCCAATGCCATGTCCCAGA
* * * *
1756704 CAT-GTCTTACA-T-TGGCACTCGTCTCAATGCCA
65 CATGGTCTTACACTATCGCACACATATCAATGCCA
* *
1756736 ATGCCATGTCCCATACATGGTCTTAAACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
1756766 GCTCTCATAA
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
92 38 0.36
93 1 0.01
94 8 0.08
95 14 0.13
96 9 0.08
97 5 0.05
98 1 0.01
99 30 0.28
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (99 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACGATCATCATCGAGGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTATCGCACACATATCAATGCCA
Found at i:1756803 original size:24 final size:25
Alignment explanation
Indices: 1756753--1756804 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1756743 GTCCCATACA
1756753 TGGTCTTAAACTAGCTCTCATAATG
1 TGGTCTTAAACTAGCTCTCATAATG
1756778 TGGTCTTAAACTAGCTC-CATAATG
1 TGGTCTTAAACTAGCTCTCATAATG
1756802 TGG
1 TGG
1756805 CCGATGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (25 bp):
TGGTCTTAAACTAGCTCTCATAATG
Found at i:1760724 original size:35 final size:35
Alignment explanation
Indices: 1760673--1760745 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
1760663 AACCCTATTT
1760673 TTAAATTACCTAATCATACCATAGATTTGGCATAC
1 TTAAATTACCTAATCATACCATAGATTTGGCATAC
*
1760708 TTAACTTACCTAATCATACCATAGATTTGGCATAC
1 TTAAATTACCTAATCATACCATAGATTTGGCATAC
1760743 TTA
1 TTA
1760746 TTAACCATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (35 bp):
TTAAATTACCTAATCATACCATAGATTTGGCATAC
Found at i:1766132 original size:38 final size:38
Alignment explanation
Indices: 1766090--1766173 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
1766080 ATGCAGGAAT
* * * *
1766090 TATATCTGGGTTAAATGT-CGCAGGCTTCGTGCTGGTAA
1 TATATCTAGATTAAA-GTCCGCAGGCCTAGTGCTGGTAA
*
1766128 TATATCTAGATTAAAGTCCCGCAGGCCTAGTGCTGGTAT
1 TATATCTAGATTAAAGT-CCGCAGGCCTAGTGCTGGTAA
1766167 TATATCT
1 TATATCT
1766174 TAACTTAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.05
38 13 0.33
39 24 0.62
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (38 bp):
TATATCTAGATTAAAGTCCGCAGGCCTAGTGCTGGTAA
Found at i:1774204 original size:39 final size:39
Alignment explanation
Indices: 1774152--1774304 Score: 150
Period size: 39 Copynumber: 3.9 Consensus size: 39
1774142 ATTTGATGTG
* * * * *
1774152 TATCCGGGCTTAAAGACCCGTAGGATATATGCTGGAATTA
1 TATCCGGG-TTAAAGTCCCGCAGGCTATGTGCTGGTATTA
*
1774192 TATCTGGGTTAAA-TCCCGCAGGCT-TCGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTAT-GTGCTGGTATTA
1774230 TATCCGGGTTAAAGTCCCGCAGGCCTA-GTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGG-CTATGTGCTGGTATTA
* ** * *
1774269 TATCTGAACTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAAGTCCCGCAGGCTATGTGCTGGT
1774305 GACTCGATTC
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 30 0.32
39 32 0.34
40 32 0.34
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGCTATGTGCTGGTATTA
Found at i:1774301 original size:40 final size:39
Alignment explanation
Indices: 1774181--1774304 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 39
1774171 GTAGGATATA
* *
1774181 TGCTGGAATTATATCTGGGTTAAA-TCCCGCAGGCTTCG
1 TGCTGGTATTATATCTGGGTTAAAGTCCCGCAGGCTTAG
* *
1774219 TGCTGGTATTATATCCGGGTTAAAGTCCCGCAGGCCTAG
1 TGCTGGTATTATATCTGGGTTAAAGTCCCGCAGGCTTAG
** * *
1774258 TGCTGGTATTATATCTGAACTTAAAGTCCCGCAGGTTTTG
1 TGCTGGTATTATATCTG-GGTTAAAGTCCCGCAGGCTTAG
1774298 TGCTGGT
1 TGCTGGT
1774305 GACTCGATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 22 0.30
39 28 0.38
40 24 0.32
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (39 bp):
TGCTGGTATTATATCTGGGTTAAAGTCCCGCAGGCTTAG
Found at i:1777461 original size:25 final size:26
Alignment explanation
Indices: 1777423--1777490 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
1777413 ACACACCTTA
1777423 GCTCTTA-TGAGCTTCCCAGTTA-CG
1 GCTCTTAGTGAGCTTCCCAGTTATCG
* * *
1777447 GCTCTTAGTGAGCTTTCCATTTATTG
1 GCTCTTAGTGAGCTTCCCAGTTATCG
* *
1777473 GCTCTTTGTGAGTTTCCC
1 GCTCTTAGTGAGCTTCCC
1777491 GATATGGCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 7 0.19
25 13 0.36
26 16 0.44
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.41
Consensus pattern (26 bp):
GCTCTTAGTGAGCTTCCCAGTTATCG
Found at i:1777475 original size:26 final size:25
Alignment explanation
Indices: 1777423--1777489 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
1777413 ACACACCTTA
*
1777423 GCTCTTA-TGAGCTTCCCAGTTACG
1 GCTCTTAGTGAGCTTTCCAGTTACG
* *
1777447 GCTCTTAGTGAGCTTTCCATTTATTG
1 GCTCTTAGTGAGCTTTCCAGTTA-CG
*
1777473 GCTCTTTGTGAG-TTTCC
1 GCTCTTAGTGAGCTTTCC
1777490 CGATATGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 7 0.19
25 18 0.49
26 12 0.32
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (25 bp):
GCTCTTAGTGAGCTTTCCAGTTACG
Found at i:1777573 original size:24 final size:25
Alignment explanation
Indices: 1777526--1777573 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1777516 TATATTGCTA
* *
1777526 TTCGGAGCTCCCTAATTAATGGCTC
1 TTCGGAGCTACCTAATTAAAGGCTC
*
1777551 TTCGGAGCTACCT-GTTAAAGGCT
1 TTCGGAGCTACCTAATTAAAGGCT
1777574 TAGATGAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (25 bp):
TTCGGAGCTACCTAATTAAAGGCTC
Found at i:1780853 original size:17 final size:17
Alignment explanation
Indices: 1780812--1780889 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 17
1780802 AATTAAATTA
1780812 AATAA-TAAATTCTAAAT
1 AATAACTAAA-TCTAAAT
1780829 -AT-ACTAAATCTAAAT
1 AATAACTAAATCTAAAT
1780844 AATAACTAAA--TAAA-
1 AATAACTAAATCTAAAT
*
1780858 AATAAC--AATTTAAAT
1 AATAACTAAATCTAAAT
**
1780873 AATATTTAAATC-AAAT
1 AATAACTAAATCTAAAT
1780889 A
1 A
1780890 GTAATAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
12 2 0.04
14 10 0.20
15 16 0.32
16 13 0.26
17 9 0.18
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAACTAAATCTAAAT
Found at i:1780921 original size:11 final size:11
Alignment explanation
Indices: 1780891--1780932 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
1780881 AATCAAATAG
1780891 TAATAATATATA
1 TAATAATAT-TA
1780903 TAATAATATTA
1 TAATAATATTA
* *
1780914 TAAGAATAGTA
1 TAATAATATTA
1780925 TAATAATA
1 TAATAATA
1780933 GATAGAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (11 bp):
TAATAATATTA
Found at i:1780933 original size:11 final size:11
Alignment explanation
Indices: 1780886--1780933 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1780876 ATTTAAATCA
1780886 AATAGTAATAAT
1 AATAGT-ATAAT
1780898 -ATA-TATAAT
1 AATAGTATAAT
* *
1780907 AATATTATAAG
1 AATAGTATAAT
1780918 AATAGTATAAT
1 AATAGTATAAT
1780929 AATAG
1 AATAG
1780934 ATAGAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 5 0.16
10 4 0.13
11 22 0.71
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (11 bp):
AATAGTATAAT
Found at i:1787221 original size:17 final size:17
Alignment explanation
Indices: 1787199--1787244 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
1787189 TTTAGGGGCA
1787199 AAATTGTAATTTTTTCC
1 AAATTGTAATTTTTTCC
1787216 AAATTGTAATTTTTTCC
1 AAATTGTAATTTTTTCC
1787233 AAATTGTAATTT
1 AAATTGTAATTT
1787245 ATGGACTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (17 bp):
AAATTGTAATTTTTTCC
Found at i:1791360 original size:56 final size:56
Alignment explanation
Indices: 1791274--1791437 Score: 310
Period size: 56 Copynumber: 2.9 Consensus size: 56
1791264 CCTCTGAANT
*
1791274 ACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1791330 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
*
1791386 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGCTCTTAC
1 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
1791438 ACATCATCAA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 106 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
Found at i:1813788 original size:108 final size:108
Alignment explanation
Indices: 1813599--1813842 Score: 391
Period size: 108 Copynumber: 2.3 Consensus size: 108
1813589 TGTGTTACAG
* *
1813599 TAAGGATTTAGCCCAGACGGGTAATCTGTTGATCTCAATTATGAAAAGGATCTAACCGGGACAGT
1 TAAGGATTTAGCCCAGACGGGTAATCCGTTGATCTCAATTATGAAAAGGATCTAACCCGGACAGT
* *
1813664 TGTTCCTTTGGATGATCGAGCCTC-CTGTAGAATACATGTGCAT
66 TGTTCCTTTAGATGATCGAGCCTCTC-GAAGAATACATGTGCAT
* * **
1813707 TAAGGATTTAGCCCGGACGGGTAATCCGTTGATCTCAATTATGAAAAGGATCTAGCCCGGATGGT
1 TAAGGATTTAGCCCAGACGGGTAATCCGTTGATCTCAATTATGAAAAGGATCTAACCCGGACAGT
1813772 TGTTCCTTTAGATGATCGAGCCTCTCGAAGAATACATGTGCAT
66 TGTTCCTTTAGATGATCGAGCCTCTCGAAGAATACATGTGCAT
*
1813815 TAAGGATTTAGCCCAGACAGGTAATCCG
1 TAAGGATTTAGCCCAGACGGGTAATCCG
1813843 ATTAGGATCT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
108 124 0.99
109 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (108 bp):
TAAGGATTTAGCCCAGACGGGTAATCCGTTGATCTCAATTATGAAAAGGATCTAACCCGGACAGT
TGTTCCTTTAGATGATCGAGCCTCTCGAAGAATACATGTGCAT
Found at i:1819446 original size:40 final size:41
Alignment explanation
Indices: 1819352--1819572 Score: 251
Period size: 40 Copynumber: 5.6 Consensus size: 41
1819342 TATTCGAATG
* * *
1819352 ATATCTGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGC-GAGTGACT
* *
1819393 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTGACT
* *
1819433 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTGACT
* * * *
1819473 ATATCTGGGCTAAG-TCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTGACT
* **
1819513 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTGACT
1819552 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
1819573 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 15 0.10
40 98 0.63
41 27 0.17
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTGACT
Found at i:1822698 original size:42 final size:43
Alignment explanation
Indices: 1822651--1822887 Score: 286
Period size: 43 Copynumber: 5.6 Consensus size: 43
1822641 CCGAGGCTAT
* *
1822651 GTGTAAGACCATATCTGGGATA-TGACATC-ATTATGAGACTTC
1 GTGTAAGACCATATCTGGGATATTGGCATCGA-TATGAGATTTC
* * * *
1822693 GTGTAAGACCATATCTGGGATA-TGGTATCAATGTCAGATTTC
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGAGATTTC
* *
1822735 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGAGATTTC
*
1822778 GTGTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATTTC
1 GTGTAAGACCATA-TCTGGGATATTGGCATCGATATGAGATTTC
* * **
1822821 GTGTAAGACCATAGT-TGGGCTATTGGCATCGATATGATATCCC
1 GTGTAAGACCATA-TCTGGGATATTGGCATCGATATGAGATTTC
*
1822864 ATGTAAGACCATATCTGGGATATT
1 GTGTAAGACCATATCTGGGATATT
1822888 TCATTGGTGT
Statistics
Matches: 174, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
42 56 0.32
43 118 0.68
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGATATTGGCATCGATATGAGATTTC
Found at i:1824826 original size:31 final size:31
Alignment explanation
Indices: 1824791--1824860 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
1824781 TTGACTTTTT
* *
1824791 ATTTAATTGTGATATATTAACTAATGTGGTA
1 ATTTAATTGGGATATATTAACTAATGTGATA
* *
1824822 ATTTAATTGGGATGTATTAACTATTGTGATA
1 ATTTAATTGGGATATATTAACTAATGTGATA
*
1824853 ACTTAATT
1 ATTTAATT
1824861 TGGTCAGGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (31 bp):
ATTTAATTGGGATATATTAACTAATGTGATA
Found at i:1831349 original size:22 final size:22
Alignment explanation
Indices: 1831279--1831395 Score: 80
Period size: 23 Copynumber: 5.1 Consensus size: 22
1831269 CCTGAGCTGA
1831279 TGAACAGTAAGCTCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
* * *
1831301 TGAAGCAGTAAACTCTATCAAGA
1 TGAA-CAGTAAGCTCTATCGAGC
1831324 TGAACAGTAAGCT-TATGCGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
* *
1831346 TGAAATAGTAAGCTCCAAT-GAGC
1 TG-AACAGTAAGCT-CTATCGAGC
*
1831369 TAAAAACAGTAAGCTCT-TACGAGC
1 T--GAACAGTAAGCTCTAT-CGAGC
1831393 TGA
1 TGA
1831396 TATATCTGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
21 3 0.04
22 21 0.29
23 32 0.44
24 15 0.21
25 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:1831392 original size:24 final size:23
Alignment explanation
Indices: 1831326--1831393 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
1831316 TATCAAGATG
* *
1831326 AACAGTAAGCT-TATGCGAGCTGA
1 AACAGTAAGCTCT-TACGAGCTAA
* ** *
1831349 AATAGTAAGCTCCAATGAGCTAAA
1 AACAGTAAGCTCTTACGAGCT-AA
1831373 AACAGTAAGCTCTTACGAGCT
1 AACAGTAAGCTCTTACGAGCT
1831394 GATATATCTG
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTTACGAGCTAA
Found at i:1833479 original size:37 final size:37
Alignment explanation
Indices: 1833405--1833549 Score: 128
Period size: 37 Copynumber: 3.9 Consensus size: 37
1833395 CAGTGGGTAA
* **
1833405 TGCTCATTCGAGCAAACATTCAGTAGAATCAACAGATAT
1 TGCTCATTTGAGC--ACATTCAGTAGAATCAGTAGATAT
* * * * *
1833444 TTCTTATTTTAGCACATTTAGTAGAATTAGTAGATAT
1 TGCTCATTTGAGCACATTCAGTAGAATCAGTAGATAT
* *
1833481 TGCTCGTTTGAGCACATTCAATAGAATCAGTAGATAT
1 TGCTCATTTGAGCACATTCAGTAGAATCAGTAGATAT
** * * * *
1833518 TGCTTGTTAGAACACATTTAATAGAATCAGTA
1 TGCTCATTTGAGCACATTCAGTAGAATCAGTA
1833550 TTCCATTTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
37 78 0.90
39 9 0.10
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (37 bp):
TGCTCATTTGAGCACATTCAGTAGAATCAGTAGATAT
Found at i:1844831 original size:109 final size:109
Alignment explanation
Indices: 1844640--1844845 Score: 385
Period size: 109 Copynumber: 1.9 Consensus size: 109
1844630 TTTAGAGATA
*
1844640 TGTTTCAGTTATTCTAAAACCTTGCGTTTACCACGATCGACCTTCGGAATTTGTTCCTCGGGGTC
1 TGTTTCAGTTATTCCAAAACCTTGCGTTTACCACGATCGACCTTCGGAATTTGTTCCTCGGGGTC
1844705 TATAACAGCAAAATTAACTCATTAATAACCCATTTTCGGAGTTG
66 TATAACAGCAAAATTAACTCATTAATAACCCATTTTCGGAGTTG
* *
1844749 TGTTTCGGTTATTCCGAAACCTTGCGTTTACCACGATCGACCTTCGGAATTTGTTCCTCGGGGTC
1 TGTTTCAGTTATTCCAAAACCTTGCGTTTACCACGATCGACCTTCGGAATTTGTTCCTCGGGGTC
1844814 TATAACAGCAAAATTAACTCATTAATAACCCA
66 TATAACAGCAAAATTAACTCATTAATAACCCA
1844846 CATTATACAT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 94 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (109 bp):
TGTTTCAGTTATTCCAAAACCTTGCGTTTACCACGATCGACCTTCGGAATTTGTTCCTCGGGGTC
TATAACAGCAAAATTAACTCATTAATAACCCATTTTCGGAGTTG
Found at i:1848558 original size:53 final size:53
Alignment explanation
Indices: 1848492--1848657 Score: 314
Period size: 53 Copynumber: 3.1 Consensus size: 53
1848482 CAGTGCAAGC
1848492 TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCATCCAGGT
1 TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCATCCAGGT
1848545 TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCATCCAGGT
1 TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCATCCAGGT
*
1848598 TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCAGTCCAGGA
1 TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCA-TCCAGGT
1848652 TAAATC
1 TAAATC
1848658 TCTTATATTG
Statistics
Matches: 111, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
53 99 0.89
54 12 0.11
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (53 bp):
TAAATCCCCCATTATATGAACTCATAAGGTGATGTCGGGATTACCATCCAGGT
Found at i:1852107 original size:25 final size:25
Alignment explanation
Indices: 1852077--1852128 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1852067 TAAATCATGA
1852077 AGAGAGAATATGACAGTGTGATTTG
1 AGAGAGAATATGACAGTGTGATTTG
1852102 AGAGAGAATATGACAGTGTGATTTG
1 AGAGAGAATATGACAGTGTGATTTG
1852127 AG
1 AG
1852129 TTGGTATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.27
Consensus pattern (25 bp):
AGAGAGAATATGACAGTGTGATTTG
Found at i:1854106 original size:44 final size:43
Alignment explanation
Indices: 1854045--1854131 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
1854035 CCACTAGGAA
1854045 TTATGTAATCTGAACTCATTGAGTTGT-GTCTGAGTTCATGAT
1 TTATGTAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
*
1854087 TTATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGTTCGTGAT
1 TTATGT-A-ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
1854132 ATGTATGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 6 0.15
43 1 0.02
44 20 0.49
45 14 0.34
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (43 bp):
TTATGTAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
Found at i:1854141 original size:45 final size:44
Alignment explanation
Indices: 1854052--1854141 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
1854042 GAATTATGTA
* *
1854052 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATTTATGTGAC
1 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGAC
* *
1854096 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCGTGATATGTATGAC
1 ATCTGAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGAC
1854141 A
1 A
1854142 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.39
Consensus pattern (44 bp):
ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGAC
Found at i:1858990 original size:20 final size:20
Alignment explanation
Indices: 1858965--1859003 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1858955 ACAAAATCTA
1858965 TGAAAATAATTTAATTTCTG
1 TGAAAATAATTTAATTTCTG
1858985 TGAAAATAATTTAATTTCT
1 TGAAAATAATTTAATTTCT
1859004 CAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (20 bp):
TGAAAATAATTTAATTTCTG
Found at i:1861701 original size:28 final size:28
Alignment explanation
Indices: 1861644--1861712 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
1861634 AATACGCAGT
*
1861644 AAACCACCAGATTCAGATATATGTGGTC
1 AAACCACCAGATACAGATATATGTGGTC
* *
1861672 AAGCCACCAGA-ACAGATATATGTAGTTC
1 AAACCACCAGATACAGATATATGT-GGTC
*
1861700 AAACAACCAGATA
1 AAACCACCAGATA
1861713 AGGCAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 11 0.32
28 22 0.65
29 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (28 bp):
AAACCACCAGATACAGATATATGTGGTC
Found at i:1863285 original size:46 final size:46
Alignment explanation
Indices: 1863235--1863407 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
1863225 TGGTTGAGCA
* *
1863235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * *
1863281 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATTG-TAACTAGGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGAT-ACGA-ACG
1863328 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
1863374 -CCCAAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
1863408 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 6 0.06
46 63 0.59
47 36 0.34
48 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:1863669 original size:19 final size:20
Alignment explanation
Indices: 1863632--1863669 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1863622 ATAAGGTGGT
1863632 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
1863652 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
1863670 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:1874791 original size:22 final size:22
Alignment explanation
Indices: 1874763--1874838 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
1874753 GTGTATATAT
1874763 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
1874785 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
1874809 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
1874832 ATGTGAT
1 ATGTGAT
1874839 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:1874827 original size:47 final size:47
Alignment explanation
Indices: 1874691--1875007 Score: 476
Period size: 47 Copynumber: 6.7 Consensus size: 47
1874681 ATTTTGTTAC
1874691 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTA--TATATGTGATAAGGCCGAATGGCCAATGT
1874740 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGT
1874789 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
1874836 GATGAATGTGAAAGTGTATGTATGTGGTAAGGTCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
1874883 GATGAATATGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * * *
1874930 GATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
*
1874977 GATGGAA-GTGGAAGTGTATA-ACTGTGATAAG
1 GAT-GAATGTGAAAGTGTATATA-TGTGATAAG
1875008 TCCCGAAGGA
Statistics
Matches: 249, Mismatches: 15, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 182 0.73
48 3 0.01
49 61 0.24
51 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:1889452 original size:12 final size:12
Alignment explanation
Indices: 1889435--1889465 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1889425 GGTCAATTGC
1889435 AAATCTCCGGGT
1 AAATCTCCGGGT
*
1889447 AAATCTCCGGTT
1 AAATCTCCGGGT
1889459 AAATCTC
1 AAATCTC
1889466 TGATTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (12 bp):
AAATCTCCGGGT
Found at i:1891516 original size:80 final size:79
Alignment explanation
Indices: 1891432--1891603 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
1891422 GGACTAAGAT
*
1891432 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
1891496 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
1891512 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
1891577 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
1891591 CCGAAGGCATTTG
1 CCGAAGGCATTTG
1891604 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:1891583 original size:39 final size:39
Alignment explanation
Indices: 1891379--1891601 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
1891369 TTGAATGCTG
* * * * *
1891379 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
1891419 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
1891458 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
1891499 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
1891539 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
1891578 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1891602 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:1891621 original size:79 final size:80
Alignment explanation
Indices: 1891459--1891636 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
1891449 AGATACAAAT
* * * *
1891459 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
1891524 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
1891539 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
1891603 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
1891618 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
1891637 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:1899374 original size:40 final size:39
Alignment explanation
Indices: 1899337--1899594 Score: 250
Period size: 40 Copynumber: 6.5 Consensus size: 39
1899327 ATATCCGGAC
1899337 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
1899377 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
1899417 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
1899457 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
1899497 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
1899537 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
1899576 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
1899595 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.17
40 163 0.82
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:1899427 original size:80 final size:80
Alignment explanation
Indices: 1899290--1899592 Score: 344
Period size: 80 Copynumber: 3.8 Consensus size: 80
1899280 TTGAATGCTG
* * * * * **
1899290 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * **
1899353 TTGTGCGAGAT-ACAAA
64 TCGTGCGAGTTGTTAAA
* *
1899369 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1899434 CGTGCGAGTTGTTAAA
65 CGTGCGAGTTGTTAAA
* * **
1899450 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1899515 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * * * * *
1899530 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1899593 TGAACGAGGA
Statistics
Matches: 191, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
79 35 0.18
80 145 0.76
81 11 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:1899506 original size:120 final size:119
Alignment explanation
Indices: 1899290--1899592 Score: 331
Period size: 120 Copynumber: 2.5 Consensus size: 119
1899280 TTGAATGCTG
* * * * * * * *
1899290 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
* * *
1899354 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
1899410 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* ** * * **
1899475 GTGCGAGTTGTTAAA-TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
1899530 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
1899593 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
119 34 0.22
120 113 0.73
121 7 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:1903968 original size:56 final size:54
Alignment explanation
Indices: 1903906--1904041 Score: 157
Period size: 56 Copynumber: 2.4 Consensus size: 54
1903896 GACATAGCAC
*
1903906 GCCTCTCAACAGGGCTACATATGAGCACCCAAACCTAGCATGAATCAC-ATTACCAT
1 GCCTCTCAACAGGGCTACATA--AGCACCCAAACCTAGCATGAACCACAATTA-CAT
* * * *
1903962 GCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCGTGTACCACATAATTACAT
1 GCCTCTCAACAGGGCTACATAAGCACCCAAACCTAGCATGAACCAC--AATTACAT
* *
1904018 GCCTCTCAACGGGGCTACACAAGC
1 GCCTCTCAACAGGGCTACATAAGC
1904042 TCCCGGACCT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
54 20 0.29
56 46 0.66
57 4 0.06
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (54 bp):
GCCTCTCAACAGGGCTACATAAGCACCCAAACCTAGCATGAACCACAATTACAT
Found at i:1905655 original size:21 final size:22
Alignment explanation
Indices: 1905615--1905656 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1905605 TTTAAAACTC
1905615 TAAAAAGAAGATAATATTTATG
1 TAAAAAGAAGATAATATTTATG
* *
1905637 TAAAAAGTATATAAT-TTTAT
1 TAAAAAGAAGATAATATTTAT
1905657 TACTAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (22 bp):
TAAAAAGAAGATAATATTTATG
Found at i:1907409 original size:19 final size:20
Alignment explanation
Indices: 1907382--1907428 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1907372 CAAAAAAAGA
*
1907382 TATACTAAA-ATTTTAATAT
1 TATATTAAATATTTTAATAT
*
1907401 TATATTAAATTTTTTAATAT
1 TATATTAAATATTTTAATAT
1907421 TATATTAA
1 TATATTAA
1907429 TACCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTAAATATTTTAATAT
Found at i:1915566 original size:35 final size:35
Alignment explanation
Indices: 1915520--1915602 Score: 148
Period size: 35 Copynumber: 2.4 Consensus size: 35
1915510 GTTTGGTTGG
1915520 AAATGATCTACTGGCTCTACAAAGCGGCATCATGA
1 AAATGATCTACTGGCTCTACAAAGCGGCATCATGA
* *
1915555 AAATGATCTACTGGCTCTACAGAGCGGCATCATGG
1 AAATGATCTACTGGCTCTACAAAGCGGCATCATGA
1915590 AAATGATCTACTG
1 AAATGATCTACTG
1915603 AATCTTGACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (35 bp):
AAATGATCTACTGGCTCTACAAAGCGGCATCATGA
Found at i:1918635 original size:21 final size:20
Alignment explanation
Indices: 1918609--1918751 Score: 62
Period size: 21 Copynumber: 7.0 Consensus size: 20
1918599 AATTTTAAAT
1918609 AATATATATATAATATAATAA
1 AATATATATATAATATAAT-A
*
1918630 AATATATGGGAAATAATATAATA
1 AATATAT---ATATAATATAATA
* *
1918653 AATATAGCATATAATAATGA-A
1 AATATA-TATATAAT-ATAATA
* * *
1918674 AATTTATATGTAAAAATAATA
1 AATATATATAT-AATATAATA
** * *
1918695 CGTATAAATA-AATGT-AT-
1 AATATATATATAATATAATA
* *
1918712 AATATATGTAAAAATATAAT-
1 AATATATAT-ATAATATAATA
1918732 AATATATATATAATAATAAT
1 AATATATATATAAT-ATAAT
1918752 TATGAGAGAA
Statistics
Matches: 88, Mismatches: 23, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
17 5 0.06
18 3 0.03
19 11 0.12
20 21 0.24
21 27 0.31
22 3 0.03
23 7 0.08
24 11 0.12
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.35
Consensus pattern (20 bp):
AATATATATATAATATAATA
Found at i:1918866 original size:19 final size:20
Alignment explanation
Indices: 1918844--1918887 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
1918834 AAATAAAACA
1918844 AATAATAAAA-AATATATA-G
1 AATAATAAAATAA-ATATAGG
1918863 AATAATAAAATAAATATAGG
1 AATAATAAAATAAATATAGG
1918883 AATAA
1 AATAA
1918888 ATTTAGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
AATAATAAAATAAATATAGG
Found at i:1920093 original size:126 final size:125
Alignment explanation
Indices: 1919869--1920118 Score: 464
Period size: 126 Copynumber: 2.0 Consensus size: 125
1919859 TGGCCTTGAT
* *
1919869 TGGGGAGCTGGACAGACGTTCCCCGAACTTTCAGAAGCAGTTGCGGCGCGAGGGAGAGAGCTAGG
1 TGGGGAGCTGGACAGACGCTCCCCGAACTTCCAGAAGCAGTTGCGGCGCGAGGGAGAGAGCTAGG
1919934 GTTAGAAACCCTAGCTGATGATTTTAGGTTTTGGGCCTCTGAGAGTTTGGGTCAATTGGC
66 GTTAGAAACCCTAGCTGATGATTTTAGGTTTTGGGCCTCTGAGAGTTTGGGTCAATTGGC
*
1919994 TGGGGAGTTGGACAGACGCTCCCCGAACCTTCCAGAAGCAGTTGCGGCGCGAGGGAGAGAGCTAG
1 TGGGGAGCTGGACAGACGCTCCCCGAA-CTTCCAGAAGCAGTTGCGGCGCGAGGGAGAGAGCTAG
1920059 GGTTAGAAACCCTAGCTGATGATTTTAGGTTTTGGGCCTCTGAGAGTTTGGGTCAATTGG
65 GGTTAGAAACCCTAGCTGATGATTTTAGGTTTTGGGCCTCTGAGAGTTTGGGTCAATTGG
1920119 GTCCCTTTTT
Statistics
Matches: 121, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
125 25 0.21
126 96 0.79
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (125 bp):
TGGGGAGCTGGACAGACGCTCCCCGAACTTCCAGAAGCAGTTGCGGCGCGAGGGAGAGAGCTAGG
GTTAGAAACCCTAGCTGATGATTTTAGGTTTTGGGCCTCTGAGAGTTTGGGTCAATTGGC
Found at i:1920900 original size:120 final size:120
Alignment explanation
Indices: 1920687--1921372 Score: 903
Period size: 120 Copynumber: 5.7 Consensus size: 120
1920677 TGAGTCTGTT
* * *
1920687 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACATAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATCA
*
1920752 AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTACCATGTC
66 AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTC
* * * * * *
1920807 TGAGAACATTTGAGAGTCAAATTTGCTATATCCTTGATTTGTTTCTTGTAAACATAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATCA
* * *
1920872 AATCATCTTGGACCTTGCTTTAGTATAAACCTCTTAAGGCTAGATTTGCCATGTC
66 AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTC
* * *
1920927 TGAGAACATCTGAGAGTTAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATCA
* * *
1920992 AATCATCTTGGACCTTGCTTTAGTATAAACCTCTTAAGGCTAGATTTGCCATGTC
66 AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTC
* * *
1921047 TGAGAACATCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAACAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATCA
* * * * * * * * *
1921112 ACTCATCTCGGATC-TACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATT
66 AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTC
* *
1921166 TGAGAACATGTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATCA
* * * * ** *
1921231 AATCATCTTGGATC-TACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATATC
66 AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTC
* * * * * * *
1921285 TAAGAACGTTTGAGAGTCAAATCTGTTATGTCCTCGATTCGTTCCTTGTAAACACAAGAAT-GCG
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATC-
*
1921349 AAATCATCTTGGATC-TGCTTCAGT
65 AAATCATCTTGGACCTTGCTTCAGT
1921373 CTAATTGTAT
Statistics
Matches: 518, Mismatches: 47, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
118 1 0.00
119 219 0.42
120 298 0.58
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (120 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATATCA
AATCATCTTGGACCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTC
Found at i:1929429 original size:15 final size:15
Alignment explanation
Indices: 1929387--1929436 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1929377 ATAACTTTGA
*
1929387 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
*
1929401 ATG-AAATACTATGAG
1 ATGCAAATGC-ATGAG
1929416 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
1929430 ATGCAAA
1 ATGCAAA
1929437 AAGAATATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.33
15 11 0.37
16 5 0.17
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:1933188 original size:19 final size:19
Alignment explanation
Indices: 1933164--1933200 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1933154 AATAAAACAA
*
1933164 ATAATAAAATATATATAGC
1 ATAATAAAATAAATATAGC
1933183 ATAATAAAATAAATATAG
1 ATAATAAAATAAATATAG
1933201 GACTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAAAATAAATATAGC
Found at i:1938331 original size:31 final size:31
Alignment explanation
Indices: 1938282--1938340 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1938272 TTTAAAATAA
1938282 TTTTAAATAATAGTATTTTAAT-TTTTTCAT
1 TTTTAAATAATAGTATTTTAATGTTTTTCAT
*
1938312 TTTTAACATATATA-TATTTTTATGTTTTT
1 TTTTAA-ATA-ATAGTATTTTAATGTTTTT
1938341 ACTTTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 6 0.24
31 11 0.44
32 8 0.32
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (31 bp):
TTTTAAATAATAGTATTTTAATGTTTTTCAT
Found at i:1945099 original size:23 final size:23
Alignment explanation
Indices: 1945057--1945100 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1945047 AGGCATCACA
* **
1945057 GAATACGCCACACATTCTTTACT
1 GAATACGCCACAAAGGCTTTACT
1945080 GAATACGCCACAAAGGCTTTA
1 GAATACGCCACAAAGGCTTTA
1945101 TAGAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (23 bp):
GAATACGCCACAAAGGCTTTACT
Found at i:1947519 original size:28 final size:28
Alignment explanation
Indices: 1947433--1947530 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
1947423 CCTAATAGAT
* ** *
1947433 TTCCACTTATAAGATAGTCCTACCGGGC
1 TTCCACATATAAGATAGTCCTGGCAGGC
* ** *
1947461 TTCCACATATAAGAAAGTTTTGGTAGGC
1 TTCCACATATAAGATAGTCCTGGCAGGC
* *
1947489 TTCCACATATAAGGTAGTCCTGGCAGAC
1 TTCCACATATAAGATAGTCCTGGCAGGC
**
1947517 TTCCATTTATAAGA
1 TTCCACATATAAGA
1947531 CAATCTTGAA
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (28 bp):
TTCCACATATAAGATAGTCCTGGCAGGC
Found at i:1949694 original size:29 final size:29
Alignment explanation
Indices: 1949631--1949698 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
1949621 TAATCAACCG
1949631 CGCACACTTAGTGCCAAGCACTTTAAACT
1 CGCACACTTAGTGCCAAGCACTTTAAACT
* * **
1949660 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCAAGCACTTT-AAACT
1949689 CGCACACTTA
1 CGCACACTTA
1949699 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCAAGCACTTTAAACT
Found at i:1958677 original size:29 final size:29
Alignment explanation
Indices: 1958643--1958716 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
1958633 TAATCAACCG
*
1958643 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
1958672 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
1958701 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
1958717 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:1963757 original size:43 final size:43
Alignment explanation
Indices: 1963695--1963780 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
1963685 GATTTATGTG
*
1963695 GCATCCGAGCTCGTCGAGTGGTCTGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCATCGAGTGGTCTGAGTTCATAATGGATGCGA
*
1963738 GCATCCGAGCTCATTGAGTGGTCTGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCATCGAGTGGTCTGAGTTCATAATGGATGCGA
1963781 TACATGTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCATCGAGTGGTCTGAGTTCATAATGGATGCGA
Found at i:1976316 original size:24 final size:25
Alignment explanation
Indices: 1976289--1976346 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
1976279 ATGAATACAA
*
1976289 ATATTTTTTTAAATA-TAATAAATT
1 ATATTTTTTTAAATATTAATAAAGT
*
1976313 ATATTTATTTAAATATTAATAAAGT
1 ATATTTTTTTAAATATTAATAAAGT
*
1976338 AAATTTTTT
1 ATATTTTTT
1976347 CTCATACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATATTTTTTTAAATATTAATAAAGT
Found at i:1991836 original size:44 final size:44
Alignment explanation
Indices: 1991773--1992453 Score: 1071
Period size: 44 Copynumber: 15.3 Consensus size: 44
1991763 TTACCGATAG
* *
1991773 CAGATTTGGCATCTCTGTATTGACAGAGAGCAAATCAAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1991817 CAGATTTGGCTTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1991861 CAGATTTGGCATCTCTGTATTGACAGAGAGCAAATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1991905 CAAATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1991949 CAGATTTGGCATCTCTGTATTGACAGAGAGCAAATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1991993 CAAATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
1992037 CAGATTTGACGTCTCTGTATTGTCAGAGAGCAGATCAAAGAT-A
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1992080 GCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 -CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1992125 TAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
1992169 CAGATTTGACATCTCTGTATTGACAGAGAGCAGATCAAAGAT-A
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1992212 GCAGATTTGGCATCTCTGTATTGACAGAAAGCAGATCGAAGAT-A
1 -CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1992256 GCAGATTTGGCATCTCTGTATTGACAGAAAGCAGATCGAAGATGA
1 -CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1992301 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
1992345 CAGATTTGACATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
1992389 CAGATTTGACATCTCTGTATTGACTTTGACAGAGAGCAGATCGAAGAGGA
1 CAGATTTGGCATCTCTG---T-A--TTGACAGAGAGCAGATCGAAGATGA
* *
1992439 TAGATTTGGCCTCTC
1 CAGATTTGGCATCTC
1992454 CGCATTAGGC
Statistics
Matches: 594, Mismatches: 33, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
43 2 0.00
44 552 0.93
45 2 0.00
47 1 0.00
48 1 0.00
50 36 0.06
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
Found at i:1996079 original size:22 final size:22
Alignment explanation
Indices: 1996038--1996079 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1996028 GTATTGGTAC
*
1996038 TTGCAAGCCAATAGTTAAGAAA
1 TTGCAAGCCAATAGTCAAGAAA
1996060 TTGCAAGCCAACTA-TCAAGA
1 TTGCAAGCCAA-TAGTCAAGA
1996080 CTTGCTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (22 bp):
TTGCAAGCCAATAGTCAAGAAA
Found at i:2011573 original size:49 final size:47
Alignment explanation
Indices: 2011419--2011591 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 47
2011409 AGATGCCAAC
* * *
2011419 GCCATGTCCTAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCATC-AGGTCGAT
* * *
2011467 GCCATGTCCCAGACAGGTCTTACATTGACTTTCATACATCAAGGAT-GAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCAT-CATC-AGG-TCGAT
**** * *
2011516 ATTGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATC-ATCAG-GTCGAT
2011565 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
2011592 ACACACAACA
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
47 15 0.15
48 18 0.18
49 66 0.66
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCATCAGGTCGAT
Found at i:2029292 original size:50 final size:51
Alignment explanation
Indices: 2029215--2029343 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
2029205 GACCATGGCA
2029215 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GAAAAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGAAAAA-TG
* *
2029266 A-AAGTGATAACTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGAAAAATG
* * *
2029316 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
2029344 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 42 0.60
51 28 0.40
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGAAAAATG
Found at i:2029357 original size:31 final size:31
Alignment explanation
Indices: 2029319--2029459 Score: 196
Period size: 31 Copynumber: 4.6 Consensus size: 31
2029309 ACAAATGACA
*
2029319 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
2029350 AGTGAAAAGTGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2029381 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2029412 AGTG-AAAGTGGTAG-TACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-TCGGCTACCTGATC
* *
2029442 AGCGAATAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
2029460 TGCTACAAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
29 1 0.01
30 27 0.27
31 71 0.71
32 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:2029453 original size:61 final size:62
Alignment explanation
Indices: 2029322--2029458 Score: 206
Period size: 61 Copynumber: 2.2 Consensus size: 62
2029312 AATGACAAGT
* *
2029322 GAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCTGATCAGT
1 GAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCTGATCAGC
* *
2029384 GAAAAGTGGTAGCTCCGGCTACCTGATCAGTG-AAAGTGGTAG-TACCGGCTACCTGATCAGC
1 GAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCT-CCGACTACCTGATCAGC
*
2029445 GAATAGTGGTAGCT
1 GAAAAGTGGTAGCT
2029459 TTGCTACAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
60 1 0.01
61 38 0.55
62 30 0.43
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (62 bp):
GAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCTGATCAGC
Found at i:2029557 original size:47 final size:46
Alignment explanation
Indices: 2029483--2029696 Score: 152
Period size: 47 Copynumber: 4.7 Consensus size: 46
2029473 AAGTGATTTC
* * *
2029483 CGTACAAGACCATATCTGGGATATGGCATCGGTCTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTCAGATATATGATA
* * * *
2029529 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTCAGATATATGATA
* * * * *
2029576 CGTGTAAGACCATAGCTGGGCTATGGCATCGAT-ATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTCA---GATATATGA-TA
* * * *
2029625 CGTGTAAGACCATAGCTGGGCTAT-GC--C-ATC-GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTCAGATATATG-ATA
* * * *
2029667 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
2029697 ATTATGTGAA
Statistics
Matches: 143, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
42 32 0.22
43 3 0.02
45 4 0.03
46 29 0.20
47 39 0.27
48 11 0.08
49 25 0.17
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTCAGATATATGATA
Found at i:2029638 original size:49 final size:47
Alignment explanation
Indices: 2029534--2029705 Score: 205
Period size: 49 Copynumber: 3.7 Consensus size: 47
2029524 TGCTACTGTA
* * * *
2029534 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
2029580 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
* *
2029629 TAAGACCATAGCTGGGCTATGCCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
2029671 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
2029706 AGATGTGTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.01
42 34 0.30
44 1 0.01
45 1 0.01
46 25 0.22
47 1 0.01
48 14 0.12
49 37 0.32
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:2029733 original size:42 final size:42
Alignment explanation
Indices: 2029626--2029740 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
2029616 ATGTGATTAC
* *
2029626 GTGTAAGACCATAGCTGGGCTATGCCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
*
2029668 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
* * **
2029710 GTGTAAAACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
2029741 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:2039496 original size:31 final size:31
Alignment explanation
Indices: 2039458--2039519 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
2039448 CCCTTTAAGT
2039458 ATGAGCTATTTGACATAAAAGATGAGATGGA
1 ATGAGCTATTTGACATAAAAGATGAGATGGA
*
2039489 ATGAGCTATTTGACGTAAAAGATGAGATGGA
1 ATGAGCTATTTGACATAAAAGATGAGATGGA
2039520 GCTCGAGACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.26
Consensus pattern (31 bp):
ATGAGCTATTTGACATAAAAGATGAGATGGA
Found at i:2040933 original size:16 final size:17
Alignment explanation
Indices: 2040905--2040936 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2040895 AAGTAATATA
2040905 ATTTACTTTATATAATT
1 ATTTACTTTATATAATT
2040922 ATTTAC-TTATATAAT
1 ATTTACTTTATATAAT
2040937 AAGTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTACTTTATATAATT
Found at i:2040946 original size:21 final size:20
Alignment explanation
Indices: 2040889--2040947 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 20
2040879 TATATTATAA
2040889 TTATATAAGTAATATAATTTAC
1 TTATATAA-TAATA-AATTTAC
*
2040911 TT-TAT-ATAAT-TATTTAC
1 TTATATAATAATAAATTTAC
2040928 TTATATAATAAGTAAATTTA
1 TTATATAATAA-TAAATTTA
2040948 TATATATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.26
18 3 0.10
19 8 0.26
20 2 0.06
21 8 0.26
22 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TTATATAATAATAAATTTAC
Found at i:2046045 original size:27 final size:26
Alignment explanation
Indices: 2046014--2046191 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
2046004 TAAATTGTAC
2046014 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
2046041 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
2046067 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
2046095 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
2046123 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
2046150 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
2046177 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
2046192 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:2046130 original size:82 final size:81
Alignment explanation
Indices: 2046015--2046170 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
2046005 AAATTGTACA
* * *
2046015 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
2046079 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
2046096 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
2046161 TGCGAGTTGA
65 TGCGAATTGA
2046171 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:2046182 original size:82 final size:81
Alignment explanation
Indices: 2046011--2046191 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
2046001 GATTAAATTG
* * *
2046011 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
2046076 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
2046092 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
2046156 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
2046174 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
2046192 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:2056613 original size:6 final size:6
Alignment explanation
Indices: 2056583--2056645 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
2056573 AAGAAACATT
* * *
2056583 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
2056632 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
2056646 TAGTATCGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.07
6 38 0.83
7 3 0.07
8 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:2056641 original size:31 final size:31
Alignment explanation
Indices: 2056604--2056672 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
2056594 AATCAAAATG
* * *
2056604 AGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAACC
* * *
2056635 AGAATCAGAATTAGTATCGGGTAACAGAACC
1 AGAATCAGAATCAGAATCAGGTAACAGAACC
2056666 AGAATCA
1 AGAATCA
2056673 AAATGTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAACC
Found at i:2057037 original size:22 final size:22
Alignment explanation
Indices: 2057003--2057066 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
2056993 GCAAATATGT
*
2057003 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
2057025 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
2057047 TTGGCACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
2057067 TAATAATTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:2057481 original size:27 final size:27
Alignment explanation
Indices: 2057451--2057645 Score: 266
Period size: 27 Copynumber: 7.2 Consensus size: 27
2057441 GAACAAAATG
* * *
2057451 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
2057478 GTAATTCTACCATATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
2057505 GTAATTCTACCCTA-AAGGGGTATTTCA
1 GTAATTCTACCCTACAA-GGGTATTTCA
* *
2057532 GTAATTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
2057559 GTATTTCTAGCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
2057586 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
2057613 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
2057640 ATAATT
1 GTAATT
2057646 TTTGTAAATT
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:2059736 original size:6 final size:6
Alignment explanation
Indices: 2059706--2059818 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
2059696 AATAAACATT
* * *
2059706 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
2059755 ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATTAGGTA A-CAAA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
2059805 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
2059819 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 7 0.09
6 63 0.77
7 7 0.09
8 5 0.06
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:2059760 original size:25 final size:25
Alignment explanation
Indices: 2059727--2059818 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
2059717 AATCAAAATG
* * *
2059727 AGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATTAGGTAAC
2059752 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATTAGGTAAC
*
2059777 AGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATTAGGTAAC
*
2059802 AAAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
2059819 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTAAC
Found at i:2060178 original size:21 final size:22
Alignment explanation
Indices: 2060149--2060204 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
2060139 ATACGTTTGC
*
2060149 CACACAGCCATAAACA-GTTGG
1 CACAAAGCCATAAACAGGTTGG
* ***
2060170 CACAGAGCCATATGTAGGTTGG
1 CACAAAGCCATAAACAGGTTGG
2060192 CACAAAGCCATAA
1 CACAAAGCCATAA
2060205 TCAGAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (22 bp):
CACAAAGCCATAAACAGGTTGG
Found at i:2064865 original size:24 final size:20
Alignment explanation
Indices: 2064823--2064862 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2064813 TAATATCCCT
2064823 TTCAAGAGTAAAAACAACTA
1 TTCAAGAGTAAAAACAACTA
2064843 TTCAAGAGTAAAAACAACTA
1 TTCAAGAGTAAAAACAACTA
2064863 ACTCTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
TTCAAGAGTAAAAACAACTA
Found at i:2066543 original size:19 final size:20
Alignment explanation
Indices: 2066511--2066553 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
2066501 GCCATTTTTA
2066511 TTTTTATTGCAATT-TAATT
1 TTTTTATTGCAATTATAATT
**
2066530 TTTTTATTTTAATTACTAATT
1 TTTTTATTGCAATTA-TAATT
2066551 TTT
1 TTT
2066554 CTTTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTATTGCAATTATAATT
Found at i:2066558 original size:25 final size:24
Alignment explanation
Indices: 2066505--2066562 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
2066495 ACTTTAGCCA
* *
2066505 TTTTTATTTTTATTGCAATTTAATT
1 TTTTTATTTTAATTACAATTT-ATT
2066530 TTTTTATTTTAATTACTAATTT-TT
1 TTTTTATTTTAATTAC-AATTTATT
*
2066554 CTTTTATTT
1 TTTTTATTT
2066563 GCTTTTGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.34
25 14 0.48
26 5 0.17
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTTATTTTAATTACAATTTATT
Found at i:2068392 original size:16 final size:16
Alignment explanation
Indices: 2068371--2068406 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2068361 AACGTTGAAA
2068371 AGGCACTAGCTGATTT
1 AGGCACTAGCTGATTT
2068387 AGGCACTAGCTGATTT
1 AGGCACTAGCTGATTT
2068403 AGGC
1 AGGC
2068407 GCTACCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (16 bp):
AGGCACTAGCTGATTT
Found at i:2074650 original size:17 final size:17
Alignment explanation
Indices: 2074603--2074650 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
2074593 TTTGAGTCTA
* *
2074603 TTTATTTTCACTTTGTT
1 TTTATTTTTATTTTGTT
* * *
2074620 TTTCTTTCTCTTTTGTT
1 TTTATTTTTATTTTGTT
2074637 TTTATTTTTATTTT
1 TTTATTTTTATTTT
2074651 AATTTTTCAT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTTGTT
Found at i:2078428 original size:93 final size:93
Alignment explanation
Indices: 2078323--2078694 Score: 735
Period size: 93 Copynumber: 4.0 Consensus size: 93
2078313 TTAAAATATG
*
2078323 TTAGTTTTATCATTTATCAAATATCCCGACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
1 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
2078388 AACTCACATTAAAATTAATCTTTCTCAA
66 AACTCACATTAAAATTAATCTTTCTCAA
2078416 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
1 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
2078481 AACTCACATTAAAATTAATCTTTCTCAA
66 AACTCACATTAAAATTAATCTTTCTCAA
2078509 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
1 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
2078574 AACTCACATTAAAATTAATCTTTCTCAA
66 AACTCACATTAAAATTAATCTTTCTCAA
2078602 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
1 TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
2078667 AACTCACATTAAAATTAATCTTTCTCAA
66 AACTCACATTAAAATTAATCTTTCTCAA
2078695 CTTATAATTC
Statistics
Matches: 278, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 278 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (93 bp):
TTAGTTTTATCATTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTC
AACTCACATTAAAATTAATCTTTCTCAA
Found at i:2083151 original size:6 final size:6
Alignment explanation
Indices: 2083140--2083208 Score: 93
Period size: 6 Copynumber: 11.0 Consensus size: 6
2083130 GTTTAAGGAC
*
2083140 ATAAAA ATAAAACA ACTAAAA ATAAAA ATAAAA ATAAAG ATAAAA ATAAAA
1 ATAAAA AT-AAA-A A-TAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
2083191 ATAAAA CTAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA
2083209 GAAATGAACT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
6 45 0.80
7 5 0.09
8 5 0.09
9 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.16
Consensus pattern (6 bp):
ATAAAA
Done.