Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 78 of 182
Found at i:24698319 original size:95 final size:91
Alignment explanation
Indices: 24698023--24698330 Score: 329
Period size: 95 Copynumber: 3.4 Consensus size: 91
24698013 GTAGTTTCAA
* * ** * * *
24698023 CTGCCCCTCTCGA-TTAGGGGTAAAAGATTGGATGATGGGTTCAATCTGCCCCATGGTCGAGGTA
1 CTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCATGATAGGGGTA
* *
24698087 AGAGATTGGATA--G-TGTCTTAAAT
66 AGAAATTAGATAGTGATGTCTTAAAT
* * * * *
24698110 CTGCCCCTCTTGATTTAGGAGTAAAAGAATGGATGGTGGCTTCAATCTGCCCCATGATCGGGGTA
1 CTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCATGATAGGGGTA
* * * *
24698175 AGAAATTGGATAGTGCTATCTTTAAT
66 AGAAATTAGATAGTGATGTCTTAAAT
* * *
24698201 CCGCCTCTCTTGACTTAGAGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCACTTGACTTAGG
1 CTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCA--TGA--TAGG
* *
24698266 GGTAA-AAGATTAGATGGTGATGTCTTCAAT
62 GGTAAGAA-ATTAGATAGTGATGTCTTAAAT
24698296 CTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
1 CTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
24698331 ATGATGTAAC
Statistics
Matches: 186, Mismatches: 26, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
87 12 0.06
88 56 0.30
90 1 0.01
91 55 0.30
93 3 0.02
94 2 0.01
95 57 0.31
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (91 bp):
CTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCATGATAGGGGTA
AGAAATTAGATAGTGATGTCTTAAAT
Found at i:24698561 original size:96 final size:96
Alignment explanation
Indices: 24698341--24698795 Score: 440
Period size: 96 Copynumber: 4.9 Consensus size: 96
24698331 ATGATGTAAC
* * * * * *
24698341 TTCACTCCATTCCACTGTAGCCTCAAGGACATTGAGCTCTG-TT-ACCTGTTTTGA-CCTACTTC
1 TTCACTCCACTCTACTGTAACCTCAGGGACATTGAGCTCTGCTTCA-TTGTTTTGATCC-ACTTT
*
24698403 TCTGTATCTCATCAGGAAGAT-GGGTATGAAGT
64 TCTGTATCTCATCAGGAAGATGGGGTTTGAAGT
* * * *
24698435 TTCACTTCACTCCACTATAACCTCAGGGACATTGAGCCCTGCTTCATTGTTTTGATCCACTTTTC
1 TTCACTCCACTCTACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTGTTTTGATCCACTTTTC
* *
24698500 TGTATCGCATCAGGAACATGGGGTTTGAAGT
66 TGTATCTCATCAGGAAGATGGGGTTTGAAGT
* * *
24698531 TTCACTCCACTCTACTGTAACCTTAGGGACATTGAGGTCTGCTTCATTGTTTTGATCCAGTTTT-
1 TTCACTCCACTCTACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTGTTTTGATCCACTTTTC
* *
24698595 TGTATCTTATCAAGAAGATGGGGTTTG-A--
66 TGTATCTCATCAGGAAGATGGGGTTTGAAGT
* * * * *
24698623 ---ACTCCA--CTA---TAAACTCAGGGACATTAAGCTTTGCTTCATTATTTTGATTCACTTCTT
1 TTCACTCCACTCTACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTGTTTTGATCCACTT-TT
*
24698680 -TGTATCTCATCAGGAATATGGGGTTTGAAGT
65 CTGTATCTCATCAGGAAGATGGGGTTTGAAGT
* * * ** * * * * *
24698711 TTCACTCTACTCTATTGTAACCTCAAGGATGTTTAGCTCTACTTCATTGTTTTGGTCCAGTTCTC
1 TTCACTCCACTCTACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTGTTTTGATCCACTTTTC
* *
24698776 TGTGTCTAATCAGGAAGATG
66 TGTATCTCATCAGGAAGATG
24698796 ACTGCTACAT
Statistics
Matches: 295, Mismatches: 49, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
84 37 0.13
85 26 0.09
86 1 0.00
87 3 0.01
89 6 0.02
91 5 0.02
93 3 0.01
94 36 0.12
95 57 0.19
96 121 0.41
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (96 bp):
TTCACTCCACTCTACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTGTTTTGATCCACTTTTC
TGTATCTCATCAGGAAGATGGGGTTTGAAGT
Found at i:24698758 original size:180 final size:181
Alignment explanation
Indices: 24698443--24698795 Score: 485
Period size: 180 Copynumber: 2.0 Consensus size: 181
24698433 GTTTCACTTC
* * *
24698443 ACTCCACTATAACCTCAGGGACATTGAGCCCTGCTTCATTGTTTTGATCCACTTTTCTGTATCGC
1 ACTCCACTATAAACTCAGGGACATTAAGCCCTGCTTCATTATTTTGATCCACTTTTCTGTATCGC
* * * *
24698508 ATCAGGAACATGGGGTTTGAAGTTTCACTCCACTCTACTGTAACCTTAGGGACATTGAGGTCTGC
66 ATCAGGAACATGGGGTTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACATTGAGCTCTAC
* *
24698573 TTCATTGTTTTGATCCAGTT-TTTGTATCTTATCAAGAAGATGGGGTTTGA
131 TTCATTGTTTTGATCCAGTTCTCTGTATCTAATCAAGAAGATGGGGTTTGA
** * *
24698623 ACTCCACTATAAACTCAGGGACATTAAGCTTTGCTTCATTATTTTGATTCACTTCTT-TGTATCT
1 ACTCCACTATAAACTCAGGGACATTAAGCCCTGCTTCATTATTTTGATCCACTT-TTCTGTATCG
* * * ** *
24698687 CATCAGGAATATGGGGTTTGAAGTTTCACTCTACTCTATTGTAACCTCAAGGATGTTTAGCTCTA
65 CATCAGGAACATGGGGTTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACATTGAGCTCTA
* * *
24698752 CTTCATTGTTTTGGTCCAGTTCTCTGTGTCTAATCAGGAAGATG
130 CTTCATTGTTTTGATCCAGTTCTCTGTATCTAATCAAGAAGATG
24698796 ACTGCTACAT
Statistics
Matches: 149, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
180 129 0.87
181 20 0.13
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (181 bp):
ACTCCACTATAAACTCAGGGACATTAAGCCCTGCTTCATTATTTTGATCCACTTTTCTGTATCGC
ATCAGGAACATGGGGTTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACATTGAGCTCTAC
TTCATTGTTTTGATCCAGTTCTCTGTATCTAATCAAGAAGATGGGGTTTGA
Found at i:24698875 original size:145 final size:144
Alignment explanation
Indices: 24698664--24699062 Score: 588
Period size: 145 Copynumber: 2.8 Consensus size: 144
24698654 TGCTTCATTA
* * * *
24698664 TTTTGATTCACTTCTTTGTATCTCATCAGGAATATGGGGTTTGAAGTTTCACTCTACTCTATTGT
1 TTTTGATCCACTTCTCTGTATCTAATCAGGAATATGGGGTTTGAAGTTTCACTCTACTCCATTGT
* * *
24698729 AACCTCAAGGATGTTTAGCTCTACTTCATTGTTTTGGTCCAGTTCTCTGTGTCTAATCAGGAAGA
66 AACCTCAAGGATGTTGAGCTCTACTTCATTGTTTTGGTCCACTTCTCTGTATCTAATCAGGAAGA
24698794 TGA-CTGCTACATAG
131 TGATC-GCTACATAG
* * *
24698808 TTTTGATCCACTTCTCTGTATCTTATCAGGAAGATGAGGGTTAGAAGTTTCACTCTACTCCATTG
1 TTTTGATCCACTTCTCTGTATCTAATCAGGAATATG-GGGTTTGAAGTTTCACTCTACTCCATTG
* * *
24698873 TAACCTC-AGAGATGTTGAGCTCTACTTAATTGTTTTGGTCCACTTCTTTGTATCTCATCAGGAA
65 TAACCTCAAG-GATGTTGAGCTCTACTTCATTGTTTTGGTCCACTTCTCTGTATCTAATCAGGAA
* *
24698937 GATGATCGCTTCATCG
129 GATGATCGCTACATAG
24698953 TTTTGATCCACTTCTCTGTATCTAATCAGGAATATGGGGGTTTGAAGTTTCACTCTACTCCACTT
1 TTTTGATCCACTTCTCTGTATCTAATCAGGAATAT-GGGGTTTGAAGTTTCACTCTACTCCA-TT
*
24699018 -TAACCTCAAGGATGTTGAGCTCTACTTCATTGTTTTGGTTCACTT
64 GTAACCTCAAGGATGTTGAGCTCTACTTCATTGTTTTGGTCCACTT
24699063 TGGTTAAAAT
Statistics
Matches: 230, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
144 34 0.15
145 190 0.83
146 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (144 bp):
TTTTGATCCACTTCTCTGTATCTAATCAGGAATATGGGGTTTGAAGTTTCACTCTACTCCATTGT
AACCTCAAGGATGTTGAGCTCTACTTCATTGTTTTGGTCCACTTCTCTGTATCTAATCAGGAAGA
TGATCGCTACATAG
Found at i:24704626 original size:30 final size:30
Alignment explanation
Indices: 24704551--24704738 Score: 136
Period size: 30 Copynumber: 6.3 Consensus size: 30
24704541 GGAAAAACGA
*
24704551 GGTCAAAA-ATGAAATTTTGGAAAGTTCGAG
1 GGTCAAAACAT-AAATTTTAGAAAGTTCGAG
* *
24704581 GG-CTAAATTCA-AAATTTTAGAAAGTTTGAG
1 GGTC-AAA-ACATAAATTTTAGAAAGTTCGAG
* * * **
24704611 GGTTAAAATATAAATTTT-GAAAAATTTAAG
1 GGTCAAAACATAAATTTTAG-AAAGTTCGAG
* * * *
24704641 GGTCAAAAAATAATTTTTAGAAAGTTTGGG
1 GGTCAAAACATAAATTTTAGAAAGTTCGAG
* * * *
24704671 GGT--GAACATAACTTTTAGAATGTTCAAG
1 GGTCAAAACATAAATTTTAGAAAGTTCGAG
* *
24704699 GGTCAAAACATAATTTTTAAAAAGTTCGAG
1 GGTCAAAACATAAATTTTAGAAAGTTCGAG
24704729 GGTCAAAACA
1 GGTCAAAACA
24704739 CCATTTTTAA
Statistics
Matches: 123, Mismatches: 26, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
28 21 0.17
29 3 0.02
30 97 0.79
31 1 0.01
32 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (30 bp):
GGTCAAAACATAAATTTTAGAAAGTTCGAG
Found at i:24706877 original size:48 final size:48
Alignment explanation
Indices: 24706806--24706899 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
24706796 CATGGAGCTT
* *
24706806 CGTTTCATTGTTTCGGTCCACTTCTCTATATCTCATCAAGAAGATGAC
1 CGTTTCATTATTTCGATCCACTTCTCTATATCTCATCAAGAAGATGAC
* * * *
24706854 CGTTTCATTATTTTGATCCACTTCTCTGTATCTCATTAGGAAGATG
1 CGTTTCATTATTTCGATCCACTTCTCTATATCTCATCAAGAAGATG
24706900 GGGTTTGAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (48 bp):
CGTTTCATTATTTCGATCCACTTCTCTATATCTCATCAAGAAGATGAC
Found at i:24706895 original size:123 final size:123
Alignment explanation
Indices: 24706737--24707164 Score: 545
Period size: 123 Copynumber: 3.5 Consensus size: 123
24706727 GCTCTACTTT
* * * * *
24706737 ATTATTTTGATCCATTTCTTTGTATCTCATCAGGAAGACAAGGTTTGAAGTTTCACTCACATGGA
1 ATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAGTTTCACTCACATTGA
* *
24706802 GCTTCGTTTCATTGTTTCGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGTTTC
66 GCTTCGCTTCATTGTTTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGTTTC
* * *
24706860 ATTATTTTGATCCACTTCTCTGTATCTCATTAGGAAGATGGGGTTTGAAGTTTCACTCA-AGTTA
1 ATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAGTTTCACTCACA-TTG
* * * * * *
24706924 AGCTCCACTTCATTGTTTTGATCCACTTCCCTATATCTTATCAAGAAGATGATCGTTTC
65 AGCTTCGCTTCATTGTTTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGTTTC
* * * *
24706983 ATTAGTTTGATCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTAAAGTTTCACTCACATTGA
1 ATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAGTTTCACTCACATTGA
* * * * * * **
24707048 GTTTCGCTTCATTATTTTTGTCCACTTCTCTGTATCTCAT-AAGGAAGATAACTGCATC
66 GCTTCGCTTCATTGTTTTGGTCCACTTCTCTATATCTCATCAA-GAAGATGACCGTTTC
* *
24707106 ATCATTTTGATCCACTTCTCTGTATCTCATTAGGAAGATAGGGGTTTGAAGTTTCACTC
1 ATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATA-GGGTTTGAAGTTTCACTC
24707165 TACTCCATTA
Statistics
Matches: 260, Mismatches: 41, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
122 3 0.01
123 239 0.92
124 18 0.07
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (123 bp):
ATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAGTTTCACTCACATTGA
GCTTCGCTTCATTGTTTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGTTTC
Found at i:24707338 original size:48 final size:48
Alignment explanation
Indices: 24707052--24707325 Score: 202
Period size: 48 Copynumber: 5.7 Consensus size: 48
24707042 CATTGAGTTT
* *
24707052 CGCTTCATTATTTTTG-TCCACTTCTCTGTATCTCATAAGGAAGATAAC
1 CGCTTCATTA-TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAC
* * * * *
24707100 TGCATCATCATTTTGATCCACTTCTCTGTATCTCATTAGGAAGAT-AG
1 CGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAC
* * * * * * ** * * * *
24707147 GGGTT--TGAAGTTTCACTCTAC-TC-CAT-TATAACCTTAGGGATGTTGAGC
1 CGCTTCAT-TATTTTGA-TCCACTTCTC-TGTATCTCATCA-GGAAGATGA-C
* *
24707195 TCTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGAC
1 -C-GCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAC
* *
24707245 CGCTTCATCATTTTGTTCCACTTCTCTGTATCTCATCAGGAAGATGAC
1 CGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAC
* *
24707293 CGCTTCATTATTTTGATCTACTTCTTTGTATCT
1 CGCTTCATTATTTTGATCCACTTCTCTGTATCT
24707326 TATTTGGAAG
Statistics
Matches: 173, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
45 9 0.05
46 13 0.08
47 13 0.08
48 108 0.62
49 1 0.01
50 8 0.05
51 13 0.08
52 8 0.05
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (48 bp):
CGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAC
Found at i:24707407 original size:72 final size:74
Alignment explanation
Indices: 24707295--24707453 Score: 214
Period size: 72 Copynumber: 2.2 Consensus size: 74
24707285 AAGATGACCG
* * ** **
24707295 CTTCATTATTTTGATCTACTTCTTTGTATCTTATTTGGAAGATGGGGTTTGAAGTTTCACTCATG
1 CTTCATTATTTTGATC-ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACA
*
24707360 TTGAGCTTCA
65 TTGAGCTCCA
24707370 CTTCATTATTTTGA-C-CTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACAT
1 CTTCATTATTTTGATCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACAT
24707433 TGAGCTCCA
66 TGAGCTCCA
* *
24707442 CTTTATTGTTTT
1 CTTCATTATTTT
24707454 ACCCCACTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
72 60 0.80
74 1 0.01
75 14 0.19
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (74 bp):
CTTCATTATTTTGATCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACAT
TGAGCTCCA
Found at i:24707554 original size:42 final size:42
Alignment explanation
Indices: 24707507--24707691 Score: 244
Period size: 42 Copynumber: 4.4 Consensus size: 42
24707497 TCTTAACATA
* ** *
24707507 GGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCGTGGTC
1 GGGGTAAGAGATTGGATGATAACTTCAATCTGCCCCATGGTC
** *
24707549 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGGTC
1 GGGGTAAGAGATTGGATGATAACTTCAATCTGCCCCATGGTC
* *
24707591 GAGGTAAGAGATTGGATGATAACTTCAATCTGCCCCATGGTT
1 GGGGTAAGAGATTGGATGATAACTTCAATCTGCCCCATGGTC
* * *
24707633 GGGGTAAGAGAATGGATGATAACTTCAATCTGCCCTATGATC
1 GGGGTAAGAGATTGGATGATAACTTCAATCTGCCCCATGGTC
* *
24707675 GAGGTAAGAAATTGGAT
1 GGGGTAAGAGATTGGAT
24707692 AGCGATGTCT
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (42 bp):
GGGGTAAGAGATTGGATGATAACTTCAATCTGCCCCATGGTC
Found at i:24707916 original size:46 final size:46
Alignment explanation
Indices: 24707505--24708022 Score: 369
Period size: 46 Copynumber: 11.5 Consensus size: 46
24707495 TCTCTTAACA
* *
24707505 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCC--GTG--G
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* * * * *
24707547 TCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTC-A-TG--G
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* * * ** *
24707589 TCGAGGTAAGAGATTGGATGATAACTTCAATCTGCCCC-A-TG-GT
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* * **
24707632 T-GGGGTAAGAGAATGGATGATAACTTCAATCTG-CCCTA-TGA--
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* * * * *
24707673 TCGAGGTAAGAA-ATTGGATAGCGATGTCTTCAATCTACCCCTCTTGACT
1 TAGGGGTAA-AAGATTGGAT---GATGGCTTCAATCTGCCCCTATTGACT
* * * *
24707722 TAGGGGTAAAAGATTGGATGGTGGTTTTAATTTGCCCC-A-TGA-T
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* * * *
24707765 T-GGGGTAAGAA-ATTGGACAGTGATGTCTTCAATTTGTCCCTCTTGACT
1 TAGGGGTAA-AAGATTGG--A-TGATGGCTTCAATCTGCCCCTATTGACT
* * * *
24707813 TAGGGGTAAAAGATTGGATGGTGATGTCTTTAATCTGCCCCTCTTAACT
1 TAGGGGTAAAAGATTGGA---TGATGGCTTCAATCTGCCCCTATTGACT
* *
24707862 TAGAGGTAAAAGATTGGACGATGGCTTCAATCTGCCCCTATTGACT
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* * * * * * *
24707908 TAGGGGTAAAAGATTGGGTAACGGCTTCAATATGTCCCTCTTAACT
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
* *
24707954 TAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGACT
1 TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
*
24708000 TAGGGGTAAAAGATTAGATGATG
1 TAGGGGTAAAAGATTGGATGATG
24708023 ATGTAACTTT
Statistics
Matches: 390, Mismatches: 61, Indels: 46
0.78 0.12 0.09
Matches are distributed among these distances:
41 4 0.01
42 131 0.34
43 6 0.02
44 4 0.01
45 27 0.07
46 137 0.35
47 7 0.02
48 6 0.02
49 68 0.17
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (46 bp):
TAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCTATTGACT
Found at i:24708330 original size:49 final size:49
Alignment explanation
Indices: 24708277--24708481 Score: 142
Period size: 49 Copynumber: 4.1 Consensus size: 49
24708267 TCTACATTTT
* *
24708277 TAGGGTATAAGATTTGCTATTGCGACTTCAATCTTTCCCTTCACATCTC
1 TAGGGTATAAGATTTGCTGTTGCGACTTCAACCTTTCCCTTCACATCTC
* * ** * * * * * ** *
24708326 TAGGGTATATGGTTCACCGTTGTGGCTTCCACCTTTCCTTTTTCATCTT
1 TAGGGTATAAGATTTGCTGTTGCGACTTCAACCTTTCCCTTCACATCTC
* * * * * **
24708375 TAGGGTATAAGATTTGCTGTTGCGGCTTTAATCTTTCCTTTCACACCAG
1 TAGGGTATAAGATTTGCTGTTGCGACTTCAACCTTTCCCTTCACATCTC
* * * * *
24708424 TAAGGTATCAAGATTTG-TCGTGGCGACTTCAACCTTTCCCATCTCGTCTTC
1 TAGGGTAT-AAGATTTGCT-GTTGCGACTTCAACCTTTCCCTTCACATC-TC
24708475 TAGGGTA
1 TAGGGTA
24708482 GGATTCAAAG
Statistics
Matches: 112, Mismatches: 41, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
49 78 0.70
50 28 0.25
51 6 0.05
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (49 bp):
TAGGGTATAAGATTTGCTGTTGCGACTTCAACCTTTCCCTTCACATCTC
Found at i:24709364 original size:19 final size:19
Alignment explanation
Indices: 24709313--24709364 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
24709303 TCTTGACCTC
24709313 TCCTTTTTCTTTTTCTTCT
1 TCCTTTTTCTTTTTCTTCT
*
24709332 TCTTTTTTCTTTTTTCTT-T
1 TCCTTTTTC-TTTTTCTTCT
*
24709351 TCCCTTTTTGTTTT
1 T-CCTTTTTCTTTT
24709365 GGTTTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (19 bp):
TCCTTTTTCTTTTTCTTCT
Found at i:24710385 original size:144 final size:142
Alignment explanation
Indices: 24710072--24710566 Score: 703
Period size: 144 Copynumber: 3.5 Consensus size: 142
24710062 GGGAATATGA
* *
24710072 GGTTTGAAGTTTCACTCTACTCCACTGTAACCTCAGGGATGTTAAGCTCTACTTCATTATTTTGG
1 GGTTTGAAGTTTCACTCTACTCCACTGTAACCTTAGGGATGTTGAGCTCTACTTCATTATTTTGG
*
24710137 TC-CTTCTGTGTATCTCAT-CAGAAAGATGA-CTGCTTCATCGTTTTATCCACTTCTCTGTATCT
66 TCACTTCTCTGTATCTCATCCAG-AAGATGATC-GCTTCATCGTTTTATCCACTTCTCTGTATCT
* *
24710199 CATCAG-GAAGATGGG
129 AATCAGAG-AGAT-AG
* *
24710214 GGTTTGAAGTTTCACTCTACTCCACTGTAACCGTAGGGATGTTGAGCTCTACTTCATTGTTTTGG
1 GGTTTGAAGTTTCACTCTACTCCACTGTAACCTTAGGGATGTTGAGCTCTACTTCATTATTTTGG
*
24710279 TCCACTTCTCTGTATCTCATCCAGAAGATGATCGCTTCATCGTTTTGATCCACTTATCTGTATCT
66 T-CACTTCTCTGTATCTCATCCAGAAGATGATCGCTTCATCGTTTT-ATCCACTTCTCTGTATCT
*
24710344 AATTAGAGAGATAG
129 AATCAGAGAGATAG
* *
24710358 GGTTTGAAGTTTCACTTTACTCCACTGTAACCTTAGGGATGTTGAGCTCTACTTCATTGTTTTGG
1 GGTTTGAAGTTTCACTCTACTCCACTGTAACCTTAGGGATGTTGAGCTCTACTTCATTATTTTGG
** * *
24710423 TACACTTCTCTGTATCTCATCTGGAAGATGATCGCTTCATCGTTTTAAACGACTTCTCTGTATCT
66 T-CACTTCTCTGTATCTCATCCAGAAGATGATCGCTTCATCGTTTT-ATCCACTTCTCTGTATCT
24710488 AATCA-AGGAGATAGG
129 AATCAGA-GAGATA-G
* * *
24710503 GGTTTGAAGTTTCACTCTACTCTACTATAACCTTAGGGATGTTGAGCTCTGCTTCATTATTTTG
1 GGTTTGAAGTTTCACTCTACTCCACTGTAACCTTAGGGATGTTGAGCTCTACTTCATTATTTTG
24710567 ATCGACTTTG
Statistics
Matches: 321, Mismatches: 24, Indels: 13
0.90 0.07 0.04
Matches are distributed among these distances:
142 62 0.19
143 2 0.01
144 167 0.52
145 89 0.28
146 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (142 bp):
GGTTTGAAGTTTCACTCTACTCCACTGTAACCTTAGGGATGTTGAGCTCTACTTCATTATTTTGG
TCACTTCTCTGTATCTCATCCAGAAGATGATCGCTTCATCGTTTTATCCACTTCTCTGTATCTAA
TCAGAGAGATAG
Found at i:24711435 original size:17 final size:14
Alignment explanation
Indices: 24711417--24711455 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
24711407 TCTCGACCCT
24711417 TTTCTTTTTCTTTTTC
1 TTTCTTTTTC--TTTC
24711433 TTT-TTTTTCTTTC
1 TTTCTTTTTCTTTC
24711446 TTTCTTTTTC
1 TTTCTTTTTC
24711456 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 6 0.27
16 3 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:24711441 original size:15 final size:17
Alignment explanation
Indices: 24711421--24711454 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24711411 GACCCTTTTC
24711421 TTTTTC-TT-TTTCTTT
1 TTTTTCTTTCTTTCTTT
24711436 TTTTTCTTTCTTTCTTT
1 TTTTTCTTTCTTTCTTT
24711453 TT
1 TT
24711455 CCTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTT
Found at i:24711445 original size:13 final size:13
Alignment explanation
Indices: 24711417--24711465 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
24711407 TCTCGACCCT
*
24711417 TTTCTTTTTCTT-
1 TTTCTTTTTTTTC
24711429 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
24711442 TTTCTTTCTTTTTC
1 TTTCTTT-TTTTTC
*
24711456 -CTCTTTTTTT
1 TTTCTTTTTTT
24711466 ACCTCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 15 0.45
13 12 0.36
14 6 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:24711475 original size:13 final size:12
Alignment explanation
Indices: 24711431--24711476 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
24711421 TTTTTCTTTT
*
24711431 TCTTTTTTTTCTT
1 TCTTTTTTTTC-C
24711444 TCTTTCTTTTTCC
1 TCTTT-TTTTTCC
*
24711457 TCTTTTTTTACC
1 TCTTTTTTTTCC
24711469 TCTTTTTT
1 TCTTTTTT
24711477 GATAACATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 14 0.47
13 10 0.33
14 6 0.20
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTTTTCC
Found at i:24714695 original size:29 final size:30
Alignment explanation
Indices: 24714661--24714995 Score: 157
Period size: 30 Copynumber: 11.4 Consensus size: 30
24714651 GGAAATAAAA
*
24714661 AAGGGTCAAAAATG-AAGT-TTCGGAGAATTT
1 AAGGGTCAAAAATGTAA-TCTT-GGAAAATTT
24714691 -AGGGTC-AAAATGTAATCTTGGAAAATTT
1 AAGGGTCAAAAATGTAATCTTGGAAAATTT
* * * *
24714719 AAGGGTC-AAAATGTAATTTTTTGAAAGTTC
1 AAGGGTCAAAAATGTAA-TCTTGGAAAATTT
* * * * *
24714749 AAGGGT-TAAAATGTGATCTTAGTAAAGTTC
1 AAGGGTCAAAAATGTAATCTT-GGAAAATTT
** * * *
24714779 AAGGGTC-AAAATGCGATTTTGGGAGAGTTT
1 AAGGGTCAAAAATGTAATCTT-GGAAAATTT
*
24714809 -AGGGTC-AAAATGTAATTTTGGAAAAGTTT
1 AAGGGTCAAAAATGTAATCTTGGAAAA-TTT
* * *
24714838 AAGAGT-TAAAATGTAATTTTGGAAAAGTTT
1 AAGGGTCAAAAATGTAATCTTGGAAAA-TTT
* * *
24714868 AAGGGT-TAAAATGAAATTTTGGAAAAGTTT
1 AAGGGTCAAAAATGTAATCTTGGAAAA-TTT
* * *
24714898 -AGGGTC-AAAATGTGATTTTGGGAGAATTT
1 AAGGGTCAAAAATGTAATCTT-GGAAAATTT
* *
24714927 -AGGGT-TAAAATGTAATATTGGAAAAGTTT
1 AAGGGTCAAAAATGTAATCTTGGAAAA-TTT
* * *
24714956 AGGGGT--AAAATGCAAT-TTTGATAAATTT
1 AAGGGTCAAAAATGTAATCTTGGA-AAATTT
*
24714984 CTAGGGTCAAAA
1 -AAGGGTCAAAA
24714996 TGGAAATTTT
Statistics
Matches: 253, Mismatches: 33, Indels: 37
0.78 0.10 0.11
Matches are distributed among these distances:
28 31 0.12
29 102 0.40
30 117 0.46
31 3 0.01
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (30 bp):
AAGGGTCAAAAATGTAATCTTGGAAAATTT
Found at i:24714835 original size:89 final size:87
Alignment explanation
Indices: 24714691--24715043 Score: 340
Period size: 89 Copynumber: 4.0 Consensus size: 87
24714681 CGGAGAATTT
* * *
24714691 AGGGTCAAAATGTAATCTTGGAAAA-TTTAAGGGTCAAAATGTAATTTTTTG-AAAGTTCAAGGG
1 AGGGT-AAAATGCAATTTTGGAAAAGTTT-AGGGTCAAAATGTAA-TTTTGGAAAAGTT-AAGGG
* * * * *
24714754 TTAAAATGTGATCTTAGTAAAGTTCA
62 TTAAAATGTAATATTGGAAAAGTTTA
* * * *
24714780 AGGGTCAAAATGCGATTTTGGGAGAGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAAGAGTT
1 AGGGT-AAAATGCAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAG-TTAAGGGTT
*
24714845 AAAATGTAATTTTGGAAAAGTTTA
64 AAAATGTAATATTGGAAAAGTTTA
* * * *
24714869 AGGGTTAAAATGAAATTTTGGAAAAGTTTAGGGTCAAAATGTGATTTTGGGAGAA-TTTAGGGTT
1 AGGG-TAAAATGCAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTT-GGAAAAGTTAAGGGTT
24714933 AAAATGTAATATTGGAAAAGTTTA
64 AAAATGTAATATTGGAAAAGTTTA
* * * * *
24714957 GGGGTAAAATGCAATTTT-GATAAATTTCTAGGGTCAAAATGGAAATTTT-GAAAAGCT-CGAGG
1 AGGGTAAAATGCAATTTTGGA-AAAGTT-TAGGGTCAAAAT-GTAATTTTGGAAAAGTTAAG-GG
* *
24715019 TCAAAATGTAATTTTGGAAAAGTTT
62 TTAAAATGTAATATTGGAAAAGTTT
24715044 GGGATCAATT
Statistics
Matches: 223, Mismatches: 31, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
86 2 0.01
87 23 0.10
88 76 0.34
89 111 0.50
90 11 0.05
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (87 bp):
AGGGTAAAATGCAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTAAGGGTTAA
AATGTAATATTGGAAAAGTTTA
Found at i:24715051 original size:29 final size:29
Alignment explanation
Indices: 24714662--24715051 Score: 323
Period size: 29 Copynumber: 13.3 Consensus size: 29
24714652 GAAATAAAAA
* *
24714662 AGGGTCAAAAATG-AAGTTTCGGAGAA-TTT
1 AGGGTC-AAAATGTAA-TTTTGGAAAAGTTT
*
24714691 AGGGTCAAAATGTAATCTTGGAAAA-TTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTT
* *
24714719 AAGGGTCAAAATGTAATTTTTTG-AAAGTTCA
1 -AGGGTCAAAATGTAA-TTTTGGAAAAGTT-T
* * * * * *
24714750 AGGGTTAAAATGTGATCTTAGTAAAGTTCA
1 AGGGTCAAAATGTAATTTTGGAAAAGTT-T
** * *
24714780 AGGGTCAAAATGCGATTTTGGGAGAGTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTT
24714809 AGGGTCAAAATGTAATTTTGGAAAAGTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTT
* *
24714838 AAGAGTTAAAATGTAATTTTGGAAAAGTTT
1 -AGGGTCAAAATGTAATTTTGGAAAAGTTT
* *
24714868 AAGGGTTAAAATGAAATTTTGGAAAAGTTT
1 -AGGGTCAAAATGTAATTTTGGAAAAGTTT
* *
24714898 AGGGTCAAAATGTGATTTTGGGAGAA-TTT
1 AGGGTCAAAATGTAATTTT-GGAAAAGTTT
* *
24714927 AGGGTTAAAATGTAATATTGGAAAAGTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTT
* *
24714956 AGGGGT-AAAATGCAATTTT-GATAAATTTCT
1 A-GGGTCAAAATGTAATTTTGGA-AAAGTT-T
* *
24714986 AGGGTCAAAATGGAAATTTT-GAAAAG-CT
1 AGGGTCAAAAT-GTAATTTTGGAAAAGTTT
*
24715014 CGAGGTCAAAATGTAATTTTGGAAAAGTTT
1 AG-GGTCAAAATGTAATTTTGGAAAAGTTT
24715044 -GGGATCAA
1 AGGG-TCAA
24715052 TTTTTTTTTA
Statistics
Matches: 301, Mismatches: 42, Indels: 36
0.79 0.11 0.09
Matches are distributed among these distances:
28 34 0.11
29 134 0.45
30 124 0.41
31 9 0.03
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (29 bp):
AGGGTCAAAATGTAATTTTGGAAAAGTTT
Found at i:24715760 original size:3 final size:3
Alignment explanation
Indices: 24715752--24715778 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24715742 TCCCCTTTAG
24715752 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
24715779 TTAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24716235 original size:28 final size:29
Alignment explanation
Indices: 24716173--24716242 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
24716163 ATCTTTAATT
* *
24716173 TTGATATCAATTGCTTCCTGTATTTTCTA
1 TTGATTTCAAATGCTTCCTGTATTTTCTA
* *
24716202 TTGATTTCAAATGCTTCGTGT-TTTTGTA
1 TTGATTTCAAATGCTTCCTGTATTTTCTA
*
24716230 TTGATTTCGAATG
1 TTGATTTCAAATG
24716243 TTGGTGTGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (29 bp):
TTGATTTCAAATGCTTCCTGTATTTTCTA
Found at i:24717411 original size:210 final size:210
Alignment explanation
Indices: 24717011--24717598 Score: 955
Period size: 210 Copynumber: 2.8 Consensus size: 210
24717001 ATCTCTTGGT
* *
24717011 CTACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAAGTTTCACTCACATTGAGCTTTTGCTT
1 CTACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCACATTGAGC-TTCGCTT
* * *
24717076 CATTGAATTGGTCTACTTCTCTATATCTCATCAGGAAGACGACCGCTTCATTGTTTTAATCCACT
65 CATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATTCACT
* * *
24717141 TCTCTGTATCTCATCAGGAAGACGGA-TTTGGATCACCTCTCTGCATCTCGTAAGGAAGATGATC
130 TCTCTGTATCTCATCAGGAAGAAGGATTTTGGTTCACTTCTCTGCATCTCGTAAGGAAGATGATC
24717205 ACTTTATTGCTTCGAC
195 ACTTTATTGCTTCGAC
* * * *
24717221 CTACTTCTCTGTATCTCATTAAGAAGATTGGGTTTGGAAGTTTCACTCATATTGAGCTTCGCTTC
1 CTACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTC
*
24717286 ATTGAATTGGTCTACTTCTCGATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATTCACTT
66 ATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATTCACTT
* *
24717351 CTCTGTCTCTCATCAGGAAGAAGGATTTTGGTTCACTTCTCTGCATTTCGTCAA-GAAGATGATC
131 CTCTGTATCTCATCAGGAAGAAGGATTTTGGTTCACTTCTCTGCATCTCGT-AAGGAAGATGATC
24717415 ACTTTATTGCTTCGAC
195 ACTTTATTGCTTCGAC
* * * * * *
24717431 CCACTTTTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTAAGCTTCGCTTC
1 CTACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTC
24717496 ATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATTCACTT
66 ATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATTCACTT
24717561 CTCTGTATCTCATCAGGAAGAAGGATTTTGGTTCACTT
131 CTCTGTATCTCATCAGGAAGAAGGATTTTGGTTCACTT
24717599 TATTGCTTCG
Statistics
Matches: 351, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
209 92 0.26
210 257 0.73
211 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (210 bp):
CTACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTC
ATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATTCACTT
CTCTGTATCTCATCAGGAAGAAGGATTTTGGTTCACTTCTCTGCATCTCGTAAGGAAGATGATCA
CTTTATTGCTTCGAC
Found at i:24717715 original size:180 final size:180
Alignment explanation
Indices: 24717413--24717778 Score: 603
Period size: 180 Copynumber: 2.0 Consensus size: 180
24717403 AAGAAGATGA
*
24717413 TCACTTTATTGCTTCGACCCACTTTTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACT
1 TCACTTTATTGCTTCGACCCACTTCTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACT
24717478 CACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTT
66 CACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTT
*
24717543 CATTGTTTTAATTC-ACTTCTCTGTATCTCATCAGGAAGA-AGGATTTTGGT
131 CATTGTTTTAATCCAAC-TCTCTGTATCTCATCAGGAAGATA-GATTTTGGT
24717593 TCACTTTATTGCTTCGACCCACTTCTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACT
1 TCACTTTATTGCTTCGACCCACTTCTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACT
* * *** **
24717658 CACATTGAA-CTTTGCTTCATTGAATTGGTCTAGTTCTTTGTATCTCATCAGGAAGATGGTCGCT
66 CACATT-AAGCTTCGCTTCATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCT
24717722 TCATTGTTTTAATCCAACTCTCTGTATCTCATCAGGAAGATAGATTTTGGT
130 TCATTGTTTTAATCCAACTCTCTGTATCTCATCAGGAAGATAGATTTTGGT
24717773 TCACTT
1 TCACTT
24717779 CTTTGCATTT
Statistics
Matches: 174, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
180 169 0.97
181 5 0.03
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (180 bp):
TCACTTTATTGCTTCGACCCACTTCTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACT
CACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCGCTT
CATTGTTTTAATCCAACTCTCTGTATCTCATCAGGAAGATAGATTTTGGT
Found at i:24717922 original size:390 final size:384
Alignment explanation
Indices: 24717203--24718355 Score: 1427
Period size: 390 Copynumber: 3.0 Consensus size: 384
24717193 AGGAAGATGA
* *
24717203 TCACTTTATTGCTTCGACCTACTTCTCTGTATCTCATTAAGAAGATTGGGTTTGGAAGTTTCACT
1 TCACTTTATTGCTTCGACC-ACTTCT-TGTATCTCATCAAGAAGATAGGGTTTGGAAGTTTCACT
* *
24717268 CATATTGAGCTTCGCTTCATTGAATTGGTCTACTTC-TCGATATCTCATCAGGAAGAT-GACCGC
64 CATATTGAGCTTTGCTTCATTGAATTGGTCTACTTCTTTG-TATCTCATCAGGAAGATGGA-CGC
* *
24717331 TTCATTGTTTTAATTCACTTCTCTGTCTCTCATCAGGAAGAAGGATTTTGGTTCACTTCTCTGCA
127 TTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGAA-GATTTTGGTTCACTTCTCTGCA
* * * *
24717396 TTTCGTCAAGAAGATGATCACTTTATTGCTTCGACCCACTTTTTTGTACCTCATCAGGAAGATGG
191 TTTCGTCAGGAAGATGATCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGAT-G
* **
24717461 GGTTTGGAAGTTTCACTCACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCAATATCTCAT
255 GGTTT-GAAGTTTCACTTACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTCAT
*
24717526 CAGGAAGATGACCGCTTCATTGTTTTAATTCACTTCTCTGTATCTCATCAGGAAGAAGGATTTTG
319 CAGGAAGATGACCGCTTCATTATTTTAATTCACTTCTCTGTATCTCATCAGGAAGAAGGA-TTTG
24717591 GT
383 GT
* * *
24717593 TCACTTTATTGCTTCGACCCACTTCTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACT
1 TCACTTTATTGCTTCGA-CCACTTC-TTGTATCTCATCAAGAAGATAGGGTTTGGAAGTTTCACT
* * * *
24717658 CACATTGAACTTTGCTTCATTGAATTGGTCTAGTTCTTTGTATCTCATCAGGAAGATGGTCGCTT
64 CATATTGAGCTTTGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGGACGCTT
*
24717723 CATTGTTTTAATCCAAC-TCTCTGTATCTCATCAGGAAGATAGATTTTGGTTCACTTCTTTGCAT
129 CATTGTTTTAATCC-ACTTCTCTGTATCTCATCAGGAAGA-AGATTTTGGTTCACTTCTCTGCAT
*
24717787 TTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATAGG
192 TTCGTCAGGAAGATGATCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGAT-GG
*
24717852 GTTTGAAAGTTTCACTTACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATC
256 GTTTG-AAGTTTCACTTACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTCATC
* *
24717917 AGGAAGATGACCGCTTCATTATTTTAATTCACTTCTCTGTATCTCATTAGGAAGACGGATTTGG-
320 AGGAAGATGACCGCTTCATTATTTTAATTCACTTCTCTGTATCTCATCAGGAAGAAGGATTTGGT
* * *
24717981 T-A---TA---CTT------C-TC-TGTATCTTATCAAGAAGATAGGGTTT-GAAGTCTCATTCA
1 TCACTTTATTGCTTCGACCACTTCTTGTATCTCATCAAGAAGATAGGGTTTGGAAGTTTCACTCA
* * * * *
24718030 TATTGAGCTTTACTTCATTGATTTGGTCTACTTCTCTGCATCTCATTAGGAAGAT-GACTGCTTC
66 TATTGAGCTTTGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGGAC-GCTTC
* * ** * * *
24718094 ATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGGCGGA-TTTGGTCCACTTCTCTGTATCT
130 ATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAA-GAAGATTTTGGTTCACTTCTCTGCATTT
* * * * * *
24718158 CATCAGAAATATGATCGCTTTATTGCTTTGACCCACTTCTCTGTATCCCATCAGGAAGATGAGGT
194 CGTCAGGAAGATGATCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATG-GGT
* * * *
24718223 TTGAAGTCTCA-TT-CGTATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTCTGTATCTCATCA
258 TTGAAGTTTCACTTAC--ATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTCATCA
* * ** * * **
24718286 GGAAGATGACCGCTTTATTAATTTAAACCACATCTCTGTATCTCATCAAGAAGGTGGATTTGGT
321 GGAAGATGACCGCTTCATTATTTTAATTCACTTCTCTGTATCTCATCAGGAAGAAGGATTTGGT
*
24718350 CCACTT
1 TCACTT
24718356 CTCTGTCTCT
Statistics
Matches: 674, Mismatches: 71, Indels: 53
0.84 0.09 0.07
Matches are distributed among these distances:
366 1 0.00
367 2 0.00
368 105 0.16
369 81 0.12
370 97 0.14
371 23 0.03
373 2 0.00
374 1 0.00
381 3 0.00
384 2 0.00
387 1 0.00
388 1 0.00
389 6 0.01
390 340 0.50
391 9 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (384 bp):
TCACTTTATTGCTTCGACCACTTCTTGTATCTCATCAAGAAGATAGGGTTTGGAAGTTTCACTCA
TATTGAGCTTTGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGGACGCTTCA
TTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGAAGATTTTGGTTCACTTCTCTGCATTTCG
TCAGGAAGATGATCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATGGGTTTG
AAGTTTCACTTACATTAAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTCATCAGGAAG
ATGACCGCTTCATTATTTTAATTCACTTCTCTGTATCTCATCAGGAAGAAGGATTTGGT
Found at i:24717956 original size:210 final size:210
Alignment explanation
Indices: 24717594--24717971 Score: 616
Period size: 210 Copynumber: 1.8 Consensus size: 210
24717584 GATTTTGGTT
* * *
24717594 CACTTTATTGCTTCGACCCACTTCTTTGTACCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTC
1 CACTTTATTGCTTCGACCCACTTCTCTGTACCTCATCAGGAAGATAGGGTTTGAAAGTTTCACTC
* * **
24717659 ACATTGAACTTTGCTTCATTGAATTGGTCTAGTTCTTTGTATCTCATCAGGAAGATGGTCGCTTC
66 ACATTGAACTTCGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTTC
*
24717724 ATTGTTTTAATCCAACTCTCTGTATCTCATCAGGAAGATAGATTTTGGTTCACTTCTTTGCATTT
131 ATTATTTTAATCCAACTCTCTGTATCTCATCAGGAAGATAGATTTTGGTTCACTTCTTTGCATTT
24717789 CGTCAGGAAGATGAC
196 CGTCAGGAAGATGAC
* *
24717804 CACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAAGTTTCACTT
1 CACTTTATTGCTTCGACCCACTTCTCTGTACCTCATCAGGAAGATAGGGTTTGAAAGTTTCACTC
24717869 ACATT-AAGCTTCGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTT
66 ACATTGAA-CTTCGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTT
* *
24717933 CATTATTTTAATTC-ACTTCTCTGTATCTCATTAGGAAGA
130 CATTATTTTAATCCAAC-TCTCTGTATCTCATCAGGAAGA
24717972 CGGATTTGGT
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
209 4 0.03
210 150 0.97
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (210 bp):
CACTTTATTGCTTCGACCCACTTCTCTGTACCTCATCAGGAAGATAGGGTTTGAAAGTTTCACTC
ACATTGAACTTCGCTTCATTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTTC
ATTATTTTAATCCAACTCTCTGTATCTCATCAGGAAGATAGATTTTGGTTCACTTCTTTGCATTT
CGTCAGGAAGATGAC
Found at i:24718083 original size:160 final size:161
Alignment explanation
Indices: 24717822--24718162 Score: 481
Period size: 160 Copynumber: 2.1 Consensus size: 161
24717812 TGCTTCGACC
* * *
24717822 CACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGAAAGTTTCACTTACATTAAGCTTCGCTTCA
1 CACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAAGTCTCACTTACATTAAGCTTCACTTCA
* * *
24717887 TTGAATTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATT-ATTTTAATTCACTT
66 TTGAATTGGTCTACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTGA-TTTAATCCACTT
* *
24717951 CTCTGTATCTCATTAGGAAGACGGATTTGGTA
130 CTCTGTATCTCATCAAGAAGACGGATTTGGTA
* * * * *
24717983 TACTTCTCTGTATCTTATCAAGAAGATAGGGTTTG-AAGTCTCA-TTCATATTGAGCTTTACTTC
1 CACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAAGTCTCACTT-ACATTAAGCTTCACTTC
* * *
24718046 ATTGATTTGGTCTACTTCTCTGCATCTCATTAGGAAGATGACTGCTTCATTGATTTAATCCACTT
65 ATTGAATTGGTCTACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTT
* *
24718111 CTCTGTATCTCATCAAGAAGGCGGATTTGGTC
130 CTCTGTATCTCATCAAGAAGACGGATTTGGTA
24718143 CACTTCTCTGTATCTCATCA
1 CACTTCTCTGTATCTCATCA
24718163 GAAATATGAT
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
159 2 0.01
160 123 0.78
161 33 0.21
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (161 bp):
CACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAAGTCTCACTTACATTAAGCTTCACTTCA
TTGAATTGGTCTACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
TCTGTATCTCATCAAGAAGACGGATTTGGTA
Found at i:24718195 original size:85 final size:85
Alignment explanation
Indices: 24718049--24718215 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 85
24718039 TTACTTCATT
* * * *
24718049 GATTTGGTCTACTTCTCTGCATCTCATTAGGAAGATGACTGCTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATGACTGCTTCATTGATTTAACCCACTTCTC
*
24718114 TGTATCTCATCAAGAAGGCG
66 TGTATCCCATCAAGAAGGCG
* * * * *
24718134 GATTTGGTCCACTTCTCTGTATCTCATCAGAAATATGA-TCGCTTTATTGCTTTGACCCACTTCT
1 GATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATGACT-GCTTCATTGATTTAACCCACTTCT
*
24718198 CTGTATCCCATCAGGAAG
65 CTGTATCCCATCAAGAAG
24718216 ATGAGGTTTG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATGACTGCTTCATTGATTTAACCCACTTCTC
TGTATCCCATCAAGAAGGCG
Found at i:24718246 original size:208 final size:207
Alignment explanation
Indices: 24717984--24718438 Score: 667
Period size: 208 Copynumber: 2.2 Consensus size: 207
24717974 GATTTGGTAT
* * * *
24717984 ACTTCTCTGTATCTTATCAAGAAGATAGGGTTTGAAGTCTCATTCATATTGAGCTTTACTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATA-GGTTTGAAGTCTCATTCATATTGAGCTTCACTTAATT
* * * * *
24718049 GATTTGGTCTACTTCTCTGCATCTCATTAGGAAGATGACTGCTTCATTGATTTAATCCACTTCTC
65 GATTTGGTCTACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTAATTTAAACCACATCTC
* * *
24718114 TGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGAAATATGATCGCTTT
130 TGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATAAGAAAGATGACCGCTTT
24718179 ATTGCTTTGACCC
195 ATTGCTTTGACCC
* * *
24718192 ACTTCTCTGTATCCCATCAGGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTAATT
1 ACTTCTCTGTATCTCATCAGGAAGAT-AGGTTTGAAGTCTCATTCATATTGAGCTTCACTTAATT
* *
24718257 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTAATTTAAACCACATCTC
65 GATTTGGTCTACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTAATTTAAACCACATCTC
* * * * *
24718322 TGTATCTCATCAAGAAGGTGGATTTGGTCCACTTCTCTGTCTCTCATAAGGAGGATGACCTCTTT
130 TGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATAAGAAAGATGACCGCTTT
24718387 ATTGCTTTGACCC
195 ATTGCTTTGACCC
*
24718400 ACTTCTTTGTATCTCATCAGGAAGATAAGGTTTTGAAGT
1 ACTTCTCTGTATCTCATCAGGAAGAT-AGG-TTTGAAGT
24718439 TTCACTCTTC
Statistics
Matches: 220, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
208 211 0.96
209 9 0.04
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (207 bp):
ACTTCTCTGTATCTCATCAGGAAGATAGGTTTGAAGTCTCATTCATATTGAGCTTCACTTAATTG
ATTTGGTCTACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTAATTTAAACCACATCTCT
GTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATAAGAAAGATGACCGCTTTA
TTGCTTTGACCC
Found at i:24718411 original size:85 final size:85
Alignment explanation
Indices: 24718257--24718423 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
24718247 TCGCTTAATT
* *
24718257 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTAATTTAAACCACATCTC
1 GATTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGACCGCTTTATTAATTTAAACCACATCTC
24718322 TGTATCTCATCAAGAAGGTG
66 TGTATCTCATCAAGAAGGTG
* * * ** * * * *
24718342 GATTTGGTCCACTTCTCTGTCTCTCATAAGGAGGATGACCTCTTTATTGCTTTGACCCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGACCGCTTTATTAATTTAAACCACATCTC
*
24718407 TGTATCTCATCAGGAAG
66 TGTATCTCATCAAGAAG
24718424 ATAAGGTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGACCGCTTTATTAATTTAAACCACATCTC
TGTATCTCATCAAGAAGGTG
Found at i:24726612 original size:30 final size:29
Alignment explanation
Indices: 24726572--24726917 Score: 327
Period size: 29 Copynumber: 11.8 Consensus size: 29
24726562 TTTCGAGGAA
* *
24726572 TTTAGGGTTAAAATGTAATCTTAGAAAAA
1 TTTAGGGTTAAAATGTAATTTTAGAAAAG
* *
24726601 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
1 TTTA-GGGTTAAAATGTAATTTTAGAAAAG
* * *
24726631 TTTAAGGGTTAAAATGTGATTTTGGTAAAG
1 TTT-AGGGTTAAAATGTAATTTTAGAAAAG
* * * * * *
24726661 TTCAAGGGTCAAAATGTGATTTTAGGAGAT
1 TT-TAGGGTTAAAATGTAATTTTAGAAAAG
*
24726691 TTTAAGGTTAAAATGTAATTTTA-AAGAAG
1 TTTAGGGTTAAAATGTAATTTTAGAA-AAG
** *
24726720 TTTAGGGGTTAAAATACAATATTAGAAAAG
1 TTTA-GGGTTAAAATGTAATTTTAGAAAAG
* * *
24726750 TTTAGGGTCAAAATGGAATTTAAGAAAAG
1 TTTAGGGTTAAAATGTAATTTTAGAAAAG
* * *
24726779 TTTAGGGGTCAAAATGAAATTTTGGAAAA-
1 TTTA-GGGTTAAAATGTAATTTTAGAAAAG
* * * *
24726808 TTTAGGGGTTAAAATGTGATTTTGGGAGAG
1 TTTA-GGGTTAAAATGTAATTTTAGAAAAG
* *
24726838 TTTAGTGTTAAAATGTAATATTAGAAAAG
1 TTTAGGGTTAAAATGTAATTTTAGAAAAG
* *
24726867 TTTAGGGGTAAAATGTAATTTTGGAAAAG
1 TTTAGGGTTAAAATGTAATTTTAGAAAAG
*
24726896 TTTAGGGTTAAAATTTAATTTT
1 TTTAGGGTTAAAATGTAATTTT
24726918 TTTAAAGTTT
Statistics
Matches: 260, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.00
29 138 0.53
30 118 0.45
31 3 0.01
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTAGGGTTAAAATGTAATTTTAGAAAAG
Found at i:24726734 original size:59 final size:58
Alignment explanation
Indices: 24726572--24726917 Score: 302
Period size: 59 Copynumber: 5.9 Consensus size: 58
24726562 TTTCGAGGAA
* * *
24726572 TTTAGGGTTAAAATGTAATCTTAGAAAAATTTAGGGGTTAAAATGTAATTTTTGGAAAG
1 TTTAGGGTTAAAATGTAATTTTA-AAAAGTTTAGGGGTTAAAATGTAATTTTAGGAAAG
* ** * * * * * *
24726631 TTTAAGGGTTAAAATGTGATTTTGGTAAAGTTCAAGGGTCAAAATGTGATTTTAGGAGAT
1 TTT-AGGGTTAAAATGTAATTTT-AAAAAGTTTAGGGGTTAAAATGTAATTTTAGGAAAG
* ** * *
24726691 TTTAAGGTTAAAATGTAATTTTAAAGAAGTTTAGGGGTTAAAATACAATATTAGAAAAG
1 TTTAGGGTTAAAATGTAATTTTAAA-AAGTTTAGGGGTTAAAATGTAATTTTAGGAAAG
* * * * * *
24726750 TTTAGGGTCAAAATGGAATTTAAGAAAAGTTTAGGGGTCAAAATGAAATTTT-GGAAAA
1 TTTAGGGTTAAAATGTAATTTTA-AAAAGTTTAGGGGTTAAAATGTAATTTTAGGAAAG
* ** * * * *
24726808 TTTAGGGGTTAAAATGTGATTTTGGGAGAGTTTA-GTGTTAAAATGTAATATTAGAAAAG
1 TTTA-GGGTTAAAATGTAATTTT-AAAAAGTTTAGGGGTTAAAATGTAATTTTAGGAAAG
* * *
24726867 TTTAGGGGTAAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATTTAATTTT
1 TTTAGGGTTAAAATGTAATTTT-AAAAAGTTTAGGGGTTAAAATGTAATTTT
24726918 TTTAAAGTTT
Statistics
Matches: 224, Mismatches: 56, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
58 63 0.28
59 113 0.50
60 48 0.21
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (58 bp):
TTTAGGGTTAAAATGTAATTTTAAAAAGTTTAGGGGTTAAAATGTAATTTTAGGAAAG
Found at i:24726939 original size:30 final size:29
Alignment explanation
Indices: 24726863--24726948 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
24726853 TAATATTAGA
** * ***
24726863 AAAGTTTAGGGGTAAAATGTAATTTTGGA
1 AAAGTTTAGGATTAAAATATAATTTTTTT
* *
24726892 AAAGTTTAGGGTTAAAATTTAATTTTTTT
1 AAAGTTTAGGATTAAAATATAATTTTTTT
*
24726921 AAAGTTTGAGGATTAAAATATGATTTTT
1 AAAGTTT-AGGATTAAAATATAATTTTT
24726949 AATAAAATAG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 31 0.65
30 17 0.35
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (29 bp):
AAAGTTTAGGATTAAAATATAATTTTTTT
Found at i:24727962 original size:30 final size:29
Alignment explanation
Indices: 24727928--24727996 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
24727918 TAGTTTCGAA
*
24727928 ATAATAAATAAATCT-AATAATATATATAAT
1 ATAATAAATAAATATAAAT-ATATATAT-AT
* *
24727958 ATAATTAACAAATATAAATATATATATAT
1 ATAATAAATAAATATAAATATATATATAT
24727987 ATAATAAATA
1 ATAATAAATA
24727997 TACCTTGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 20 0.61
31 3 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
ATAATAAATAAATATAAATATATATATAT
Found at i:24728085 original size:29 final size:28
Alignment explanation
Indices: 24728048--24728116 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
24728038 TCTTTAATTC
* *
24728048 TGATATCAATTGCTTCCTATATTTTCTAT
1 TGATTTCAAATGCTTCCTAT-TTTTCTAT
* * * *
24728077 TGATTTCAAATGTTTCGTGTTTTTGTAT
1 TGATTTCAAATGCTTCCTATTTTTCTAT
*
24728105 TGATTTCGAATG
1 TGATTTCAAATG
24728117 TTGGTGTGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (28 bp):
TGATTTCAAATGCTTCCTATTTTTCTAT
Found at i:24733669 original size:30 final size:30
Alignment explanation
Indices: 24733635--24733762 Score: 148
Period size: 30 Copynumber: 4.3 Consensus size: 30
24733625 GCTAATTTTG
* * *
24733635 AATTTTTGGAAAGTTTAGGGGTTAAAATAT
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* * * *
24733665 AATTTTTGGAAAATTAATGGGTCAAAACAT
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* *
24733695 AATTTTTAAAAAGTTTAGGGGTTAAAACAT
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* *
24733725 AATTTTTAGAAAGTTTGGGGGTCAAAACAC
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
*
24733755 CATTTTTA
1 AATTTTTA
24733763 AATGAAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (30 bp):
AATTTTTAGAAAGTTTAGGGGTCAAAACAT
Found at i:24733747 original size:60 final size:60
Alignment explanation
Indices: 24733635--24733764 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 60
24733625 GCTAATTTTG
** * * * *
24733635 AATTTTTGGAAAGTTTAGGGGTTAAAATATAATTTTTGGAAAATTAATGGGTCAAAACAT
1 AATTTTTAAAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAATTAAGGGGTCAAAACAC
* **
24733695 AATTTTTAAAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAGTTTGGGGGTCAAAACAC
1 AATTTTTAAAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAATTAAGGGGTCAAAACAC
*
24733755 CATTTTTAAA
1 AATTTTTAAA
24733765 TGAAATAAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (60 bp):
AATTTTTAAAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAATTAAGGGGTCAAAACAC
Found at i:24736368 original size:4 final size:4
Alignment explanation
Indices: 24736359--24736389 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
24736349 AAAAAAGGAA
*
24736359 AAAG AAAG AAAG AAAG AAAG AAAA AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
24736390 AGGGTCGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24736390 original size:8 final size:8
Alignment explanation
Indices: 24736348--24736390 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
24736338 AAAAAGAGGT
24736348 AAAAAAAG
1 AAAAAAAG
*
24736356 -GAAAAAG
1 AAAAAAAG
*
24736363 AAAGAAAG
1 AAAAAAAG
*
24736371 AAAGAAAG
1 AAAAAAAG
24736379 AAAAAAAG
1 AAAAAAAG
24736387 AAAA
1 AAAA
24736391 GGGTCGAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:24736453 original size:6 final size:6
Alignment explanation
Indices: 24736436--24736475 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
24736426 CTTAAAACCC
*
24736436 AAGAAA AGGAAA AAGAAA AAG-AA AAG-AA AAG-AA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
24736476 GAAGGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 15 0.48
6 16 0.52
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:24736460 original size:5 final size:5
Alignment explanation
Indices: 24736436--24736478 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
24736426 CTTAAAACCC
24736436 AAGAA AAGGAAA AAGAAA AAGAA AAGAA AAGAA AAGAA AAGAA
1 AAGAA AA-G-AA AAG-AA AAGAA AAGAA AAGAA AAGAA AAGAA
24736479 GGAAAAGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 24 0.67
6 8 0.22
7 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:24737355 original size:18 final size:17
Alignment explanation
Indices: 24737328--24737377 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 17
24737318 AGAGAGAAAA
24737328 GAAAAGAAAAGAAAAAGG
1 GAAAA-AAAAGAAAAAGG
*
24737346 GAAAATAAAA-AAGAA--
1 GAAAA-AAAAGAAAAAGG
24737361 GAAAAAAAAGAAAAAGG
1 GAAAAAAAAGAAAAAGG
24737378 AGAGGTCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
17 4 0.15
18 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
GAAAAAAAAGAAAAAGG
Found at i:24737362 original size:23 final size:23
Alignment explanation
Indices: 24737306--24737366 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
24737296 TTTACCCTCA
*
24737306 AAAAAAG-AGAAGAGAGAGAAAAG
1 AAAAAAGAAGAA-AAAGAGAAAAG
* *
24737329 AAAAGAA-AAGAAAAAGGGAAAAT
1 AAAA-AAGAAGAAAAAGAGAAAAG
24737352 AAAAAAGAAGAAAAA
1 AAAAAAGAAGAAAAA
24737367 AAAGAAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.06
23 24 0.75
24 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAGAAAAAGAGAAAAG
Found at i:24738469 original size:21 final size:21
Alignment explanation
Indices: 24738440--24738479 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24738430 AAGTTACATA
24738440 TTATATATTTTAC-TTATTTAT
1 TTATATATTTT-CTTTATTTAT
*
24738461 TTATTTATTTTCTTTATTT
1 TTATATATTTTCTTTATTT
24738480 TGCAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATATATTTTCTTTATTTAT
Found at i:24741012 original size:21 final size:21
Alignment explanation
Indices: 24740988--24741042 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24740978 TTACGGTCAT
24740988 AAATAATTAATTAAAGTATTA
1 AAATAATTAATTAAAGTATTA
*
24741009 AAATAATATAA-TAATGTATTA
1 AAATAAT-TAATTAAAGTATTA
**
24741030 TTAT-ATTAATTAA
1 AAATAATTAATTAA
24741043 TCTAAAACGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 5 0.17
21 18 0.62
22 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AAATAATTAATTAAAGTATTA
Found at i:24742449 original size:30 final size:30
Alignment explanation
Indices: 24742415--24742756 Score: 260
Period size: 30 Copynumber: 11.5 Consensus size: 30
24742405 TTTAGGAGAA
*
24742415 TTTAGGGTTAAAATGTAATTTTTAGAAAAG
1 TTTAGGGTTAAAATGTGATTTTTAGAAAAG
* *
24742445 TTTAGGGGTAAAAT-T-ATAATTTTAGAAGAG
1 TTTAGGGTTAAAATGTGAT--TTTTAGAAAAG
* *
24742475 TTTAGGGTTAAAATGTGA-TTTTGGTAAAG
1 TTTAGGGTTAAAATGTGATTTTTAGAAAAG
* * *
24742504 TTTGAGGGTTAAAATGT-AATTTTGGAGAAG
1 TTT-AGGGTTAAAATGTGATTTTTAGAAAAG
* * * * *
24742534 TTTAGGGGTCAAATG-CAATTTTAGAGAAG
1 TTTAGGGTTAAAATGTGATTTTTAGAAAAG
** * * *
24742563 CTCGAGGGTCAAAATGTGATTTCT-GAGAAG
1 -TTTAGGGTTAAAATGTGATTTTTAGAAAAG
* * *
24742593 TTCGAGGGCTAAAATGTGATTTTTA-AGAAG
1 TT-TAGGGTTAAAATGTGATTTTTAGAAAAG
* *
24742623 TTAAGGGGTCAAAATGTGACTTTTT-G-AAAG
1 TTTA-GGGTTAAAATGTGA-TTTTTAGAAAAG
24742653 TTTAAGGGTTAAAATGTGATTTTTAG-AAAG
1 TTT-AGGGTTAAAATGTGATTTTTAGAAAAG
*
24742683 TTTAAGGGTT-AAATGTGATTTTT-GGAAAG
1 TTT-AGGGTTAAAATGTGATTTTTAGAAAAG
*
24742712 TTTAGGGGTCAAAATGTGATTTTTAG-AAAG
1 TTTA-GGGTTAAAATGTGATTTTTAGAAAAG
*
24742742 TTCGAGGGTTAAAAT
1 TT-TAGGGTTAAAAT
24742757 ATATTTTAAA
Statistics
Matches: 259, Mismatches: 32, Indels: 42
0.78 0.10 0.13
Matches are distributed among these distances:
28 4 0.02
29 66 0.25
30 175 0.68
31 13 0.05
32 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (30 bp):
TTTAGGGTTAAAATGTGATTTTTAGAAAAG
Found at i:24742536 original size:59 final size:58
Alignment explanation
Indices: 24742415--24742756 Score: 293
Period size: 59 Copynumber: 5.8 Consensus size: 58
24742405 TTTAGGAGAA
* * * *
24742415 TTTAGGGTTAAAATGTAATTTTTAGAAAAGTTT-AGGGGTAAAATTATAATTTTAGAAGAG
1 TTTAGGGTTAAAATGTGATTTTTAG-AAAGTTTGAGGGTTAAAA-TGTAATTTTGGAA-AG
*
24742475 TTTAGGGTTAAAATGTGA-TTTTGGTAAAGTTTGAGGGTTAAAATGTAATTTTGGAGAAG
1 TTTAGGGTTAAAATGTGATTTTTAG-AAAGTTTGAGGGTTAAAATGTAATTTTGGA-AAG
* * * * * * * *
24742534 TTTAGGGGTCAAATG-CAATTTTAGAGAAGCTCGAGGGTCAAAATGTGATTTCT-GAGAAG
1 TTTAGGGTTAAAATGTGATTTTTAGA-AAGTTTGAGGGTTAAAATGTAATTT-TGGA-AAG
* * * * * *
24742593 TTCGAGGGCTAAAATGTGATTTTTA-AGAAG-TTAAGGGGTCAAAATGTGACTTTTTGAAAG
1 TT-TAGGGTTAAAATGTGATTTTTAGA-AAGTTTGA-GGGTTAAAATGT-AATTTTGGAAAG
* *
24742653 TTTAAGGGTTAAAATGTGATTTTTAGAAAGTTTAAGGGTT-AAATGTGATTTTTGGAAAG
1 TTT-AGGGTTAAAATGTGATTTTTAGAAAGTTTGAGGGTTAAAATGT-AATTTTGGAAAG
* *
24742712 TTTAGGGGTCAAAATGTGATTTTTAGAAAGTTCGAGGGTTAAAAT
1 TTTA-GGGTTAAAATGTGATTTTTAGAAAGTTTGAGGGTTAAAAT
24742757 ATATTTTAAA
Statistics
Matches: 236, Mismatches: 31, Indels: 30
0.79 0.10 0.10
Matches are distributed among these distances:
58 3 0.01
59 125 0.53
60 92 0.39
61 16 0.07
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (58 bp):
TTTAGGGTTAAAATGTGATTTTTAGAAAGTTTGAGGGTTAAAATGTAATTTTGGAAAG
Found at i:24742579 original size:89 final size:88
Alignment explanation
Indices: 24742418--24742756 Score: 350
Period size: 89 Copynumber: 3.8 Consensus size: 88
24742408 AGGAGAATTT
* * * *
24742418 AGGGTTAAAATGTAATTTTTAGAAAAGTTTAGGGGT-AAAAT-TATAATTTTAGAAGAGTT-TAG
1 AGGGTTAAAATGTAA-TTTTGGAGAAGTTTAGGGGTCAAAATGT-GAATTTTAGAA-AGTTCGAG
24742480 GGTTAAAATGTGATTTTGGTAAAGTTTG
63 GGTTAAAATGTGATTTT-G-AAAGTTTG
* *
24742508 AGGGTTAAAATGTAATTTTGGAGAAGTTTAGGGGTC-AAATG-CAATTTTAGAGAAGCTCGAGGG
1 AGGGTTAAAATGTAATTTTGGAGAAGTTTAGGGGTCAAAATGTGAATTTTAGA-AAGTTCGAGGG
* *
24742571 TCAAAATGTGATTTCTGAGAAGTTCG
65 TTAAAATGTGATTT-TGA-AAGTTTG
* * ** * * * **
24742597 AGGGCTAAAATGTGATTTTTAAGAAGTTAAGGGGTCAAAATGTGACTTTTTGAAAGTTTAAGGGT
1 AGGGTTAAAATGTAATTTTGGAGAAGTTTAGGGGTCAAAATGTGAATTTTAGAAAGTTCGAGGGT
*
24742662 TAAAATGTGATTTTTAGAAAGTTTA
66 TAAAATGTGA-TTTT-GAAAGTTTG
* *
24742687 AGGGTT-AAATGTGATTTTTGGA-AAGTTTAGGGGTCAAAATGTGATTTTTAGAAAGTTCGAGGG
1 AGGGTTAAAATGT-AATTTTGGAGAAGTTTAGGGGTCAAAATGTGAATTTTAGAAAGTTCGAGGG
24742750 TTAAAAT
65 TTAAAAT
24742757 ATATTTTAAA
Statistics
Matches: 207, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
88 13 0.06
89 127 0.61
90 55 0.27
91 12 0.06
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (88 bp):
AGGGTTAAAATGTAATTTTGGAGAAGTTTAGGGGTCAAAATGTGAATTTTAGAAAGTTCGAGGGT
TAAAATGTGATTTTGAAAGTTTG
Found at i:24743497 original size:18 final size:18
Alignment explanation
Indices: 24743459--24743496 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24743449 TTCTCTTTGC
*
24743459 TTTCAAATCTGTTTAACT
1 TTTCAAATCTATTTAACT
*
24743477 TTTCGAATCTATTTAA-T
1 TTTCAAATCTATTTAACT
24743494 TTT
1 TTT
24743497 TTTTAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTCAAATCTATTTAACT
Found at i:24744231 original size:12 final size:13
Alignment explanation
Indices: 24744205--24744235 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
24744195 TAGCAGTGGC
24744205 GGTGGTGGCAAGT
1 GGTGGTGGCAAGT
24744218 GGTGGTGG-AAGT
1 GGTGGTGGCAAGT
24744230 GGTGGT
1 GGTGGT
24744236 AGATGCTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.13, C:0.03, G:0.58, T:0.26
Consensus pattern (13 bp):
GGTGGTGGCAAGT
Found at i:24744448 original size:15 final size:15
Alignment explanation
Indices: 24744430--24744460 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24744420 TAAATTTAAA
24744430 ATTTATTTATTTTTG
1 ATTTATTTATTTTTG
24744445 ATTTATTTATTTTTG
1 ATTTATTTATTTTTG
24744460 A
1 A
24744461 GTTGGACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
ATTTATTTATTTTTG
Found at i:24745424 original size:19 final size:19
Alignment explanation
Indices: 24745396--24745439 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24745386 ACCAATCTGC
*
24745396 AAAAAAGAAAAAAAAACTT
1 AAAAAAGAAAAAAAAACAT
* *
24745415 AAAAACGAAATAAAAACAT
1 AAAAAAGAAAAAAAAACAT
24745434 AAAAAA
1 AAAAAA
24745440 ATTCAAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAACAT
Found at i:24746192 original size:31 final size:30
Alignment explanation
Indices: 24746047--24746193 Score: 161
Period size: 30 Copynumber: 4.9 Consensus size: 30
24746037 TTAAAAATGG
24746047 TGTTTTGACCCTCAAACTTTCCAAAAATTA
1 TGTTTTGACCCTCAAACTTTCCAAAAATTA
* ** *
24746077 TGTTTTGACCCTCGAACTTTTTAAAAATGA
1 TGTTTTGACCCTCAAACTTTCCAAAAATTA
* * *
24746107 TGTTTTGACCCTTAAATTTTTCAAAAATTA
1 TGTTTTGACCCTCAAACTTTCCAAAAATTA
* * *
24746137 TATTTTGACCC-CTAAATTTTCCAAAAATTT
1 TGTTTTGACCCTC-AAACTTTCCAAAAATTA
* *
24746167 TGAATTTGGCCCTCAAACTTTCCAAAA
1 TG-TTTTGACCCTCAAACTTTCCAAAA
24746194 TTTCATTTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
30 77 0.79
31 19 0.20
32 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (30 bp):
TGTTTTGACCCTCAAACTTTCCAAAAATTA
Found at i:24748938 original size:33 final size:34
Alignment explanation
Indices: 24748901--24748968 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
24748891 AAGCTTTTTT
* *
24748901 ATTTTTAATTAATGTTTATA-ATTAA-TAAAAATA
1 ATTTTTAATTAAT-TATAAACATTAATTAAAAATA
*
24748934 ATTTTTTATTAATTATAAACATTAATTAAAAATA
1 ATTTTTAATTAATTATAAACATTAATTAAAAATA
24748968 A
1 A
24748969 AAAAGCTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.13
33 17 0.57
34 9 0.30
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
ATTTTTAATTAATTATAAACATTAATTAAAAATA
Found at i:24749389 original size:33 final size:34
Alignment explanation
Indices: 24749352--24749419 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
24749342 AAGCTTTTTT
* *
24749352 ATTTTTAATTAATGTTTATA-ATTAA-TAAAAATA
1 ATTTTTAATTAAT-TATAAACATTAATTAAAAATA
*
24749385 ATTTTTTATTAATTATAAACATTAATTAAAAATA
1 ATTTTTAATTAATTATAAACATTAATTAAAAATA
24749419 A
1 A
24749420 AAAAGCTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.13
33 17 0.57
34 9 0.30
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
ATTTTTAATTAATTATAAACATTAATTAAAAATA
Found at i:24749430 original size:451 final size:451
Alignment explanation
Indices: 24748588--24749941 Score: 2699
Period size: 451 Copynumber: 3.0 Consensus size: 451
24748578 ATTTTCAAAT
24748588 TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
1 TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
24748653 ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
66 ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
24748718 ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
131 ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
24748783 TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
196 TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
24748848 TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
261 TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
24748913 TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
326 TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
24748978 AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTTGAAGGCCACAACC
391 AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTTGAAGGCCACAACC
24749039 TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
1 TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
24749104 ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
66 ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
24749169 ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
131 ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
24749234 TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
196 TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
24749299 TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
261 TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
24749364 TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
326 TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
24749429 AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTTGAAGGCCACAACC
391 AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTTGAAGGCCACAACC
24749490 TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
1 TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
24749555 ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
66 ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
24749620 ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
131 ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
24749685 TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
196 TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
24749750 TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
261 TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
24749815 TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
326 TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
*
24749880 AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTCGAAGGCCACAACC
391 AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTTGAAGGCCACAACC
24749941 T
1 T
24749942 CATTTATTAA
Statistics
Matches: 902, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
451 902 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (451 bp):
TAAACCTTATAATCAAGTTCTATTTTAGATTAATTAATATAATAACACATGATTATATTATTTTA
ATACTTTAATTAATTATTTATGACCGTAATTTTGATATTTGCTTCAAACCCTCGGTTTATTTACA
ATGCATAAAGATAACTTTATAAATCGAAACATGACCACTCTCGGTTTTCACAAACCCGATTCTTC
TAACCCGATTTTTGGGGTGTGACAGGTTAGATAATTATGGTTTTATTCTTAAGTCTCGGATTCAC
TTCCTCTTGTAAACATTGTATTTTTTATTTCATGTTGTGTTTCAAGCTTTTTTATTTTTAATTAA
TGTTTATAATTAATAAAAATAATTTTTTATTAATTATAAACATTAATTAAAAATAAAAAAGCTTG
AAACAACATGAAATAAAAAAATACATATTTTTTGAGTAAAACAAGCTTGAAGGCCACAACC
Found at i:24749840 original size:33 final size:34
Alignment explanation
Indices: 24749803--24749870 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
24749793 AAGCTTTTTT
* *
24749803 ATTTTTAATTAATGTTTATA-ATTAA-TAAAAATA
1 ATTTTTAATTAAT-TATAAACATTAATTAAAAATA
*
24749836 ATTTTTTATTAATTATAAACATTAATTAAAAATA
1 ATTTTTAATTAATTATAAACATTAATTAAAAATA
24749870 A
1 A
24749871 AAAAGCTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.13
33 17 0.57
34 9 0.30
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
ATTTTTAATTAATTATAAACATTAATTAAAAATA
Found at i:24751800 original size:24 final size:24
Alignment explanation
Indices: 24751771--24751826 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
24751761 GAGCTACAAA
* *
24751771 AAGATGAAAGGTGAAAGGTTGAGG
1 AAGATGAAAGGTGAAAGATTGAAG
24751795 AAGATGAAAGGTGAAAGATTGAAG
1 AAGATGAAAGGTGAAAGATTGAAG
24751819 AAGATGAA
1 AAGATGAA
24751827 TAAACATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (24 bp):
AAGATGAAAGGTGAAAGATTGAAG
Found at i:24754002 original size:29 final size:30
Alignment explanation
Indices: 24753954--24754288 Score: 293
Period size: 30 Copynumber: 11.4 Consensus size: 30
24753944 ACACTTTTCC
* *
24753954 AAAATCACA-TTTTGACCCCTAAACTTCTTA
1 AAAATTACATTTTTG-CCCCTAAACTTCTCA
* * *
24753984 AAATTTACATTTTTGCCCTTAAACTT-TCCT
1 AAAATTACATTTTTGCCCCTAAACTTCT-CA
*
24754014 AAAATTACATTTTTGTCCCTAAACTTCTCA
1 AAAATTACATTTTTGCCCCTAAACTTCTCA
24754044 AAAATTACATTTTTGCCCCTAAACTTCT-A
1 AAAATTACATTTTTGCCCCTAAACTTCTCA
* * *
24754073 AAAATTACATTTTT-TCCCTGAACGTC-CA
1 AAAATTACATTTTTGCCCCTAAACTTCTCA
*
24754101 AAAATTACA-TTTTGACCCCTAAACTTTTC-
1 AAAATTACATTTTTG-CCCCTAAACTTCTCA
* **
24754130 AAAATCACA-TTTTAACCCTCAAACTTCTCA
1 AAAATTACATTTTTGCCCCT-AAACTTCTCA
* * *
24754160 AAAATTATATTTTTGCCCTTGAACTT-TCA
1 AAAATTACATTTTTGCCCCTAAACTTCTCA
*
24754189 AAAATCACATTTTTGCCCCTAAACTTC-C-
1 AAAATTACATTTTTGCCCCTAAACTTCTCA
* * * *
24754217 AAAATCACATTTTTACCCC-AAA-TTTTCCT
1 AAAATTACATTTTTGCCCCTAAACTTCT-CA
* * *
24754246 AAAATGACATTTTTACCCCTAAAACTT-TCT
1 AAAATTACATTTTTGCCCCT-AAACTTCTCA
*
24754276 AAAATTGCATTTT
1 AAAATTACATTTT
24754289 AACCCCCAAA
Statistics
Matches: 252, Mismatches: 36, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.01
27 7 0.03
28 42 0.17
29 88 0.35
30 94 0.37
31 17 0.07
32 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTTTGCCCCTAAACTTCTCA
Found at i:24754142 original size:116 final size:119
Alignment explanation
Indices: 24753949--24754288 Score: 351
Period size: 116 Copynumber: 2.9 Consensus size: 119
24753939 TCCTTACACT
* * * * * *
24753949 TTTCCAAAATCACA-TTTTGACCCCTAAACTTCTTAAAATTTACATTTTTG-CCCTTAAACTTTC
1 TTTCAAAAATCACATTTTTG-CCCCTAAACGTC-CAAAAATTACA-TTTTGACCCCTAAACTTTT
* **
24754012 CTAAAATTACATTTTTGTCCCT-AAACTTCTCAAAAATTACATTTTTGCCCCTAAAC
63 CTAAAATCACATTTTTAACCCTAAAACTTCTCAAAAATTACATTTTTGCCCCTAAAC
* * *
24754068 -TTCTAAAAATTACATTTTT-TCCCTGAACGTCCAAAAATTACATTTTGACCCCTAAACTTTTC-
1 TTTC-AAAAATCACATTTTTGCCCCTAAACGTCCAAAAATTACATTTTGACCCCTAAACTTTTCT
* * * *
24754130 AAAATCACA-TTTTAACCCTCAAACTTCTCAAAAATTATATTTTTGCCCTTGAAC
65 AAAATCACATTTTTAACCCTAAAACTTCTCAAAAATTACATTTTTGCCCCTAAAC
* * *
24754184 TTTCAAAAATCACATTTTTGCCCCTAAACTTCC-AAAATCACATTTTTACCCC-AAA-TTTTCCT
1 TTTCAAAAATCACATTTTTGCCCCTAAACGTCCAAAAATTACATTTTGACCCCTAAACTTTT-CT
* * * *
24754246 AAAATGACATTTTTACCCCTAAAACTT-TCTAAAATTGCATTTT
65 AAAATCACATTTTTAACCCTAAAACTTCTCAAAAATTACATTTT
24754289 AACCCCCAAA
Statistics
Matches: 185, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
114 4 0.02
115 12 0.06
116 96 0.52
117 49 0.26
118 12 0.06
119 8 0.04
120 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.38
Consensus pattern (119 bp):
TTTCAAAAATCACATTTTTGCCCCTAAACGTCCAAAAATTACATTTTGACCCCTAAACTTTTCTA
AAATCACATTTTTAACCCTAAAACTTCTCAAAAATTACATTTTTGCCCCTAAAC
Found at i:24754185 original size:59 final size:58
Alignment explanation
Indices: 24753946--24754288 Score: 306
Period size: 57 Copynumber: 5.8 Consensus size: 58
24753936 TGATCCTTAC
* * *
24753946 ACTTTTCCAAAATCACATTTTGACCCCTAAACTTCTTAAAATTTACATTTTTGCCCTTAA
1 ACTTTT-CAAAATCACATTTTGA-CCCTAAACTTCTCAAAAATTACATTTTTGCCCCTAA
* * *
24754006 ACTTTCCTAAAATTACATTTTTGTCCCTAAACTTCTCAAAAATTACATTTTTGCCCCTAA
1 ACTTTTC-AAAATCACA-TTTTGACCCTAAACTTCTCAAAAATTACATTTTTGCCCCTAA
* * * ** * *
24754066 ACTTCTAAAAATTACATTTTTTCCCTGAACGTC-CAAAAATTACA-TTTTGACCCCTAA
1 ACTTTTCAAAATCACATTTTGACCCTAAACTTCTCAAAAATTACATTTTTG-CCCCTAA
* * * *
24754123 ACTTTTCAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTATATTTTTGCCCTTGA
1 ACTTTTCAAAATCACATTTTGACCCT-AAACTTCTCAAAAATTACATTTTTGCCCCTAA
* * *
24754182 AC-TTTCAAAAATCACATTTTTGCCCCTAAACTTC-C-AAAATCACATTTTTACCCC-AA
1 ACTTTTC-AAAATCACA-TTTTGACCCTAAACTTCTCAAAAATTACATTTTTGCCCCTAA
* * * *
24754238 A-TTTTCCTAAAATGACATTTTTACCCCTAAAACTT-TCTAAAATTGCATTTT
1 ACTTTT-C-AAAATCACATTTTGA-CCCT-AAACTTCTCAAAAATTACATTTT
24754289 AACCCCCAAA
Statistics
Matches: 234, Mismatches: 35, Indels: 29
0.79 0.12 0.10
Matches are distributed among these distances:
56 14 0.06
57 67 0.29
58 31 0.13
59 54 0.23
60 63 0.27
61 5 0.02
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (58 bp):
ACTTTTCAAAATCACATTTTGACCCTAAACTTCTCAAAAATTACATTTTTGCCCCTAA
Found at i:24754289 original size:29 final size:28
Alignment explanation
Indices: 24753949--24754326 Score: 219
Period size: 29 Copynumber: 12.9 Consensus size: 28
24753939 TCCTTACACT
* *
24753949 TTTCCAAAATCACATTTTGACCCCTAAAC
1 TTTCTAAAATTACATTTT-ACCCCTAAAC
* *
24753978 -TTCTTAAAATTTACATTTTTGCCCTTAAAC
1 TTTC-TAAAA-TTACA-TTTTACCCCTAAAC
**
24754008 TTTCCTAAAATTACATTTTTGTCCCTAAAC
1 TTT-CTAAAATTACA-TTTTACCCCTAAAC
* *
24754038 TTCTCAAAAATTACATTTTTGCCCCTAAAC
1 TT-TCTAAAATTACA-TTTTACCCCTAAAC
** *
24754068 -TTCTAAAAATTACATTTTTTCCCTGAAC
1 TTTCT-AAAATTACATTTTACCCCTAAAC
* * *
24754096 GTCCAAAAATTACATTTTGACCCCTAAAC
1 TTTCTAAAATTACATTTT-ACCCCTAAAC
* *
24754125 TTT-TCAAAATCACATTTTAACCCTCAAAC
1 TTTCT-AAAATTACATTTTACCCCT-AAAC
* * * * *
24754154 TTCTCAAAAATTATATTTTTGCCCTTGAAC
1 TT-TCTAAAATTACA-TTTTACCCCTAAAC
* * *
24754184 TTTCAAAAATCACATTTTTGCCCCTAAAC
1 TTTCTAAAATTACA-TTTTACCCCTAAAC
* * *
24754213 -TTCCAAAATCACATTTTTACCCC-AAAT
1 TTTCTAAAATTACA-TTTTACCCCTAAAC
*
24754240 TTTCCTAAAATGACATTTTTACCCCTAAAAC
1 TTT-CTAAAATTACA-TTTTACCCCT-AAAC
* *
24754271 TTTCTAAAATTGCATTTTAACCCCCAAAC
1 TTTCTAAAATTACATTTT-ACCCCTAAAC
* *
24754300 TCTCCAAAACTT-CATTTTCAACCCCTA
1 TTTCTAAAA-TTACATTTT--ACCCCTA
24754327 TTTTTCCTTT
Statistics
Matches: 283, Mismatches: 45, Indels: 41
0.77 0.12 0.11
Matches are distributed among these distances:
27 3 0.01
28 57 0.20
29 105 0.37
30 92 0.33
31 25 0.09
32 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTCTAAAATTACATTTTACCCCTAAAC
Found at i:24754441 original size:18 final size:19
Alignment explanation
Indices: 24754398--24754443 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
24754388 ATATTTTCTC
24754398 ATTTATTTTGATTTATAAT
1 ATTTATTTTGATTTATAAT
* *
24754417 -TTGTATTTT-ATTTCTCAT
1 ATT-TATTTTGATTTATAAT
24754435 ATTTATTTT
1 ATTTATTTT
24754444 CGTACATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTATTTTGATTTATAAT
Found at i:24754689 original size:97 final size:97
Alignment explanation
Indices: 24754571--24754764 Score: 316
Period size: 97 Copynumber: 2.0 Consensus size: 97
24754561 AAAATATTTA
* *
24754571 AAATCGAGGCAATATTCCTTTATTTCAGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCGCCAT
1 AAATCGAGGCAATATTCCTTTATCTCAGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCGCCAC
*
24754636 TTTTCTTCAAATCGGGATAATCGAATATCCTT
66 TTTTCTTCAAATCGGGATAATCGAATACCCTT
* * * * *
24754668 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC
1 AAATCGAGGCAATATTCCTTTATCTCAGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCGCCAC
24754733 TTTTCTTCAAATCGGGATAATCGAATACCCTT
66 TTTTCTTCAAATCGGGATAATCGAATACCCTT
24754765 TTCCAAGGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATCTCAGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCGCCAC
TTTTCTTCAAATCGGGATAATCGAATACCCTT
Found at i:24759378 original size:209 final size:209
Alignment explanation
Indices: 24759017--24760152 Score: 1686
Period size: 209 Copynumber: 5.4 Consensus size: 209
24759007 AGAGAAGTTT
* * *
24759017 GAAACTTCAAACCCCAACTTCTTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
1 GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
* * *
24759082 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCTGTCTTCTTGATGAGATACAGATAAGTGGAT
66 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
* * *
24759147 TAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGTGAAGTATACCAAATCAATGAAATAA
131 TAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAA
*
24759212 GGCTCAACATGAGT
196 GGCTCAACATGAGC
* *
24759226 GAAACTTCGAGCCCCAGCTTCCTGATGAGGTATTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
1 GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
* * *
24759291 CTTCCTGATAAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGAT
66 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
* *
24759356 TAAAACAAGTGATGCAGTCATCTTCCTGATGCGATACAGAGAAGTATACCAAATCCATGAAACAA
131 TAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAA
24759421 GGCTCAACATGAGC
196 GGCTCAACATGAGC
* * * *
24759435 GAAACTTCGAACCCGAGCTTCCTGATGAGGTATTGAGAAGTAGGTCGAAGCAATAAAATGGTTGT
1 GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
* *
24759500 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAAAAAAGTGGAT
66 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
* * *
24759565 TAAAACAATTGATGCAATCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAATAA
131 TAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAA
*
24759630 GGCTCAATATGAGC
196 GGCTCAACATGAGC
24759644 GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
1 GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
* * * *
24759709 CTTTCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAAATACAGAGAAGTGGAT
66 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
* *
24759774 TAAAACAAGTGATGTAGTCATCTTCCTGATGAGATACAGAGAAGTATGCCAAATCAATGAAACAA
131 TAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAA
24759839 GGCTCAACATGAGC
196 GGCTCAACATGAGC
* * * *
24759853 GAAACTTCGAACCCTAGCTTCTTGATGAGGTATTGAGAAGTAGGTCGAAGCAATAAAAT-G--GT
1 GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
* *
24759915 CTTCCTGATGAAATACTGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
66 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
* * *
24759980 TAAAACAAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAAGTGAAACA
131 TAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAA-TGAAACA
* * *
24760045 AAGTTCAA-ATACGAGT
195 AGGCTCAACAT--GAGC
* * * * * * * * * * *
24760061 GAAGCTTCAAACCCCTATCTTCCTAATGAGATACAGAGAAGTAGGTCGAAGTAATAAACTAGTCA
1 GAAACTTCGAACCCC-AGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCG
*
24760126 TCTTCCTGATGATATAACAGAGAAGTA
65 TCTTCCTGATGAGAT-ACAGAGAAGTA
24760153 TACCGAAAGA
Statistics
Matches: 839, Mismatches: 80, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
206 115 0.14
207 13 0.02
208 16 0.02
209 670 0.80
210 1 0.00
212 14 0.02
213 10 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
GAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGT
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
TAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAA
GGCTCAACATGAGC
Found at i:24760533 original size:7 final size:7
Alignment explanation
Indices: 24760521--24760545 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24760511 TTCAAAACCT
24760521 AATTTTA
1 AATTTTA
24760528 AATTTTA
1 AATTTTA
24760535 AATTTTA
1 AATTTTA
24760542 AATT
1 AATT
24760546 ATTTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:24760551 original size:17 final size:17
Alignment explanation
Indices: 24760529--24760606 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
24760519 CTAATTTTAA
24760529 ATTTTAAATTTTAAA-TT
1 ATTTT-AATTTTAAATTT
*
24760546 ATTTTAACTTTAAATTT
1 ATTTTAATTTTAAATTT
* *
24760563 ATTTTAAATTTAAACTT
1 ATTTTAATTTTAAATTT
* *
24760580 ATTTTGAGTTTAAATTT
1 ATTTTAATTTTAAATTT
24760597 ATTTTGAATT
1 ATTTT-AATT
24760607 AATTTATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
16 8 0.16
17 41 0.80
18 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (17 bp):
ATTTTAATTTTAAATTT
Found at i:24760571 original size:34 final size:35
Alignment explanation
Indices: 24760529--24760606 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
24760519 CTAATTTTAA
24760529 ATTTTAAATTTTAAA-TTATTTTAACTTTAAATTT
1 ATTTTAAATTTTAAACTTATTTTAACTTTAAATTT
* *
24760563 ATTTTAAA-TTTAAACTTATTTTGAGTTTAAATTT
1 ATTTTAAATTTTAAACTTATTTTAACTTTAAATTT
*
24760597 ATTTTGAATT
1 ATTTTAAATT
24760607 AATTTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 6 0.15
34 32 0.82
35 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (35 bp):
ATTTTAAATTTTAAACTTATTTTAACTTTAAATTT
Found at i:24761331 original size:3 final size:3
Alignment explanation
Indices: 24761323--24761364 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
24761313 TGAATGATAT
*
24761323 TAA TAA TAA TAA TTAA TAA TAA TAA TAA T-A CAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24761365 AAGTCAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.89
4 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24761339 original size:13 final size:13
Alignment explanation
Indices: 24761321--24761362 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
24761311 AATGAATGAT
24761321 ATTAATAATAATA
1 ATTAATAATAATA
24761334 ATTAATAATAATA
1 ATTAATAATAATA
24761347 A-TAATACAATAATA
1 ATTAAT--AATAATA
24761361 AT
1 AT
24761363 AAAAGTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.15
13 14 0.54
14 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:24761836 original size:19 final size:19
Alignment explanation
Indices: 24761811--24761858 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
24761801 TCGCGCACGG
24761811 CGACGGACGAAGGACGCGA
1 CGACGGACGAAGGACGCGA
* *
24761830 CGGCGGACGACGGACGCGA
1 CGACGGACGAAGGACGCGA
24761849 CGACGGACGA
1 CGACGGACGA
24761859 TGACTAGCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.44, T:0.00
Consensus pattern (19 bp):
CGACGGACGAAGGACGCGA
Found at i:24761838 original size:7 final size:7
Alignment explanation
Indices: 24761807--24761858 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
24761797 GACATCGCGC
24761807 ACGG-CG
1 ACGGACG
24761813 ACGGACG
1 ACGGACG
*
24761820 AAGGACG
1 ACGGACG
24761827 -C-GACG
1 ACGGACG
*
24761832 GCGGACG
1 ACGGACG
24761839 ACGGACG
1 ACGGACG
24761846 -C-GACG
1 ACGGACG
24761851 ACGGACG
1 ACGGACG
24761858 A
1 A
24761859 TGACTAGCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
5 8 0.21
6 7 0.18
7 23 0.61
ACGTcount: A:0.27, C:0.29, G:0.44, T:0.00
Consensus pattern (7 bp):
ACGGACG
Found at i:24761850 original size:12 final size:11
Alignment explanation
Indices: 24761812--24761857 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 11
24761802 CGCGCACGGC
*
24761812 GACGGACGAAG
1 GACGGACGACG
24761823 GAC-G-CGACG
1 GACGGACGACG
24761832 G-CGGACGACG
1 GACGGACGACG
24761842 GACGCGACGACG
1 GACG-GACGACG
24761854 GACG
1 GACG
24761858 ATGACTAGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 1 0.03
9 6 0.20
10 7 0.23
11 5 0.17
12 11 0.37
ACGTcount: A:0.26, C:0.28, G:0.46, T:0.00
Consensus pattern (11 bp):
GACGGACGACG
Found at i:24762552 original size:30 final size:30
Alignment explanation
Indices: 24762512--24762705 Score: 150
Period size: 30 Copynumber: 6.6 Consensus size: 30
24762502 ACATATTTTC
* *
24762512 AAAATCACATTTTGACCTCCGAACTTCTCA
1 AAAATCACATTTTGACCCCCAAACTTCTCA
* * * *
24762542 AAAGTTACATTTTTACCCCCTAAACTT-ACA
1 AAAATCACATTTTGACCCCC-AAACTTCTCA
* **
24762572 AAAATCACATTTTAACCCTTAAACTTCTC-
1 AAAATCACATTTTGACCCCCAAACTTCTCA
**
24762601 AAAATCACATTTTGACCTCCTTAACTTCTCA
1 AAAATCACATTTTGACC-CCCAAACTTCTCA
* * *
24762632 AAAATTACATTTT-TCCCCCGAACTTC-CA
1 AAAATCACATTTTGACCCCCAAACTTCTCA
**
24762660 AAAATCACATTTTTG-CCCTTAAACTTC-C-
1 AAAATCACA-TTTTGACCCCCAAACTTCTCA
* *
24762688 AAAATCACGTTTTTACCC
1 AAAATCACATTTTGACCC
24762706 TAAATTTTCC
Statistics
Matches: 132, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
27 4 0.03
28 21 0.16
29 44 0.33
30 46 0.35
31 17 0.13
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATCACATTTTGACCCCCAAACTTCTCA
Found at i:24762583 original size:60 final size:56
Alignment explanation
Indices: 24762512--24762739 Score: 174
Period size: 60 Copynumber: 3.9 Consensus size: 56
24762502 ACATATTTTC
*
24762512 AAAATCACATTTTGACCTCCGAACTTCTCAAAAGTTACATTTTTACCCCCTAAACTTACA
1 AAAATCACATTTT-ACC-CCGAACTTCTCAAAA-TCACATTTTTACCCCCTAAACTT-CA
** * * *
24762572 AAAATCACATTTTAACCCTTAAACTTCTCAAAATCACATTTTGACCTCCTTAACTTCTCA
1 AAAATCACATTTT-ACCC-CGAACTTCTCAAAATCACATTTTTACCCCCTAAAC-T-TCA
* * * * *
24762632 AAAATTACATTTTTCCCCCGAACTTC-CAAAAATCACATTTTT-GCCCTTAAACTTCC
1 AAAATCACA-TTTTACCCCGAACTTCTC-AAAATCACATTTTTACCCCCTAAACTTCA
* ** * * *
24762688 AAAATCACGTTTTTACCCTAAATTTTCCCAAAATGACATTTTTA-CCCCTAAA
1 AAAATCAC-ATTTTACCCCGAA-CTTCTCAAAATCACATTTTTACCCCCTAAA
24762740 ACTTTCCAAA
Statistics
Matches: 134, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
56 18 0.13
57 24 0.18
58 8 0.06
59 37 0.28
60 42 0.31
61 5 0.04
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (56 bp):
AAAATCACATTTTACCCCGAACTTCTCAAAATCACATTTTTACCCCCTAAACTTCA
Found at i:24762664 original size:59 final size:60
Alignment explanation
Indices: 24762512--24762705 Score: 175
Period size: 60 Copynumber: 3.3 Consensus size: 60
24762502 ACATATTTTC
* * * * *
24762512 AAAATCACATTTTGACCTCCGAACTTCTCAAAAGTTACATTTTTACCCCCTAAACTTACA
1 AAAATCACATTTTAACCCCCGAACTTCTCAAAAATCACATTTTGACCCCCTAAACTTACA
*** * * *
24762572 AAAATCACATTTTAACCCTTAAACTTCTC-AAAATCACATTTTGACCTCCTTAACTTCTCA
1 AAAATCACATTTTAACCCCCGAACTTCTCAAAAATCACATTTTGACCCCCTAAACTT-ACA
* * * *
24762632 AAAATTACATTTT-TCCCCCGAACTTC-CAAAAATCACATTTTTG--CCCTTAAACTT-CC
1 AAAATCACATTTTAACCCCCGAACTTCTCAAAAATCACA-TTTTGACCCCCTAAACTTACA
* *
24762688 AAAATCACGTTTTTACCC
1 AAAATCACATTTTAACCC
24762706 TAAATTTTCC
Statistics
Matches: 107, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
56 12 0.11
57 3 0.03
58 9 0.08
59 40 0.37
60 43 0.40
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (60 bp):
AAAATCACATTTTAACCCCCGAACTTCTCAAAAATCACATTTTGACCCCCTAAACTTACA
Found at i:24762739 original size:30 final size:28
Alignment explanation
Indices: 24762468--24762779 Score: 162
Period size: 29 Copynumber: 10.6 Consensus size: 28
24762458 CCCAGAAGGT
* * *
24762468 CCCTAAACTGTCCAGAAATCATATTTTGAC
1 CCCTAAA-TTTCCA-AAATCACATTTTTAC
* * *
24762498 CTCTACATATTTTCAAAATCACATTTTGAC
1 CCCTA-A-ATTTCCAAAATCACATTTTTAC
* * *
24762528 CTCC-GAACTTCTCAAAAGTTACATTTTTACC
1 C-CCTAAATTTC-CAAAA-TCACATTTTTA-C
* * *
24762559 CCCTAAACTTACAAAAATCACATTTTAAC
1 CCCTAAA-TTTCCAAAATCACATTTTTAC
* * *
24762588 CCTTAAACTTCTCAAAATCACATTTTGAC
1 CCCTAAATTTC-CAAAATCACATTTTTAC
* * *
24762617 CTCCTTAACTTCTCAAAAATTACATTTTT-C
1 C-CC-TAAATT-TCCAAAATCACATTTTTAC
** * *
24762647 CCCCGAACTTCCAAAAATCACATTTTTGC
1 CCCTAAATTTCC-AAAATCACATTTTTAC
* * *
24762676 CCTTAAACTTCCAAAATCACGTTTTTA-
1 CCCTAAATTTCCAAAATCACATTTTTAC
*
24762703 CCCTAAATTTTCCCAAAATGACATTTTTAC
1 CCCTAAA-TTT-CCAAAATCACATTTTTAC
* * *
24762733 CCCTAAAACTTTCCAAAATTATATTTTAAC
1 CCCT-AAA-TTTCCAAAATCACATTTTTAC
*
24762763 CCCTAAACTCTCCAAAA
1 CCCTAAA-TTTCCAAAA
24762780 CTTTATTTTC
Statistics
Matches: 217, Mismatches: 47, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
27 8 0.04
28 35 0.16
29 68 0.31
30 65 0.30
31 36 0.17
32 5 0.02
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (28 bp):
CCCTAAATTTCCAAAATCACATTTTTAC
Found at i:24762747 original size:88 final size:89
Alignment explanation
Indices: 24762510--24762779 Score: 286
Period size: 88 Copynumber: 3.1 Consensus size: 89
24762500 CTACATATTT
* * * *
24762510 TCAAAATCACATTTTGACCTCC-GAACTTCTCAAAAGTTACATTTTTACCCCCTAAACTTACAAA
1 TCAAAATCACATTTTGACCTCCTAAACTTCTCAAAAATGACATTTTTA-CCCCTAAACTTCCAAA
24762574 AATCACATTTTAACCCTTAAACTTC
65 AATCACATTTTAACCCTTAAACTTC
* * **
24762599 TCAAAATCACATTTTGACCTCCTTAACTTCTCAAAAATTACATTTTT-CCCCCGAACTTCCAAAA
1 TCAAAATCACATTTTGACCTCCTAAACTTCTCAAAAATGACATTTTTACCCCTAAACTTCCAAAA
**
24762663 ATCACATTTTTGCCCTTAAACTTC
66 ATCACATTTTAACCCTTAAACTTC
* * * *
24762687 -CAAAATCACGTTTTTA-C-CCTAAA-TTTTCCCAAAATGACATTTTTACCCCTAAAACTTTCC-
1 TCAAAATCACATTTTGACCTCCTAAACTTCT-CAAAAATGACATTTTTACCCCT-AAAC-TTCCA
* * *
24762747 AAAATTATATTTTAACCCCTAAAC-TC
63 AAAATCACATTTTAACCCTTAAACTTC
24762773 TCCAAAA
1 T-CAAAA
24762780 CTTTATTTTC
Statistics
Matches: 154, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
84 3 0.02
85 19 0.12
86 7 0.05
87 36 0.23
88 45 0.29
89 22 0.14
90 22 0.14
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (89 bp):
TCAAAATCACATTTTGACCTCCTAAACTTCTCAAAAATGACATTTTTACCCCTAAACTTCCAAAA
ATCACATTTTAACCCTTAAACTTC
Found at i:24762778 original size:59 final size:57
Alignment explanation
Indices: 24762468--24762779 Score: 220
Period size: 59 Copynumber: 5.3 Consensus size: 57
24762458 CCCAGAAGGT
* * * * *
24762468 CCCTAAACTGTCCAGAAATCATATTTTGACCTCTACATATTTTC-AAAATCACATTTTGAC
1 CCCTAAACT-TCCA-AAATCACATTTTTACCCCTA-A-ACTTTCAAAAATCACATTTTAAC
* * *
24762528 CTCC-GAACTTCTCAAAAGTTACATTTTTACCCCCTAAACTTACAAAAATCACATTTTAAC
1 C-CCTAAACTTC-CAAAA-TCACATTTTTA-CCCCTAAACTTTCAAAAATCACATTTTAAC
* * * * *
24762588 CCTTAAACTTCTCAAAATCACATTTTGACCTCCTTAACTTCTCAAAAATTACATTTT-TC
1 CCCTAAACTTC-CAAAATCACATTTTTACC-CCTAAACTT-TCAAAAATCACATTTTAAC
** * * * * *
24762647 CCCCGAACTTCCAAAAATCACATTTTTGCCCTTAAAC-TTCCAAAATCACGTTTTTA-
1 CCCTAAACTTCC-AAAATCACATTTTTACCCCTAAACTTTCAAAAATCACATTTTAAC
* * * * *
24762703 CCCTAAATTTTCCCAAAATGACATTTTTACCCCTAAAACTTTCCAAAATTATATTTTAAC
1 CCCTAAA-CTT-CCAAAATCACATTTTTACCCCT-AAACTTTCAAAAATCACATTTTAAC
24762763 CCCTAAACTCTCCAAAA
1 CCCTAAACT-TCCAAAA
24762780 CTTTATTTTC
Statistics
Matches: 198, Mismatches: 38, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
56 18 0.09
57 20 0.10
58 14 0.07
59 73 0.37
60 66 0.33
61 7 0.04
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (57 bp):
CCCTAAACTTCCAAAATCACATTTTTACCCCTAAACTTTCAAAAATCACATTTTAAC
Found at i:24762795 original size:30 final size:30
Alignment explanation
Indices: 24762715--24762788 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
24762705 CTAAATTTTC
* * * *
24762715 CCAAAATGACATTTTTACCCCTAAAACTTT
1 CCAAAATTATATTTTAACCCCTAAAACTCT
24762745 CCAAAATTATATTTTAACCCCT-AAACTCT
1 CCAAAATTATATTTTAACCCCTAAAACTCT
24762774 CCAAAACTT-TATTTT
1 CCAAAA-TTATATTTT
24762789 CGACCCCGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 18 0.46
30 21 0.54
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.36
Consensus pattern (30 bp):
CCAAAATTATATTTTAACCCCTAAAACTCT
Found at i:24763175 original size:97 final size:97
Alignment explanation
Indices: 24763039--24763232 Score: 255
Period size: 97 Copynumber: 2.0 Consensus size: 97
24763029 AAAATATTTA
* * * ** *
24763039 AAATCGAGGCAATATTCCTTTATTTTGAGTTTTGAAAATTTGTGCCTTTACTTACTAGGCGTGAT
1 AAATCGAGGCAATATTCCTTTATTTTGAGTTTTGAAAATTTGCGCCTTAACTTACTAGACACGAC
*
24763104 TTTTCTTCAAATCGGAATAATCAAATACCCTT
66 TTTTCTTCAAATCGGAACAATCAAATACCCTT
* * *
24763136 AAATCGAGGCAATGTTTCTTTATCTTTG-GTTTTGTAAATTTGCGCCTTAACTTACTAGACACGA
1 AAATCGAGGCAATATTCCTTTAT-TTTGAGTTTTGAAAATTTGCGCCTTAACTTACTAGACACGA
* * *
24763200 CTTTTCTTTAAATCGGGACAATCGAATACCCTT
65 CTTTTCTTCAAATCGGAACAATCAAATACCCTT
24763233 TTCCAAGGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
97 79 0.95
98 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATTTTGAGTTTTGAAAATTTGCGCCTTAACTTACTAGACACGAC
TTTTCTTCAAATCGGAACAATCAAATACCCTT
Found at i:24769184 original size:9 final size:9
Alignment explanation
Indices: 24769170--24769244 Score: 67
Period size: 9 Copynumber: 9.2 Consensus size: 9
24769160 GCAAATGATT
24769170 TTAAAATTA
1 TTAAAATTA
24769179 TTAAAATTA
1 TTAAAATTA
24769188 TTAAAATTA
1 TTAAAATTA
24769197 TT----TT-
1 TTAAAATTA
24769201 TTAAAA-TA
1 TTAAAATTA
* *
24769209 -TAAATTTT
1 TTAAAATTA
*
24769217 TTAAAAATA
1 TTAAAATTA
24769226 -TAAAATTA
1 TTAAAATTA
24769234 TTAAAATTA
1 TTAAAATTA
24769243 TT
1 TT
24769245 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 5 0.10
8 8 0.15
9 35 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAAATTA
Found at i:24769223 original size:17 final size:17
Alignment explanation
Indices: 24769196--24769239 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
24769186 TATTAAAATT
24769196 ATTTTTT-AAAATATAA
1 ATTTTTTAAAAATATAA
24769212 ATTTTTTAAAAATATAA
1 ATTTTTTAAAAATATAA
* *
24769229 AATTATTAAAA
1 ATTTTTTAAAA
24769240 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTTTAAAAATATAA
Found at i:24769246 original size:30 final size:31
Alignment explanation
Indices: 24769212--24769269 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24769202 TAAAATATAA
24769212 ATTTTTTAAAAAT-ATAAAATTATTAAAATT
1 ATTTTTTAAAAATAATAAAATTATTAAAATT
**
24769242 ATTTTTTTGAAATAATAAAATTATTAAA
1 ATTTTTTAAAAATAATAAAATTATTAAA
24769270 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTTTTTAAAAATAATAAAATTATTAAAATT
Found at i:24769271 original size:46 final size:45
Alignment explanation
Indices: 24769170--24769269 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 45
24769160 GCAAATGATT
* *
24769170 TTAAAATTATTAAAATTATTAAAATTATTTTTTAAAATATAAATTTT
1 TTAAAA-TA-TAAAATTATTAAAATTATTTTTTAAAATATAAAATTA
*
24769217 TTAAAAATATAAAATTATTAAAATTATTTTTTTGAAATAATAAAATTA
1 TT-AAAATATAAAATTATTAAAATTA-TTTTTTAAAAT-ATAAAATTA
24769265 TTAAA
1 TTAAA
24769270 TAAATTTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
46 17 0.36
47 17 0.36
48 13 0.28
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (45 bp):
TTAAAATATAAAATTATTAAAATTATTTTTTAAAATATAAAATTA
Found at i:24770339 original size:12 final size:12
Alignment explanation
Indices: 24770324--24770357 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24770314 AAACAAATGA
24770324 AGAAGGGGAAGG
1 AGAAGGGGAAGG
*
24770336 AGAAGGAGAAGG
1 AGAAGGGGAAGG
*
24770348 GGAAGGGGAA
1 AGAAGGGGAA
24770358 AAAACCCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (12 bp):
AGAAGGGGAAGG
Found at i:24770416 original size:20 final size:20
Alignment explanation
Indices: 24770388--24770504 Score: 59
Period size: 20 Copynumber: 5.9 Consensus size: 20
24770378 GATGATGATT
24770388 ATAAATTTAAAATAATTTTA
1 ATAAATTTAAAATAATTTTA
* * *
24770408 AT-AATTTTATAT-TTTTTA
1 ATAAATTTAAAATAATTTTA
* * *
24770426 AAAAAATTAAATTAATTTTAAA
1 ATAAATTTAAAATAATTTT--A
24770448 ATAAATTT--AATAATTTT-
1 ATAAATTTAAAATAATTTTA
*
24770465 AT-ATTTTAAAAAAATAATTTTA
1 ATAAATTT---AAAATAATTTTA
*
24770487 GA-AATTTTAAAATAATTT
1 -ATAAATTTAAAATAATTT
24770505 ACTAACGTGC
Statistics
Matches: 72, Mismatches: 13, Indels: 24
0.66 0.12 0.22
Matches are distributed among these distances:
16 4 0.06
17 2 0.03
18 6 0.08
19 14 0.19
20 24 0.33
21 9 0.12
22 7 0.10
23 6 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATAAATTTAAAATAATTTTA
Found at i:24770453 original size:21 final size:19
Alignment explanation
Indices: 24770421--24770465 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
24770411 ATTTTATATT
24770421 TTTTAAAAAAATTAAATTAA
1 TTTTAAAAAAATTAAA-TAA
*
24770441 TTTTAAAATAAATTTAATAA
1 TTTTAAAA-AAATTAAATAA
24770461 TTTTA
1 TTTTA
24770466 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTAAAAAAATTAAATAA
Found at i:24770498 original size:50 final size:49
Alignment explanation
Indices: 24770393--24770505 Score: 147
Period size: 49 Copynumber: 2.3 Consensus size: 49
24770383 TGATTATAAA
* ** **
24770393 TTTAAAATAATTTTAATAATTTTATATTTTTTAAAAAAATTAAATTAAT
1 TTTAAAATAAATTTAATAATTTTATATTTTAAAAAAAAATTAAAGAAAT
**
24770442 TTTAAAATAAATTTAATAATTTTATATTTTAAAAAAATAATTTTAGAAAT
1 TTTAAAATAAATTTAATAATTTTATATTTTAAAAAAA-AATTAAAGAAAT
24770492 TTTAAAAT-AATTTA
1 TTTAAAATAAATTTA
24770506 CTAACGTGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 40 0.71
50 16 0.29
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (49 bp):
TTTAAAATAAATTTAATAATTTTATATTTTAAAAAAAAATTAAAGAAAT
Found at i:24773403 original size:17 final size:17
Alignment explanation
Indices: 24773381--24773420 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
24773371 GGGGCATTGA
*
24773381 CTTCTTAGGCTCGTTTC
1 CTTCTTAGGCCCGTTTC
24773398 CTTCTTAGGCCCGTTTC
1 CTTCTTAGGCCCGTTTC
24773415 CTTCTT
1 CTTCTT
24773421 CGTATGGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.05, C:0.33, G:0.15, T:0.47
Consensus pattern (17 bp):
CTTCTTAGGCCCGTTTC
Found at i:24778642 original size:13 final size:13
Alignment explanation
Indices: 24778624--24778648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24778614 TGAATATAAA
24778624 ATGCTAAAAATGC
1 ATGCTAAAAATGC
24778637 ATGCTAAAAATG
1 ATGCTAAAAATG
24778649 ATATAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:24780824 original size:22 final size:22
Alignment explanation
Indices: 24780799--24780847 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
24780789 TAATATAAAA
*
24780799 TATTTCATTA-ATAATTTGGGTT
1 TATTTAATTATATAA-TTGGGTT
*
24780821 TATTTAATTATTTAATTGGGTT
1 TATTTAATTATATAATTGGGTT
*
24780843 AATTT
1 TATTT
24780848 TATTCTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (22 bp):
TATTTAATTATATAATTGGGTT
Found at i:24782888 original size:20 final size:20
Alignment explanation
Indices: 24782860--24782898 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24782850 TTTAAGATCT
*
24782860 TGAAATTAAGGAAATTTTTA
1 TGAAATTAAAGAAATTTTTA
* *
24782880 TGAATTTAAAGATATTTTT
1 TGAAATTAAAGAAATTTTT
24782899 CTAGATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (20 bp):
TGAAATTAAAGAAATTTTTA
Found at i:24783994 original size:43 final size:43
Alignment explanation
Indices: 24783929--24784057 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
24783919 ATTTGAAAGT
* * *
24783929 TGGAACACTATTTCTTACTATTGAAAGTATGTGACTGATTGAG
1 TGGAACACTATTTCCTAATATTGAAAGTATGTGATTGATTGAG
* * * *
24783972 TGGAACATTGTTTCCTAATATTGAAAGTATGTGATTAATTAAG
1 TGGAACACTATTTCCTAATATTGAAAGTATGTGATTGATTGAG
*
24784015 TGGAACACTATTTCCTAATATTGATAGTATGTGATTGATTGAG
1 TGGAACACTATTTCCTAATATTGAAAGTATGTGATTGATTGAG
24784058 AGCATGATGA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (43 bp):
TGGAACACTATTTCCTAATATTGAAAGTATGTGATTGATTGAG
Found at i:24784409 original size:69 final size:69
Alignment explanation
Indices: 24784293--24784520 Score: 276
Period size: 69 Copynumber: 3.3 Consensus size: 69
24784283 CTATCGCATT
* * * ** *
24784293 ATTCGTTATTTGGCAGACTTCCTGCACTATTGATTATTTGATGGTTTTACCATGTCGAGTTATGC
1 ATTCATTATTTGGCAGACTTTCTGCACTATTGATTATTCGATGGTTTTACCACATCGAGATATGC
24784358 TCGC
66 TCGC
** * * * *
24784362 ATTTTTTATTTGACAAACTTTCTGCATTATTGATTATTCAATGGTTTTACCACATCGAGATATGC
1 ATTCATTATTTGGCAGACTTTCTGCACTATTGATTATTCGATGGTTTTACCACATCGAGATATGC
24784427 TCGC
66 TCGC
* * * * *
24784431 ATTCATTATTTGGCAGACTGTCTGCACTATTAATTATTCGATGGCTTTACCACAACGAGCTATGC
1 ATTCATTATTTGGCAGACTTTCTGCACTATTGATTATTCGATGGTTTTACCACATCGAGATATGC
24784496 TCGC
66 TCGC
24784500 ATTCATTGGAGTTTGGCAGAC
1 ATTCATT--A-TTTGGCAGAC
24784521 AGGTTCTGGG
Statistics
Matches: 134, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
69 123 0.92
71 1 0.01
72 10 0.07
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (69 bp):
ATTCATTATTTGGCAGACTTTCTGCACTATTGATTATTCGATGGTTTTACCACATCGAGATATGC
TCGC
Found at i:24786709 original size:28 final size:28
Alignment explanation
Indices: 24786669--24786727 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
24786659 TATCAAGGGA
*
24786669 ATTGGCAATCTCTATCGCATTATATGTT
1 ATTGGCAATCTCTATCACATTATATGTT
* * *
24786697 ATTGGCGATCTCTATTACATTATTTGTT
1 ATTGGCAATCTCTATCACATTATATGTT
24786725 ATT
1 ATT
24786728 TGGTAGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (28 bp):
ATTGGCAATCTCTATCACATTATATGTT
Found at i:24787285 original size:16 final size:17
Alignment explanation
Indices: 24787236--24787275 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
24787226 TAGACTGTGG
*
24787236 TTTGGGATTGTTTTTGC
1 TTTGGGATTATTTTTGC
24787253 TTTGGGATTATTTTTGC
1 TTTGGGATTATTTTTGC
24787270 TTTGGG
1 TTTGGG
24787276 TTTTTCTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.07, C:0.05, G:0.30, T:0.57
Consensus pattern (17 bp):
TTTGGGATTATTTTTGC
Found at i:24791221 original size:17 final size:17
Alignment explanation
Indices: 24791185--24791232 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
24791175 CATTGTCCCC
* *
24791185 AATGCACTAACACT-GA
1 AATGCAATAACAATGGA
*
24791201 AATGCAATGACAATGGA
1 AATGCAATAACAATGGA
24791218 AATGCAATAACAATG
1 AATGCAATAACAATG
24791233 TGCACTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (17 bp):
AATGCAATAACAATGGA
Found at i:24791367 original size:20 final size:21
Alignment explanation
Indices: 24791342--24791383 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24791332 CTACATGGTG
*
24791342 TTTCTT-CTTCCTTCTCTTTT
1 TTTCTTCCTTCCTACTCTTTT
*
24791362 TTTCTTCCTTTCTACTCTTTT
1 TTTCTTCCTTCCTACTCTTTT
24791383 T
1 T
24791384 GTCCTTGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTCTTCCTTCCTACTCTTTT
Found at i:24801989 original size:17 final size:17
Alignment explanation
Indices: 24801967--24802007 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
24801957 CAGTGACTGC
24801967 AATAACACTTTCATGCT
1 AATAACACTTTCATGCT
24801984 AATAACACTTTCATGCT
1 AATAACACTTTCATGCT
*
24802001 AAAAACA
1 AATAACA
24802008 TTTAAACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAACACTTTCATGCT
Found at i:24807372 original size:25 final size:25
Alignment explanation
Indices: 24807344--24807399 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
24807334 ATATATTTAT
*
24807344 ATTTTTTTATTTTAATAT-TTAATAA
1 ATTTTTTAATTTTAATATATTAA-AA
* *
24807369 ATTTTTTAATTTTTATTTATTAAAA
1 ATTTTTTAATTTTAATATATTAAAA
24807394 ATTTTT
1 ATTTTT
24807400 GTATAGTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTTTTTAATTTTAATATATTAAAA
Found at i:24808822 original size:23 final size:21
Alignment explanation
Indices: 24808796--24808837 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
24808786 AAATTTATTA
*
24808796 TTTAATATTATAGATTTTTTAAT
1 TTTAA-ATT-TAGAATTTTTAAT
24808819 TTTAAATTTAGAATTTTTA
1 TTTAAATTTAGAATTTTTA
24808838 CATACTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTAAATTTAGAATTTTTAAT
Found at i:24815955 original size:15 final size:14
Alignment explanation
Indices: 24815931--24815960 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
24815921 TTTGATCATT
24815931 AATTCTTTTTTTTA
1 AATTCTTTTTTTTA
24815945 AATTGCTTTTTTTTA
1 AATT-CTTTTTTTTA
24815960 A
1 A
24815961 CATGTTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
AATTCTTTTTTTTA
Found at i:24816169 original size:20 final size:21
Alignment explanation
Indices: 24816144--24816184 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24816134 TTATTTAGAT
*
24816144 AATTAAG-TTTATTTTCTTTA
1 AATTAAGAGTTATTTTCTTTA
*
24816164 AATTAAGAGTTATTTTTTTTA
1 AATTAAGAGTTATTTTCTTTA
24816185 CTTTTATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (21 bp):
AATTAAGAGTTATTTTCTTTA
Found at i:24818679 original size:24 final size:24
Alignment explanation
Indices: 24818631--24818679 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
24818621 CATCATAACT
24818631 TCACATGTTATTCCATGAATAAAAA
1 TCACATGTTATT-CATGAATAAAAA
24818656 TCACAT-TTATT-ATGATATATAAAA
1 TCACATGTTATTCATGA-ATA-AAAA
24818680 ATAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.18
23 3 0.14
24 9 0.41
25 6 0.27
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (24 bp):
TCACATGTTATTCATGAATAAAAA
Found at i:24819999 original size:13 final size:13
Alignment explanation
Indices: 24819981--24820005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24819971 AATCAATTTA
24819981 GATTAAAAATAAT
1 GATTAAAAATAAT
24819994 GATTAAAAATAA
1 GATTAAAAATAA
24820006 CCTTAGAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
GATTAAAAATAAT
Found at i:24825190 original size:17 final size:17
Alignment explanation
Indices: 24825168--24825202 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24825158 AATTATTACG
24825168 CATTGTTTATACCCCGT
1 CATTGTTTATACCCCGT
24825185 CATTGTTTATACCCCGT
1 CATTGTTTATACCCCGT
24825202 C
1 C
24825203 TTTTTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.40
Consensus pattern (17 bp):
CATTGTTTATACCCCGT
Found at i:24829474 original size:176 final size:176
Alignment explanation
Indices: 24829176--24829529 Score: 690
Period size: 176 Copynumber: 2.0 Consensus size: 176
24829166 AAGGAGTCGA
24829176 GAAGCGAGTGCAAGGGCGATCCAAGAATAAGGCTCGGTAGTGACTTAAGAAATTTACTTTAAAGA
1 GAAGCGAGTGCAAGGGCGATCCAAGAATAAGGCTCGGTAGTGACTTAAGAAATTTACTTTAAAGA
*
24829241 TTATATAAAGGCATTGTGATGCTTTTGCGACTAGTGTTATTTTACGCAATGGACATTGGACATTA
66 TTATATAAAGGCATTGTGATGCTTTTGCGACTAGTGTTATTTTACGCAATAGACATTGGACATTA
24829306 AATTTTGGACTTTAATTTTGGTGTTTTTTTAATTGCTTTAATACAT
131 AATTTTGGACTTTAATTTTGGTGTTTTTTTAATTGCTTTAATACAT
24829352 GAAGCGAGTGCAAGGGCGATCCAAGAATAAGGCTCGGTAGTGACTTAAGAAATTTACTTTAAAGA
1 GAAGCGAGTGCAAGGGCGATCCAAGAATAAGGCTCGGTAGTGACTTAAGAAATTTACTTTAAAGA
*
24829417 TTATATAAAGGCATTGTGATGCTTTTGGGACTAGTGTTATTTTACGCAATAGACATTGGACATTA
66 TTATATAAAGGCATTGTGATGCTTTTGCGACTAGTGTTATTTTACGCAATAGACATTGGACATTA
24829482 AATTTTGGACTTTAATTTTGGTGTTTTTTTAATTGCTTTAATACAT
131 AATTTTGGACTTTAATTTTGGTGTTTTTTTAATTGCTTTAATACAT
24829528 GA
1 GA
24829530 TTTTATGTCT
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.37
Consensus pattern (176 bp):
GAAGCGAGTGCAAGGGCGATCCAAGAATAAGGCTCGGTAGTGACTTAAGAAATTTACTTTAAAGA
TTATATAAAGGCATTGTGATGCTTTTGCGACTAGTGTTATTTTACGCAATAGACATTGGACATTA
AATTTTGGACTTTAATTTTGGTGTTTTTTTAATTGCTTTAATACAT
Found at i:24832299 original size:22 final size:22
Alignment explanation
Indices: 24832274--24832330 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
24832264 CCAATGGTCA
*
24832274 ATGTCGCGACATACTAGGTCTT
1 ATGTCGCGACATACCAGGTCTT
* *
24832296 ATGTCGTGACATTCCAGGTCTT
1 ATGTCGCGACATACCAGGTCTT
24832318 ATGTCGCGACATA
1 ATGTCGCGACATA
24832331 GTAGTCAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
ATGTCGCGACATACCAGGTCTT
Found at i:24832772 original size:18 final size:17
Alignment explanation
Indices: 24832749--24832784 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24832739 GCTTGTTCTC
24832749 AAGCAATCAAAACAAGAA
1 AAGCAAT-AAAACAAGAA
*
24832767 AAGCAATGAAACAAGAA
1 AAGCAATAAAACAAGAA
24832784 A
1 A
24832785 GAAAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.67, C:0.14, G:0.14, T:0.06
Consensus pattern (17 bp):
AAGCAATAAAACAAGAA
Found at i:24833916 original size:16 final size:16
Alignment explanation
Indices: 24833895--24833930 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24833885 AAATAATCCC
*
24833895 AAAATTACAAGTCTCA
1 AAAATTAAAAGTCTCA
*
24833911 AAAATTAAAAGTTTCA
1 AAAATTAAAAGTCTCA
24833927 AAAA
1 AAAA
24833931 CACTTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAATTAAAAGTCTCA
Found at i:24836486 original size:41 final size:41
Alignment explanation
Indices: 24836441--24836524 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
24836431 AATCAAGTTG
* *
24836441 TTGGCACCGTTACCGAGGAGATAGTGCTTTAGTAAAATTTA
1 TTGGCACCGCTACCGAGGAGACAGTGCTTTAGTAAAATTTA
24836482 TTGGCACCGCTACCGAGGAGACAGTGCTTTAGTAAAATTTA
1 TTGGCACCGCTACCGAGGAGACAGTGCTTTAGTAAAATTTA
24836523 TT
1 TT
24836525 CTTTCTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
TTGGCACCGCTACCGAGGAGACAGTGCTTTAGTAAAATTTA
Found at i:24839506 original size:18 final size:19
Alignment explanation
Indices: 24839480--24839515 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24839470 AGTTTAACTT
*
24839480 TTTTGAGACTT-TAATTTA
1 TTTTAAGACTTGTAATTTA
24839498 TTTTAAGACTTGTAATTT
1 TTTTAAGACTTGTAATTT
24839516 TGGGGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTTAAGACTTGTAATTTA
Found at i:24841751 original size:21 final size:22
Alignment explanation
Indices: 24841725--24841765 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24841715 GGGCATACGA
24841725 CCGTGT-GCCTCAAACACACGC
1 CCGTGTAGCCTCAAACACACGC
* *
24841746 CCGTGTATCCTCATACACAC
1 CCGTGTAGCCTCAAACACAC
24841766 ACTTGTGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (22 bp):
CCGTGTAGCCTCAAACACACGC
Found at i:24843128 original size:80 final size:80
Alignment explanation
Indices: 24842995--24843217 Score: 326
Period size: 80 Copynumber: 2.8 Consensus size: 80
24842985 TAGATGATCT
* *
24842995 TAGCACCTAGTGCCTAGCGGATAAAC-AGCAAAAGTGAGCCCA-ACTCTAGTTGGATTAACGAAC
1 TAGCACCCAGTGCCTAGCGGATAAACTA-CAAAAGTGAGCCCAGA-TCTAGTTGGATTAACCAAC
*
24843058 AAATGTCCATCAAATCC
64 AAATGTCCATAAAATCC
* *
24843075 TAGCACCCAATGCCTAGCGGACAAACTACAAAAGTGAGCCCAGATCTAGTTGGATTAACCAACAA
1 TAGCACCCAGTGCCTAGCGGATAAACTACAAAAGTGAGCCCAGATCTAGTTGGATTAACCAACAA
*
24843140 ATGTCCGTAAAATCC
66 ATGTCCATAAAATCC
* *
24843155 TAGCACCCAGTGCCTAGCGGATAAA-TCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAAC
1 TAGCACCCAGTGCCTAGCGGATAAACT-ACAAAAGTGAGCCCAGATCTAGTTGGATTAACCAAC
24843218 GGTTTTGAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 1 0.01
80 127 0.98
81 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (80 bp):
TAGCACCCAGTGCCTAGCGGATAAACTACAAAAGTGAGCCCAGATCTAGTTGGATTAACCAACAA
ATGTCCATAAAATCC
Found at i:24847001 original size:5 final size:5
Alignment explanation
Indices: 24846969--24847000 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
24846959 ATATCTATCT
24846969 TTTTC TTTTC TTTTC TTTTC TTTT- TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
24847001 TATATGTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (5 bp):
TTTTC
Found at i:24847445 original size:17 final size:17
Alignment explanation
Indices: 24847420--24847492 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 17
24847410 AACTAAGATA
*
24847420 AATGGAAATGTAATGAC
1 AATGCAAATGTAATGAC
* *
24847437 AATGCAAATGCAGTGAC
1 AATGCAAATGTAATGAC
** *
24847454 AATTAAAATGTAATGAT
1 AATGCAAATGTAATGAC
**
24847471 AATGGC-AATGGGATGAC
1 AAT-GCAAATGTAATGAC
24847488 AATGC
1 AATGC
24847493 TTACTAACAA
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
16 2 0.05
17 40 0.95
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (17 bp):
AATGCAAATGTAATGAC
Found at i:24862362 original size:157 final size:157
Alignment explanation
Indices: 24862074--24862392 Score: 444
Period size: 157 Copynumber: 2.0 Consensus size: 157
24862064 TTTGTCATGA
* * * * * *
24862074 CACTAGACCTAATGTGTCGTGATATCGACTTCTAGATGAGGATTCTACATCAAGTGAAGGACATT
1 CACTAAACCTAATGTGTCGCGACATCGACTCCTAGACGAGGATTCTACACCAAGTGAAGGACATT
* * *
24862139 TCAATCTTTACAATTCCACTTAAATACGAGGAATGACAACTGACCTAAGGTTGAGGAAAACGACC
66 TCAATCTTTACAATGCCACTTAAACACGAGGAATGACAACTGACCTAAGGTTGAGGAAAACAACC
24862204 ATCCAAGGCTATAAATAAGCCATCTAG
131 ATCCAAGGCTATAAATAAGCCATCTAG
* * * **
24862231 CACTAAACCTGATGTGTCGCGACATCGACTCCTGGACGAGGATT-TGACACCGAGTGAAGGATGT
1 CACTAAACCTAATGTGTCGCGACATCGACTCCTAGACGAGGATTCT-ACACCAAGTGAAGGACAT
* *
24862295 TTCAATCTTTACAATGCTACTTAAACACGAGGAAT-AGCAGCTGACCTAAGGTTGAGGAAAACAA
65 TTCAATCTTTACAATGCCACTTAAACACGAGGAATGA-CAACTGACCTAAGGTTGAGGAAAACAA
* *
24862359 CCATCCAAGGCTATAAATAAGGCTTCTAG
129 CCATCCAAGGCTATAAATAAGCCATCTAG
24862388 CACTA
1 CACTA
24862393 GGGTTGGAGA
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
156 2 0.01
157 140 0.99
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (157 bp):
CACTAAACCTAATGTGTCGCGACATCGACTCCTAGACGAGGATTCTACACCAAGTGAAGGACATT
TCAATCTTTACAATGCCACTTAAACACGAGGAATGACAACTGACCTAAGGTTGAGGAAAACAACC
ATCCAAGGCTATAAATAAGCCATCTAG
Found at i:24865500 original size:6 final size:6
Alignment explanation
Indices: 24865489--24865531 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
24865479 TATAACAATA
24865489 TTTCTT TTTCTT TTCTCTT TTTCTCT TTT-TCT TTTCTT TTTCT
1 TTTCTT TTTCTT TT-TCTT TTTCT-T TTTCT-T TTTCTT TTTCT
24865532 CAATCAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 23 0.68
7 11 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Done.