Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 195 of 425
Found at i:59337402 original size:55 final size:54
Alignment explanation
Indices: 59337261--59337457 Score: 263
Period size: 55 Copynumber: 3.6 Consensus size: 54
59337251 TTGGTAAGAT
* * * *
59337261 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
59337315 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
59337370 AAAGG-TCCCATGTAAGACTATGGCAAGGCATGGCATTGATGAGTT-TATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
59337423 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
59337458 CTGGTAAGTT
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 41 0.33
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:59346404 original size:49 final size:49
Alignment explanation
Indices: 59346344--59346983 Score: 1014
Period size: 49 Copynumber: 13.3 Consensus size: 49
59346334 GTATGAGATA
*
59346344 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
59346393 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
59346442 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
59346491 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
59346540 TATATATGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
59346588 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
59346635 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
59346682 TAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 T-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
59346732 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
59346781 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
59346830 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--TGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
59346877 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
59346924 TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
59346971 TATAAATGTGATA
1 TATATATGTGATA
59346984 GTCCCGAAGG
Statistics
Matches: 564, Mismatches: 21, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 149 0.26
48 87 0.15
49 324 0.57
50 4 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:59356165 original size:44 final size:45
Alignment explanation
Indices: 59356011--59356175 Score: 167
Period size: 44 Copynumber: 3.6 Consensus size: 45
59356001 TATGTGAGCC
* **
59356011 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACGATG---TGCT
* * * * *
59356058 AGTGTAAGACATGTCTAGGACATGCATTGACATTGA-GACGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC--T-ACGACGATGTGCT
*
59356104 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACGATGTGCT
59356148 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
59356176 AGCATGAATA
Statistics
Matches: 97, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 33 0.34
46 29 0.30
47 28 0.29
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACGATGTGCT
Found at i:59356214 original size:93 final size:91
Alignment explanation
Indices: 59356006--59356226 Score: 252
Period size: 93 Copynumber: 2.4 Consensus size: 91
59355996 GCTGTTATGT
*
59356006 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAATGCTAGTGTAAGACATG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG--ATGCTAGTGTAAGACATG
*
59356071 TCTAGGACATGCATTGACATTGAGACGA
64 TCTAGGACATGCATAGACATTGAGACGA
* *
59356099 GAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATG-TGCTAGTGTAAGACATGT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGATGCTAGTGTAAGACATGT
* * *
59356162 CTGGGACATGCATCAG-CA-TGAATATGTGA
65 CTAGGACATGCAT-AGACATTG-AGA--CGA
* *
59356191 GAGCCAGTGTAAGACCATATCTGGGATATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
59356227 ACATCGATAT
Statistics
Matches: 111, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
89 2 0.02
90 34 0.31
91 1 0.01
92 16 0.14
93 52 0.47
94 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (91 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATGCTAGTGTAAGACATGTC
TAGGACATGCATAGACATTGAGACGA
Found at i:59360746 original size:30 final size:30
Alignment explanation
Indices: 59360712--59360772 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59360702 TTCCCGAGCC
59360712 TAGGGACAAAAGTGTAAATATGCAAAAGTT
1 TAGGGACAAAAGTGTAAATATGCAAAAGTT
* * * * *
59360742 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGACAAAAGTGTAAATATGCAAAAGTT
59360772 T
1 T
59360773 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGACAAAAGTGTAAATATGCAAAAGTT
Found at i:59369737 original size:40 final size:40
Alignment explanation
Indices: 59369652--59369802 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
59369642 AATTGAATGA
* * * **
59369652 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
59369692 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
59369733 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
59369772 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
59369803 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:59369816 original size:40 final size:40
Alignment explanation
Indices: 59369689--59369818 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
59369679 ATGCTGGAAA
* * *
59369689 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
59369729 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
59369769 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
59369809 TTATATCCGG
1 TTATATCCGG
59369819 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:59377756 original size:40 final size:40
Alignment explanation
Indices: 59377707--59377856 Score: 212
Period size: 40 Copynumber: 3.8 Consensus size: 40
59377697 TACAGCAAGA
59377707 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
*
59377747 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-AC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAAC
* * * *
59377787 TAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
* * *
59377827 TCGCACGAATGCCTTCGGATCTTAGTCCGG
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGG
59377857 TTATCATCCA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
Found at i:59385739 original size:39 final size:40
Alignment explanation
Indices: 59385623--59385793 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
59385613 ACCCAAGTAT
59385623 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
59385662 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
59385702 CTTCGGGTCTTAG-CCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * *
59385741 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
59385781 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
59385794 TCCGTTATCA
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 44 0.39
40 69 0.61
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:59385755 original size:79 final size:79
Alignment explanation
Indices: 59385623--59385793 Score: 256
Period size: 79 Copynumber: 2.2 Consensus size: 79
59385613 ACCCAAGTAT
* * *
59385623 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
59385687 AACTCGCACAAATGC
65 AACTCGCACAAATGC
*
59385702 CTTCGGGTCTTAGCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
*
59385766 AACTCGCACGAATGC
65 AACTCGCACAAATGC
*
59385781 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
59385794 TCCGTTATCA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 82 0.98
80 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:59387457 original size:24 final size:24
Alignment explanation
Indices: 59387425--59387470 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59387415 AGCGGTCCCG
*
59387425 AAACCGCTTTCCGACTAGGGTCCA
1 AAACCGCTTTCCGACTAAGGTCCA
*
59387449 AAACTGCTTTCCGACTAAGGTC
1 AAACCGCTTTCCGACTAAGGTC
59387471 AATTTAGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (24 bp):
AAACCGCTTTCCGACTAAGGTCCA
Found at i:59392906 original size:47 final size:46
Alignment explanation
Indices: 59392852--59392998 Score: 119
Period size: 47 Copynumber: 3.2 Consensus size: 46
59392842 TCCATTCCTA
59392852 CTATTTTTAGTGATTTTTCAAATCCACATCACTGCTGCTGTCAGCAT
1 CTATTTTTAGTGA-TTTTCAAATCCACATCACTGCTGCTGTCAGCAT
* * ** * * *
59392899 CTATTTTTAAGGTAACTTTACCTATTCACTATTA-T--TCCAT-TC--C-T
1 CTATTTTT-A-GTGA-TTTTCAAATCCAC-ATCACTGCTGC-TGTCAGCAT
59392943 ACTATTTTTAGTGATTTTCAAATCCACATCACTGCTGCTGTCAGCAT
1 -CTATTTTTAGTGATTTTCAAATCCACATCACTGCTGCTGTCAGCAT
59392990 CTATTTTTA
1 CTATTTTTA
59392999 AGGTAACTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 25
0.65 0.13 0.22
Matches are distributed among these distances:
41 3 0.04
42 10 0.14
43 4 0.05
44 6 0.08
45 9 0.12
46 10 0.14
47 13 0.18
48 2 0.03
49 13 0.18
50 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (46 bp):
CTATTTTTAGTGATTTTCAAATCCACATCACTGCTGCTGTCAGCAT
Found at i:59392994 original size:91 final size:92
Alignment explanation
Indices: 59392831--59393017 Score: 367
Period size: 91 Copynumber: 2.0 Consensus size: 92
59392821 ACATAATTTG
59392831 TTCACTATTATTCCATTCCTACTATTTTTAGTGATTTTTCAAATCCACATCACTGCTGCTGTCAG
1 TTCACTATTATTCCATTCCTACTATTTTTAGTGATTTTTCAAATCCACATCACTGCTGCTGTCAG
59392896 CATCTATTTTTAAGGTAACTTTACCTA
66 CATCTATTTTTAAGGTAACTTTACCTA
59392923 TTCACTATTATTCCATTCCTACTATTTTTAGTGA-TTTTCAAATCCACATCACTGCTGCTGTCAG
1 TTCACTATTATTCCATTCCTACTATTTTTAGTGATTTTTCAAATCCACATCACTGCTGCTGTCAG
59392987 CATCTATTTTTAAGGTAACTTTACCTA
66 CATCTATTTTTAAGGTAACTTTACCTA
59393014 TTCA
1 TTCA
59393018 TGGTTTTCCA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 61 0.64
92 34 0.36
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (92 bp):
TTCACTATTATTCCATTCCTACTATTTTTAGTGATTTTTCAAATCCACATCACTGCTGCTGTCAG
CATCTATTTTTAAGGTAACTTTACCTA
Found at i:59393711 original size:40 final size:40
Alignment explanation
Indices: 59393662--59393811 Score: 212
Period size: 40 Copynumber: 3.8 Consensus size: 40
59393652 TTAAGCAAGA
59393662 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
*
59393702 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-AC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAAC
* * * *
59393742 TAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
* * *
59393782 TCGCACGAATGCCTTCGGATCTTAGTCCGG
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGG
59393812 TTATCATCCA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
Found at i:59401689 original size:40 final size:40
Alignment explanation
Indices: 59401631--59401793 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
59401621 TCCTCGGGAT
*
59401631 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
59401670 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
59401710 TTAGCTCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
59401750 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
59401790 TTAG
1 TTAG
59401794 TCCAGTTATC
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:59401756 original size:80 final size:79
Alignment explanation
Indices: 59401627--59401793 Score: 248
Period size: 80 Copynumber: 2.1 Consensus size: 79
59401617 AGTATCCTCG
* * *
59401627 GGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
1 GGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTC
59401691 GCACAAATGCCTTC
66 GCACAAATGCCTTC
* *
59401705 GGGTCTTAGCTCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCAAC
1 GGATCTTAGC-CGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAAC
*
59401769 TCGCACGAATGCCTTC
64 TCGCACAAATGCCTTC
59401785 GGATCTTAG
1 GGATCTTAG
59401794 TCCAGTTATC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 3 0.04
79 5 0.06
80 70 0.89
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (79 bp):
GGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTC
GCACAAATGCCTTC
Found at i:59406435 original size:20 final size:21
Alignment explanation
Indices: 59406410--59406450 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59406400 TATAAAATTA
*
59406410 ATTTTTCTAAA-AATATTTTT
1 ATTTTTCGAAATAATATTTTT
*
59406430 ATTTTTCGAAATATTATTTTT
1 ATTTTTCGAAATAATATTTTT
59406451 TGATTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTTCGAAATAATATTTTT
Found at i:59409395 original size:17 final size:18
Alignment explanation
Indices: 59409362--59409396 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59409352 TTTTAAGAAG
59409362 GATTTTCAATGAAAACAC
1 GATTTTCAATGAAAACAC
*
59409380 GATTTTCACT-AAAACAC
1 GATTTTCAATGAAAACAC
59409397 TTCAATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (18 bp):
GATTTTCAATGAAAACAC
Found at i:59414459 original size:15 final size:16
Alignment explanation
Indices: 59414439--59414470 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59414429 TTGTAACGCC
59414439 CCAAAA-TCCCGAAAT
1 CCAAAAGTCCCGAAAT
59414454 CCAAAAGTCCCGAAAT
1 CCAAAAGTCCCGAAAT
59414470 C
1 C
59414471 TTGAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.44, C:0.34, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAAAGTCCCGAAAT
Found at i:59415720 original size:16 final size:16
Alignment explanation
Indices: 59415701--59415731 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59415691 ACCGAAATGC
59415701 CGAAATGCTGAAAAGT
1 CGAAATGCTGAAAAGT
*
59415717 CGAAATGTTGAAAAG
1 CGAAATGCTGAAAAG
59415732 CCAAAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (16 bp):
CGAAATGCTGAAAAGT
Found at i:59416008 original size:29 final size:29
Alignment explanation
Indices: 59415948--59416091 Score: 139
Period size: 29 Copynumber: 5.0 Consensus size: 29
59415938 GTGAGAATGA
* * ** *
59415948 ATATGAATGTGA-TTGGGCCTAACGATCT
1 ATATAAATGTGATTTGGGCCTAATGGGCC
59415976 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
59416005 ATATACAGGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
59416034 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* ** * *
59416063 CTATGGATATGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
59416091 A
1 A
59416092 AATACAGGTA
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
28 26 0.26
29 73 0.74
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:59416076 original size:58 final size:57
Alignment explanation
Indices: 59415984--59416100 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 57
59415974 CTATATAAAT
* *
59415984 GTGATTTGGGCCTAATGGGCCATATACAGGTGATTTGGGCCTAATAGGCCATATACAG
1 GTGATTTGGGCCTAATGGGCCATATACAGATGA-TTGGGCCTAATAGGCCAAATACAG
* ** * * *
59416042 GTGATTTGGGCCTAATGGGCCCTATGGATATGATTGGGCTTAATGGGCCAAATACAG
1 GTGATTTGGGCCTAATGGGCCATATACAGATGATTGGGCCTAATAGGCCAAATACAG
59416099 GT
1 GT
59416101 ATGTGAATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.45
58 28 0.55
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (57 bp):
GTGATTTGGGCCTAATGGGCCATATACAGATGATTGGGCCTAATAGGCCAAATACAG
Found at i:59417654 original size:115 final size:115
Alignment explanation
Indices: 59417392--59417665 Score: 313
Period size: 115 Copynumber: 2.4 Consensus size: 115
59417382 TGAGGGATGT
* * * * * * *
59417392 CTTTGTGGAAATCTTTGTAAA-GAATGCCTCTGTAGCGATCTCTGAAAGAAAAGACTTTGTTGTG
1 CTTTGTGGCAATCTTTGTAAAGGAA-GCCTTTGTGGCAATCTCTGAAAGAAAAGACTTTATGGTA
* *
59417456 AGTACTAAAGGAAAATGGATGCCTTTGTGGCAATCTTAGTGAAAGAAACGC
65 AGTACTAAAGGAAAATGGATGACTTCGTGGCAATCTTAGTGAAAGAAACGC
* * ** * * * *
59417507 CTTTATGGCAATCTTTTTAAAGGGCGCATTTGTGGCAATTTTTGAAA-AGAAAGTCTTTATGGTA
1 CTTTGTGGCAATCTTTGTAAAGGAAGCCTTTGTGGCAATCTCTGAAAGA-AAAGACTTTATGGTA
* *
59417571 AGTACTAAATGAAAATGGATGACTTCGTGGCAATCTTA-TGGAAAGAAATGC
65 AGTACTAAAGGAAAATGGATGACTTCGTGGCAATCTTAGT-GAAAGAAACGC
59417622 CTTTGTGGCAATCTTTGTAAAGGAAGCCTTTGTGG-AGATCTCTG
1 CTTTGTGGCAATCTTTGTAAAGGAAGCCTTTGTGGCA-ATCTCTG
59417666 TTAAAGGAAG
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
114 3 0.02
115 125 0.97
116 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (115 bp):
CTTTGTGGCAATCTTTGTAAAGGAAGCCTTTGTGGCAATCTCTGAAAGAAAAGACTTTATGGTAA
GTACTAAAGGAAAATGGATGACTTCGTGGCAATCTTAGTGAAAGAAACGC
Found at i:59417680 original size:28 final size:28
Alignment explanation
Indices: 59417620--59417822 Score: 148
Period size: 28 Copynumber: 7.4 Consensus size: 28
59417610 GGAAAGAAAT
*
59417620 GCCTTTGTGGCA-ATCTTTG-TAAAGGAA
1 GCCTTTGTGG-AGATCTCTGTTAAAGGAA
59417647 GCCTTTGTGGAGATCTCTGTTAAAGGAA
1 GCCTTTGTGGAGATCTCTGTTAAAGGAA
* * * *
59417675 GACTTTGTGGTGATCTCTCTTAAAAGAA
1 GCCTTTGTGGAGATCTCTGTTAAAGGAA
* * *
59417703 GCCTTTATGGCGATCTCTATT-AAGGAA
1 GCCTTTGTGGAGATCTCTGTTAAAGGAA
** * *
59417730 AACTCTTGT-GACAATCTCT-ATAAAGGAA
1 GCCT-TTGTGGA-GATCTCTGTTAAAGGAA
* * * *
59417758 GTCGTTGTGGTGATCTCTGTTAAAGAAA
1 GCCTTTGTGGAGATCTCTGTTAAAGGAA
* * * * *
59417786 GTCTTTATGGAAATCTTTG-TAATGGAA
1 GCCTTTGTGGAGATCTCTGTTAAAGGAA
59417813 GCCTTTGTGG
1 GCCTTTGTGG
59417823 CTACCTTTGA
Statistics
Matches: 137, Mismatches: 32, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 49 0.36
28 87 0.64
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (28 bp):
GCCTTTGTGGAGATCTCTGTTAAAGGAA
Found at i:59417708 original size:56 final size:55
Alignment explanation
Indices: 59417622--59417822 Score: 172
Period size: 55 Copynumber: 3.6 Consensus size: 55
59417612 AAAGAAATGC
* * *
59417622 CTTTGTGGCAATCTTTGTAAAGGAAGCCTTTGTGGAGATCTCTGTTAAAGGAAGA
1 CTTTGTGACAATCTCTATAAAGGAAGCCTTTGTGGAGATCTCTGTTAAAGGAAGA
*** * * * * * *
59417677 CTTTGTGGTGATCTCTCTTAAAAGAAGCCTTTATGGCGATCTCTATT-AAGGAAAA
1 CTTTGTGACAATCTCT-ATAAAGGAAGCCTTTGTGGAGATCTCTGTTAAAGGAAGA
* * * * *
59417732 CTCTTGTGACAATCTCTATAAAGGAAGTCGTTGTGGTGATCTCTGTTAAAGAAAGT
1 CT-TTGTGACAATCTCTATAAAGGAAGCCTTTGTGGAGATCTCTGTTAAAGGAAGA
* * * *
59417788 CTTTATGGA-AATCTTTGTAATGGAAGCCTTTGTGG
1 CTTTGT-GACAATCTCTATAAAGGAAGCCTTTGTGG
59417823 CTACCTTTGA
Statistics
Matches: 114, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
55 69 0.61
56 45 0.39
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (55 bp):
CTTTGTGACAATCTCTATAAAGGAAGCCTTTGTGGAGATCTCTGTTAAAGGAAGA
Found at i:59418634 original size:15 final size:13
Alignment explanation
Indices: 59418597--59418621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59418587 ACATTCTTTG
59418597 AAAAAAAATTCGA
1 AAAAAAAATTCGA
59418610 AAAAAAAATTCG
1 AAAAAAAATTCG
59418622 TGCAAAAAAA
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:59418697 original size:14 final size:14
Alignment explanation
Indices: 59418678--59418704 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59418668 ATCTTTGCAA
59418678 GTGAAAAAAAATTC
1 GTGAAAAAAAATTC
59418692 GTGAAAAAAAATT
1 GTGAAAAAAAATT
59418705 GTTTAAGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (14 bp):
GTGAAAAAAAATTC
Found at i:59419566 original size:57 final size:56
Alignment explanation
Indices: 59419478--59419589 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 56
59419468 ACGTGTTTCA
*
59419478 TATTCATCCATGAAGGGTCAATCTCGAAGAGATGATCATGTTTTGTATGAAGATTCG
1 TATTCATCCATGAAAGGTCAATCTCGAAGAGATGATCAT-TTTTGTATGAAGATTCG
59419535 TATTCATCCATGAAAGGTCAATCTCGAAGAGATGATCATTTTTGTATGAAGATTC
1 TATTCATCCATGAAAGGTCAATCTCGAAGAGATGATCATTTTTGTATGAAGATTC
59419590 TTTCTCTCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 16 0.30
57 38 0.70
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (56 bp):
TATTCATCCATGAAAGGTCAATCTCGAAGAGATGATCATTTTTGTATGAAGATTCG
Found at i:59419712 original size:21 final size:22
Alignment explanation
Indices: 59419664--59419718 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
59419654 AAAAGAAAGC
*
59419664 AAGAAAAAGAAATCGAGAGAAG
1 AAGAAAAAGAAATCGAGAGAAA
* *
59419686 AA-AAAAAGACATGGA-AGAAA
1 AAGAAAAAGAAATCGAGAGAAA
*
59419706 AAGAAAAGGAAAT
1 AAGAAAAAGAAAT
59419719 AAAAAGAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.22
21 19 0.70
22 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.05
Consensus pattern (22 bp):
AAGAAAAAGAAATCGAGAGAAA
Found at i:59421583 original size:19 final size:18
Alignment explanation
Indices: 59421555--59421590 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59421545 TTAAGGACTT
*
59421555 TTTAATTTAATTAAGTTTA
1 TTTAAATTAA-TAAGTTTA
59421574 TTTAAATTAATAAGTTT
1 TTTAAATTAATAAGTTT
59421591 GCATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATTAATAAGTTTA
Found at i:59421918 original size:9 final size:9
Alignment explanation
Indices: 59421904--59421972 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
59421894 ATTAAGCTAA
59421904 GTGTTTAAT
1 GTGTTTAAT
59421913 GTGTTT--T
1 GTGTTTAAT
59421920 GTGTTTAAT
1 GTGTTTAAT
*
59421929 AAGTGTTTAAAA
1 --GTGTTT-AAT
59421941 GTGTTTAAT
1 GTGTTTAAT
*
59421950 ATG-TT--T
1 GTGTTTAAT
59421956 GT-TTTAAT
1 GTGTTTAAT
59421964 GTGTTTAAT
1 GTGTTTAAT
59421973 TGCAAGTGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
6 4 0.09
7 7 0.15
8 5 0.11
9 17 0.36
10 6 0.13
11 6 0.13
12 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (9 bp):
GTGTTTAAT
Found at i:59421943 original size:37 final size:33
Alignment explanation
Indices: 59421902--59421971 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 33
59421892 TAATTAAGCT
*
59421902 AAGTGTTTAATGTGTTTTGTGTTTAATAAGTGTTTAA
1 AAGTGTTTAATATG-TTTGT-TTTAAT--GTGTTTAA
59421939 AAGTGTTTAATATGTTTGTTTTAATGTGTTTAA
1 AAGTGTTTAATATGTTTGTTTTAATGTGTTTAA
59421972 TTGCAAGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 8 0.25
35 6 0.19
36 5 0.16
37 13 0.41
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (33 bp):
AAGTGTTTAATATGTTTGTTTTAATGTGTTTAA
Found at i:59421944 original size:10 final size:11
Alignment explanation
Indices: 59421920--59421950 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
59421910 AATGTGTTTT
59421920 GTGTTTAATAA
1 GTGTTTAATAA
59421931 GTGTTTAA-AA
1 GTGTTTAATAA
59421941 GTGTTTAATA
1 GTGTTTAATA
59421951 TGTTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (11 bp):
GTGTTTAATAA
Found at i:59421967 original size:23 final size:21
Alignment explanation
Indices: 59421919--59421972 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
59421909 TAATGTGTTT
59421919 TGTGTTTAATAAGTGTTTAAA
1 TGTGTTTAATAAGTGTTTAAA
* * *
59421940 AGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG--TGTTTAAA
59421963 TGTGTTTAAT
1 TGTGTTTAAT
59421973 TGCAAGTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.41
23 16 0.59
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.54
Consensus pattern (21 bp):
TGTGTTTAATAAGTGTTTAAA
Found at i:59423798 original size:25 final size:25
Alignment explanation
Indices: 59423770--59423820 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
59423760 ACATAACAAA
59423770 CATAATTATCATTCAGCCATAGATT
1 CATAATTATCATTCAGCCATAGATT
*
59423795 CATAATTATTATTCAGCCATAGATT
1 CATAATTATCATTCAGCCATAGATT
59423820 C
1 C
59423821 TCTTCAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (25 bp):
CATAATTATCATTCAGCCATAGATT
Found at i:59428497 original size:36 final size:36
Alignment explanation
Indices: 59428442--59428551 Score: 157
Period size: 36 Copynumber: 3.1 Consensus size: 36
59428432 TGTCACATTT
* *
59428442 ATCGCAATTGCAGGCTTAAGGGAGACTATTGTGGTC
1 ATCGCAATTGCGGGCTTAAGGGAGACTATTGCGGTC
*
59428478 ATCGCAATTGCGGGTTTAAGGGAGACTATTGCGGTC
1 ATCGCAATTGCGGGCTTAAGGGAGACTATTGCGGTC
* * * *
59428514 ATAGCAATTGTGGCCTTAAGGGAGACTATTGCAGTC
1 ATCGCAATTGCGGGCTTAAGGGAGACTATTGCGGTC
59428550 AT
1 AT
59428552 GGAATTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (36 bp):
ATCGCAATTGCGGGCTTAAGGGAGACTATTGCGGTC
Found at i:59432165 original size:20 final size:20
Alignment explanation
Indices: 59432140--59432229 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
59432130 AGATCTATAA
59432140 TATATAACAACATATCTATT
1 TATATAACAACATATCTATT
59432160 TATATAAC-A-ATAT-T-TT
1 TATATAACAACATATCTATT
* * * *
59432176 TATAACAACTACCAAGATCTATAA
1 TAT-ATAAC-AAC-ATATCTAT-T
59432200 TATATAACAACATATCTATT
1 TATATAACAACATATCTATT
59432220 TATATAACAA
1 TATATAACAA
59432230 TATTTTTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
16 5 0.09
17 5 0.09
18 4 0.07
19 1 0.02
20 18 0.33
21 10 0.19
22 3 0.06
23 5 0.09
24 3 0.06
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (20 bp):
TATATAACAACATATCTATT
Found at i:59432192 original size:60 final size:60
Alignment explanation
Indices: 59432087--59432344 Score: 291
Period size: 60 Copynumber: 4.4 Consensus size: 60
59432077 TAAACTCGTT
* * *
59432087 TATAAC-ATATATCTATTTATATAAC---A-TTTTATAACAACTATCAAGATCTATAATA
1 TATAACAACATATCTATTTATATAACAATATTTTTATAACAACTACCAAAATCTATAATA
*
59432142 TATAACAACATATCTATTTATATAACAATATTTTTATAACAACTACCAAGATCTATAATA
1 TATAACAACATATCTATTTATATAACAATATTTTTATAACAACTACCAAAATCTATAATA
* *
59432202 TATAACAACATATCTATTTATATAACAATATTTTT-TAATAACTATCAAAATCTATAATA
1 TATAACAACATATCTATTTATATAACAATATTTTTATAACAACTACCAAAATCTATAATA
* ** * *** *
59432261 TAT--CTATTTATATAACAAT-TAAACAACACTTTTTATAACAACTACCAAAATCTATAATA
1 TATAACAACATATCTATTTATAT-AACAATA-TTTTTATAACAACTACCAAAATCTATAATA
* *
59432320 GATAACAACGTATCTATTTATATAA
1 TATAACAACATATCTATTTATATAA
59432345 TGTGATGAGT
Statistics
Matches: 169, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
55 6 0.04
56 19 0.11
57 15 0.09
58 5 0.03
59 49 0.29
60 63 0.37
61 11 0.07
62 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (60 bp):
TATAACAACATATCTATTTATATAACAATATTTTTATAACAACTACCAAAATCTATAATA
Found at i:59438846 original size:124 final size:124
Alignment explanation
Indices: 59438624--59438848 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
59438614 GAATTATGTG
* * * * * *
59438624 AAATGAAATATGGATGTGTAATGATTATCGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
59438689 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGACCCGAAGACGATTATGCTAGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
59438748 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
59438813 GCTAAGACCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGACCCGAAGACGATTA-TGCTAGAAATTATAT
59438849 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 3 0.03
124 84 0.97
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGACCCGAAGACGATTATGCTAGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:59438931 original size:40 final size:40
Alignment explanation
Indices: 59438843--59438932 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
59438833 TTGCTGGAAA
* *
59438843 TTATATCCGGGTTAAGACCCGAAGGCCATTGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAAGCCATTGTGCTAGCGG
* * *
59438883 CTACATCCGGGCTAAGACCCGAAAG-CATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAAGCCATT-GTGCTA-GCGG
59438923 TTATATCCGG
1 TTATATCCGG
59438933 TTGTATTCCG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
39 5 0.12
40 36 0.88
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAAGCCATTGTGCTAGCGG
Found at i:59446868 original size:40 final size:39
Alignment explanation
Indices: 59446729--59446907 Score: 148
Period size: 40 Copynumber: 4.5 Consensus size: 39
59446719 GAATCACGTA
* **
59446729 CCTTCGGAGTTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGA-CTTAACCCGGATATAG-TAACTCGCACAAATG
* * * *
59446768 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAGATG
1 CCTTC-GGACTTAACCCGGATATAGTAACTCGCACAAATG
*
59446808 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTC-GGACTTAACCCGGATATAGTAACTCGCACAAATG
*** * *
59446848 CCTTCGGATCTTAGTTCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATG
*
59446888 CCTTCGGGACTTAGCCCGGA
1 CCTTC-GGACTTAACCCGGA
59446908 CATTATTCGA
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
39 11 0.10
40 92 0.81
41 11 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:59448815 original size:40 final size:40
Alignment explanation
Indices: 59448760--59448884 Score: 214
Period size: 40 Copynumber: 3.1 Consensus size: 40
59448750 TTATTTGATG
59448760 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
59448800 TGGAATTGTATCCGGGCTTAAAGACCCTCAAGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
59448840 TGGAATTGTATCCGGGCTGAAAGACCCGCAGGCTTTGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
59448880 TGGAA
1 TGGAA
59448885 CGACATCCAG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:59454843 original size:40 final size:39
Alignment explanation
Indices: 59454799--59455066 Score: 270
Period size: 40 Copynumber: 6.7 Consensus size: 39
59454789 ATAACCACAA
* * * * *
59454799 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
59454839 GCACAAATGCCTTCAGGTCTTAGCCCGGATATAGCAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
59454879 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
* * *
59454919 GCATAAATGGCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
59454959 GCACGAATGCCTTTGGGTCTTAGCCCAGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
59454999 GCACGAATGCCTTTGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
* *
59455039 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
59455067 GTATCATTCT
Statistics
Matches: 197, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 189 0.96
41 6 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:59454906 original size:80 final size:80
Alignment explanation
Indices: 59454779--59455066 Score: 330
Period size: 80 Copynumber: 3.6 Consensus size: 80
59454769 TCTTCAGAAT
* ** * * ** *
59454779 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCA
1 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCA
*
59454842 CAAATGCCTTCAGGTC
65 CAAATGCCTTCGGGTC
* * *
59454858 TTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCAC
*
59454923 AAATGGCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
59454938 TTAGCCCGGATATAACAACTCGCACGAATGCCTTTGGGTCTTAGCCCAGATATAACAACTCGCAC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCAC
* *
59455003 GAATGCCTTTGGGTC
66 AAATGCCTTCGGGTC
* ** *
59455018 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG
59455067 GTATCATTCT
Statistics
Matches: 177, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
79 4 0.02
80 170 0.96
81 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCAC
AAATGCCTTCGGGTC
Found at i:59454997 original size:120 final size:120
Alignment explanation
Indices: 59454779--59455066 Score: 407
Period size: 120 Copynumber: 2.4 Consensus size: 120
59454769 TCTTCAGAAT
* * * * * * *** *
59454779 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
* *
59454843 AAATGCCTTCAGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGGTC
66 AAATGCCTTCAGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
*
59454898 TTAGCCCGGATATAATCACTAGCATAAATGGCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
* ** *
59454963 GAATGCCTTTGGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTTGGGTC
66 AAATGCCTTCAGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
*
59455018 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGG
59455067 GTATCATTCT
Statistics
Matches: 149, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
119 4 0.03
120 145 0.97
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
AAATGCCTTCAGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
Found at i:59459043 original size:27 final size:27
Alignment explanation
Indices: 59458967--59459056 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
59458957 TTTAGTTTAC
* *
59458967 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
59458994 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
59459021 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
59459048 TAAAATTAC
1 TAAAATTAC
59459057 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:59459066 original size:54 final size:54
Alignment explanation
Indices: 59458967--59459073 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
59458957 TTTAGTTTAC
* * *
59458967 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
59459021 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
59459074 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:59459081 original size:27 final size:27
Alignment explanation
Indices: 59459062--59459326 Score: 269
Period size: 27 Copynumber: 9.8 Consensus size: 27
59459052 ATTACCAAAG
*
59459062 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
59459089 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
59459116 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
59459143 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
59459170 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** *
59459197 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
59459224 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
**** * **
59459251 TACTGTTGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* ** **
59459278 TACACTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
59459305 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
59459327 AGAAATACCC
Statistics
Matches: 207, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 207 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:59459099 original size:81 final size:81
Alignment explanation
Indices: 59459008--59459193 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
59458998 AATACTGAAA
* * * **
59459008 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
59459073 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* * * *** * **** *
59459089 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
59459154 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
59459170 TACCCTCGATTTATAAAATTACCG
1 TACCCTCGATTTATAAAATTACCG
59459194 TTTTACCCTT
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 83 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
TACAGAATTACTGTTT
Found at i:59459109 original size:54 final size:54
Alignment explanation
Indices: 59459062--59459326 Score: 332
Period size: 54 Copynumber: 4.9 Consensus size: 54
59459052 ATTACCAAAG
* * * * *
59459062 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
*
59459116 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
59459170 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* ** * * **
59459224 TACCCTCGATTTACAAAATTATCGTTTTACTGTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * ** *
59459278 TACACTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
59459327 AGAAATACCC
Statistics
Matches: 186, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 186 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:59459194 original size:81 final size:81
Alignment explanation
Indices: 59459062--59459325 Score: 359
Period size: 81 Copynumber: 3.3 Consensus size: 81
59459052 ATTACCAAAG
* * * * * *
59459062 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
* *
59459127 TACAAAATTACCGTTT
66 TACAGAATTACTGTTT
*
59459143 TACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
59459207 TTACAGAATTACTGTTT
65 TTACAGAATTACTGTTT
** * * ** *
59459224 TACCCTCGATTTACAAAATTATCGTTTTACTGTTGATTTATAGAATTACTATTTTACACTTGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
*
59459289 TACAGAATTACTATTT
66 TACAGAATTACTGTTT
59459305 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTA
59459326 CAGAAATACC
Statistics
Matches: 165, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 163 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
TACAGAATTACTGTTT
Found at i:59459352 original size:81 final size:80
Alignment explanation
Indices: 59459062--59459355 Score: 336
Period size: 81 Copynumber: 3.6 Consensus size: 80
59459052 ATTACCAAAG
* * ** * * * *
59459062 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTA-CGTTTTACCCTTGATTTATAAAATTACCATTTTACCCTTGATT
* *
59459127 TACAAAATTACCGTTT
65 TACAGAATTACTGTTT
* * *
59459143 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTAC-GTTTTACCCTTGATTTATAAAATTACCATTTTACCCTTGATT
59459208 TACAGAATTACTGTTT
65 TACAGAATTACTGTTT
** * * *
59459224 TACCCTCGATTTACAAAATTATCGTTTTACTGTTGATTTATAGAATTACTATTTTACACTTGATT
1 TACCCTCGATTTACAAAATTA-CGTTTTACCCTTGATTTATAAAATTACCATTTTACCCTTGATT
*
59459289 TACAGAATTACTATTT
65 TACAGAATTACTGTTT
*** * *
59459305 TACCCTCGATTTACAAAATTACAGAAATACCCTTAATTTGTAAAATTACCA
1 TACCCTCGATTTACAAAATTAC-GTTTTACCCTTGATTTATAAAATTACCA
59459356 AAATACCCCT
Statistics
Matches: 185, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 182 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACGTTTTACCCTTGATTTATAAAATTACCATTTTACCCTTGATTT
ACAGAATTACTGTTT
Found at i:59459531 original size:27 final size:27
Alignment explanation
Indices: 59459305--59459535 Score: 153
Period size: 27 Copynumber: 8.5 Consensus size: 27
59459295 ATTACTATTT
* * *
59459305 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
* * *
59459332 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
* * *
59459359 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGCAAAATTACCGAAA
* **
59459386 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTGCAAAATTACCGAAA
** * *
59459413 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
* * * *
59459440 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
**
59459467 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTGC--AAAATTACCGAAA
* * * *
59459496 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
*
59459523 TACCCTTGGTTTG
1 TACCCTTGATTTG
59459536 TAGATTTACC
Statistics
Matches: 164, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.01
27 136 0.83
28 7 0.04
29 19 0.12
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTGCAAAATTACCGAAA
Found at i:59459648 original size:27 final size:27
Alignment explanation
Indices: 59459587--59459650 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
59459577 TACCCCTATT
**
59459587 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
*
59459614 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
59459641 AGGTAAAGTG
1 AGGTAAAGTG
59459651 TAACACCCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAAAGCCCCTGTA
Found at i:59461074 original size:93 final size:93
Alignment explanation
Indices: 59460962--59461132 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59460952 GCCCATAAGT
* *
59460962 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59461027 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59461055 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59461120 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59461133 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59461148 original size:46 final size:46
Alignment explanation
Indices: 59460954--59461134 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
59460944 TGTAACCCGC
* * *
59460954 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59461000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59461050 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
59461093 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
59461135 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59463552 original size:29 final size:29
Alignment explanation
Indices: 59463513--59463600 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
59463503 CAAAGATAAC
*
59463513 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
59463542 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
59463571 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
59463601 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:59463571 original size:15 final size:15
Alignment explanation
Indices: 59463513--59463591 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
59463503 CAAAGATAAC
*
59463513 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59463527 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59463542 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
59463556 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59463571 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59463586 AAGAAA
1 AAGAAA
59463592 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59463600 original size:15 final size:15
Alignment explanation
Indices: 59463524--59463600 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
59463514 AGAAAACCGA
59463524 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
59463539 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
59463553 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
59463567 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59463583 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59463598 ATA
1 ATA
59463601 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59466660 original size:93 final size:93
Alignment explanation
Indices: 59466548--59466719 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59466538 GCCCATAAGT
* *
59466548 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59466613 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59466641 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59466706 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59466720 AAATATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59466715 original size:46 final size:46
Alignment explanation
Indices: 59466540--59466715 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59466530 TGTAACCCGC
* * *
59466540 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59466586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59466636 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59466679 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59466716 TGCCAAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59469915 original size:26 final size:25
Alignment explanation
Indices: 59469876--59469968 Score: 105
Period size: 26 Copynumber: 3.6 Consensus size: 25
59469866 AACACATCAA
*
59469876 GAAAGAACGCCTTTGTGGCGTAATAT
1 GAAAGAAAGCCTTTG-GGCGTAATAT
* *
59469902 GAAAGAAAGGCTTTGCAGCGTAATAT
1 GAAAGAAAGCCTTTG-GGCGTAATAT
* *
59469928 GAAAGAAAGCCTTTGGGTGGAATAT
1 GAAAGAAAGCCTTTGGGCGTAATAT
*
59469953 GAAAAGAATGCCTTTG
1 G-AAAGAAAGCCTTTG
59469969 TTGCAAACTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 8 0.14
26 49 0.86
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (25 bp):
GAAAGAAAGCCTTTGGGCGTAATAT
Found at i:59472768 original size:28 final size:29
Alignment explanation
Indices: 59472736--59472850 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
59472726 TACCTGTATT
* *
59472736 TGGCCCATTAAGCCC-AATTACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
59472764 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
59472793 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
59472822 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
59472850 T
1 T
59472851 TCATGCTTAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 49 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:59475971 original size:22 final size:23
Alignment explanation
Indices: 59475925--59475971 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
59475915 TTTGGAATTT
*
59475925 GAAATAATGGTTTCAAAATATAA
1 GAAATAATGGTTTCAAAATAAAA
59475948 GAAA-AAT-GTTTCAAAATTAAAA
1 GAAATAATGGTTTCAAAA-TAAAA
59475970 GA
1 GA
59475972 TGAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 9 0.41
23 4 0.18
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (23 bp):
GAAATAATGGTTTCAAAATAAAA
Found at i:59481661 original size:42 final size:42
Alignment explanation
Indices: 59481597--59481747 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
59481587 CTAAGTCTAT
* * *
59481597 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGAATTC
1 GTGTAAGACCATATCTAGGATATGGCATCGATAAGAGAATTC
* * * *
59481639 GTGTAAGACCATATTTACGATATGGAATCGATAAGAGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCGATAAGAGAATTC
* * *
59481681 GTGTAAGACCATAGT-TGGGCTATTGGCATCGATACGAG-ATTAC
1 GTGTAAGACCATA-TCTAGGATA-TGGCATCGATAAGAGAATT-C
*
59481724 ATGTAAGACCATATCTAGGATATG
1 GTGTAAGACCATATCTAGGATATG
59481748 ACATTGGTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 57 0.64
43 32 0.36
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCGATAAGAGAATTC
Found at i:59483617 original size:26 final size:26
Alignment explanation
Indices: 59483586--59483636 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
59483576 GCAAAAAAAA
59483586 TTTAAGTGTTGTACAATTTTCTAAAT
1 TTTAAGTGTTGTACAATTTTCTAAAT
59483612 TTTAAGTGTTGTACAATTTTCTAAA
1 TTTAAGTGTTGTACAATTTTCTAAA
59483637 GTTCTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (26 bp):
TTTAAGTGTTGTACAATTTTCTAAAT
Found at i:59487777 original size:40 final size:39
Alignment explanation
Indices: 59487588--59487770 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
59487578 CGAATGATGT
* *
59487588 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59487627 TTCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
59487668 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59487705 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59487746 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59487771 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 23 0.19
39 18 0.15
40 67 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59490708 original size:34 final size:33
Alignment explanation
Indices: 59490669--59490749 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 33
59490659 TTAAGCCCTC
*
59490669 TTTCAGTAGCAGTAACAGTTTGGGCCTGAGCCCA
1 TTTCAGTA-CAGTAACAGTCTGGGCCTGAGCCCA
*** *
59490703 TTTCAGTATCAGTGGTAGTCTGGGCCTTAGCCCA
1 TTTCAGTA-CAGTAACAGTCTGGGCCTGAGCCCA
59490737 TGTT-AGTACAGTA
1 T-TTCAGTACAGTA
59490750 TGCGAACACA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
33 4 0.10
34 33 0.85
35 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (33 bp):
TTTCAGTACAGTAACAGTCTGGGCCTGAGCCCA
Found at i:59496501 original size:29 final size:27
Alignment explanation
Indices: 59496467--59496569 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
59496457 TACTCAATCA
*
59496467 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
59496496 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
59496525 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
59496554 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59496570 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:59515776 original size:49 final size:47
Alignment explanation
Indices: 59515625--59515847 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
59515615 ATGATATACA
* *
59515625 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
59515672 CATATGTGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCC-TAATGGCCAATGTGATGAATGTGAAAGTG
*
59515719 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
59515766 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
59515815 TATATATATGTGATAAGGCCTAATGGCTAATGT
1 --TATATATGTGATAAGGCCTAATGGCCAATGT
59515848 AAAATATATG
Statistics
Matches: 162, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
46 1 0.01
47 88 0.54
49 71 0.44
51 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:59515993 original size:37 final size:37
Alignment explanation
Indices: 59515943--59516064 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
59515933 GGAATATGTT
*
59515943 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
59515980 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
59516017 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
59516054 CCGGGTAAGAC
1 CCGGGTAAGAC
59516065 TTCGTAATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:59519545 original size:47 final size:47
Alignment explanation
Indices: 59519491--59519620 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
59519481 GTGCGAATAA
** * *
59519491 TACCTTGATTTTGCTATGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTTGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * *
59519538 TACCTTGATTTGGCTACAGGCCATGGTTTAGGTACTCCGAGATAAGT
1 TACCTTGATTTTGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGT
* * *
59519585 TACCTTGATTTTGCTACAAGCCATGATATATGTACT
1 TACCTTGATTTTGCTACAGGCCATGGTATAGGTACT
59519621 TATTGATTGT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTTGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:59520532 original size:30 final size:30
Alignment explanation
Indices: 59520498--59520562 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
59520488 GTCTCAGTTG
59520498 TGTGTGACACACGGTCATGCTACATGGTCA
1 TGTGTGACACACGGTCATGCTACATGGTCA
* *
59520528 TGTGTGACACACGGTCATGCTAGATGGTCG
1 TGTGTGACACACGGTCATGCTACATGGTCA
59520558 TGTGT
1 TGTGT
59520563 CCCCTGCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (30 bp):
TGTGTGACACACGGTCATGCTACATGGTCA
Found at i:59520545 original size:17 final size:17
Alignment explanation
Indices: 59520498--59520546 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
59520488 GTCTCAGTTG
59520498 TGTGTGACACACGGTCA
1 TGTGTGACACACGGTCA
* *
59520515 TG-CT---ACATGGTCA
1 TGTGTGACACACGGTCA
59520528 TGTGTGACACACGGTCA
1 TGTGTGACACACGGTCA
59520545 TG
1 TG
59520547 CTAGATGGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
16 1 0.04
17 12 0.50
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (17 bp):
TGTGTGACACACGGTCA
Found at i:59521034 original size:15 final size:15
Alignment explanation
Indices: 59521014--59521042 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59521004 TAAATGCACA
59521014 TGAATGATGTGTATG
1 TGAATGATGTGTATG
59521029 TGAATGATGTGTAT
1 TGAATGATGTGTAT
59521043 TGATCGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
TGAATGATGTGTATG
Found at i:59525526 original size:6 final size:6
Alignment explanation
Indices: 59525517--59525549 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
59525507 AGAAAATTAA
*
59525517 AAAAAG AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
59525550 TAAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:59527429 original size:20 final size:19
Alignment explanation
Indices: 59527379--59527430 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
59527369 AGGGAAAAGA
*
59527379 GAAAGAAAGGGAAGAAGGAG
1 GAAAGAAAGGG-AGGAGGAG
59527399 GAAAG--AGGGAGGAGGAAG
1 GAAAGAAAGGGAGGAGG-AG
59527417 GAAAGAAAGGGAGG
1 GAAAGAAAGGGAGG
59527431 GGATAGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.18
18 11 0.39
20 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGGGAGGAGGAG
Found at i:59540452 original size:46 final size:45
Alignment explanation
Indices: 59540385--59540554 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 45
59540375 TGTAACCTGC
* *
59540385 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
* * * *
59540431 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGTAT
* * * * *
59540477 ACATCTCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
*
59540524 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
59540555 TTCAGATGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
45 3 0.03
46 60 0.61
47 32 0.32
48 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGTAT
Found at i:59540500 original size:93 final size:93
Alignment explanation
Indices: 59540392--59540564 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
59540382 TGCCCATAAG
* * * * *
59540392 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGTATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
59540457 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
59540485 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
59540550 ACGAGTTCAGATGCC
66 ACGAGTTCAGATGCC
59540565 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:59543147 original size:46 final size:45
Alignment explanation
Indices: 59543097--59543272 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
59543087 TGGTTGAGCA
*
59543097 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
59543143 TCCGAACTCGTTGAGTTGAGTCCGAATTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
59543190 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
59543236 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59543273 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59544788 original size:108 final size:110
Alignment explanation
Indices: 59544636--59544836 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
59544626 ATCCTTTTAA
* * * *
59544636 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTATTAAATGATATCCTTGCCTTA-GAAACCTCACCAA
59544699 -TGCCATGCCTTGGCATGATCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGATCTTACATGGGACCTTTGCCTTATAGT
* * *
59544744 AACTTATCAATGCCATGTCTTGACATGGTATTAAATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTATTAAATGATATCCTTGCCTTAGAAACCTCACCAAT
* * *
59544809 TTCCATGCCTTGTCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGATCTTACATGG
59544837 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTATTAAATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGATCTTACATGGGACCTTTGCCTTATAGT
Found at i:59544791 original size:55 final size:52
Alignment explanation
Indices: 59544589--59544843 Score: 216
Period size: 55 Copynumber: 4.8 Consensus size: 52
59544579 ACGTGGGTAC
* * * *
59544589 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TTA-AAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
*
59544638 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * * * *
59544691 CTCACCAATGCCATGCCTTGGCATGATCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AA
* * * *
59544746 CTTATCAATGCCATGTCTTGACATGGTATTAAATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
* * *
59544799 CCTTACCAATTTCCATGCCTTGTCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
59544844 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 41 0.24
52 5 0.03
53 46 0.27
54 9 0.05
55 64 0.38
56 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:59547316 original size:111 final size:111
Alignment explanation
Indices: 59547122--59547343 Score: 435
Period size: 111 Copynumber: 2.0 Consensus size: 111
59547112 GAAAATGAGA
59547122 AAATTACCAAAATACCCCTGAACTTTGGTATCTCTACAATTTAGCCAGGTAAGTTCGTATGCAAT
1 AAATTACCAAAATACCCCTGAACTTTGGTATCTCTACAATTTAGCCAGGTAAGTTCGTATGCAAT
59547187 AATCATTGTTAAATTTATGTTTCTAATGCTTTGATATCGTATAAAT
66 AATCATTGTTAAATTTATGTTTCTAATGCTTTGATATCGTATAAAT
*
59547233 AAATTACCAAAATACCCCTGAACTTTGGTATCTCTACAATTTAGGCAGGTAAGTTCGTATGCAAT
1 AAATTACCAAAATACCCCTGAACTTTGGTATCTCTACAATTTAGCCAGGTAAGTTCGTATGCAAT
59547298 AATCATTGTTAAATTTATGTTTCTAATGCTTTGATATCGTATAAAT
66 AATCATTGTTAAATTTATGTTTCTAATGCTTTGATATCGTATAAAT
59547344 TATATATACG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (111 bp):
AAATTACCAAAATACCCCTGAACTTTGGTATCTCTACAATTTAGCCAGGTAAGTTCGTATGCAAT
AATCATTGTTAAATTTATGTTTCTAATGCTTTGATATCGTATAAAT
Found at i:59547470 original size:28 final size:28
Alignment explanation
Indices: 59547436--59547500 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
59547426 TCAGTGTACG
* * *
59547436 AAATATTGAGAATGGCATTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
59547464 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
59547492 AAATATTGA
1 AAATATTGA
59547501 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:59547617 original size:39 final size:39
Alignment explanation
Indices: 59547573--59547834 Score: 409
Period size: 39 Copynumber: 6.7 Consensus size: 39
59547563 GACTTTATAA
*
59547573 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
59547612 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
59547651 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
59547690 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
59547729 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGAGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
59547768 TGGTGTTATATCCGGGCTAAAGTCCCGCAGG-GTTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
59547807 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
59547835 CAGGGTTTGT
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 188 0.90
40 20 0.10
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:59550062 original size:50 final size:49
Alignment explanation
Indices: 59549987--59550116 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 49
59549977 ACAACTTCGA
*
59549987 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT-GG
* * * *
59550037 TCACGTGTGTACTACTAGGTGCAGGCTACTATGTGTACCAGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTGG
* * * *
59550086 TCGCATGTGAAGTACTAAGTGTAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
59550117 TGCGTACTAG
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 27 0.39
50 42 0.61
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTGG
Found at i:59550348 original size:16 final size:15
Alignment explanation
Indices: 59550327--59550356 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59550317 GAATGTAGGA
59550327 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
59550343 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
59550357 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:59554170 original size:70 final size:71
Alignment explanation
Indices: 59554087--59554249 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
59554077 CGATTTGTCT
59554087 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA-
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59554151 CTTTCA
66 CTTTCA
59554157 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59554222 CTTTCA
66 CTTTCA
59554228 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59554250 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59554287 original size:71 final size:69
Alignment explanation
Indices: 59554087--59554283 Score: 247
Period size: 70 Copynumber: 2.8 Consensus size: 69
59554077 CGATTTGTCT
* * * *
59554087 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAC
59554152 TTTCA
65 TTTCA
* * * *
59554157 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTA-
59554222 CTTTCA
64 CTTTCA
* *
59554228 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
59554284 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 65 0.55
71 31 0.26
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTACT
TTCA
Found at i:59559853 original size:29 final size:30
Alignment explanation
Indices: 59559820--59559879 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
59559810 CTTTAAGCAT
59559820 TCCTCGGGT-GTACATGAGAGCTCATCAAA
1 TCCTCGGGTAGTACATGAGAGCTCATCAAA
59559849 TCCTCGGGTAGTACATGAGAGCTCATCAAA
1 TCCTCGGGTAGTACATGAGAGCTCATCAAA
59559879 T
1 T
59559880 ACACGGGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (30 bp):
TCCTCGGGTAGTACATGAGAGCTCATCAAA
Found at i:59561751 original size:70 final size:71
Alignment explanation
Indices: 59561668--59561830 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
59561658 CGATTTGTCT
59561668 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA-
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59561732 CTTTCA
66 CTTTCA
59561738 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59561803 CTTTCA
66 CTTTCA
59561809 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59561831 GATACATCTG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59566418 original size:48 final size:48
Alignment explanation
Indices: 59566342--59566473 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 48
59566332 GAGAGTAAAT
* * *
59566342 TGCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCGCCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCAA
* * * * ***
59566390 TGCCGATGCCATGTTCCAAACATGGTCTTA-ACTGGCTCTCATATTGT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCAA
*
59566437 TGCCGACGCCATGTCCCAGACATGGTCTTACACTAGC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
59566474 GCACATATCA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
47 37 0.54
48 32 0.46
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCAA
Found at i:59568227 original size:47 final size:47
Alignment explanation
Indices: 59568173--59568304 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 47
59568163 GTGTGAATAA
*
59568173 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT-AGAGAGAAGT
* * *
59568220 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTAGAGAGAAGT
* * *
59568267 TGCTTTGATTTGGCTACAGGCCATGGTATAGGTACTTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTA
59568305 CTGATTGTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
47 74 0.97
48 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTAGAGAGAAGT
Found at i:59571853 original size:40 final size:40
Alignment explanation
Indices: 59571725--59571855 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
59571715 CATGCTGGAA
* * * *
59571725 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
59571765 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
59571805 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
59571845 ATTATATCCGG
1 ATTATATCCGG
59571856 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:59571854 original size:80 final size:80
Alignment explanation
Indices: 59571688--59571855 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
59571678 AAATTGAATG
*
59571688 ATATCCGGGCTAAATCCCGAAGACAATCATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAATCCCGAAGACAATCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
59571753 ATTGCGCTAGTGGCT
66 ATTGCGCTAGTGACT
* * * * * *
59571768 ACATCCGGGCTAAGA-CCCGAAGGCATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAA-ATCCCGAAGACAATCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* * *
59571831 CATTTGTGC-ACGTGATT
64 CAATTGCGCTA-GTGACT
59571848 ATATCCGG
1 ATATCCGG
59571856 TTATATTCCG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.03
80 70 0.96
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (80 bp):
ATATCCGGGCTAAATCCCGAAGACAATCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGCGCTAGTGACT
Found at i:59578886 original size:86 final size:86
Alignment explanation
Indices: 59578795--59578976 Score: 312
Period size: 86 Copynumber: 2.1 Consensus size: 86
59578785 CTGTATGCGA
*
59578795 TTTTTTTCTCTTCGGCTGCGTAGATTTTTATTTTTGTAGTAACAACAACAAACTAATCAAAATGA
1 TTTTTTTCTATTCGGCTGCGTAGATTTTTATTTTTGTAGTAACAACAACAAACTAATCAAAATGA
* *
59578860 GAAAATTTCGTATACGAAAAT
66 GAAAACTTCATATACGAAAAT
59578881 TTTTTTTCTATTCGGCTGCGTAGATTTTTATTTTTGTAGTAACAACAACAAACTAATCAAAATGA
1 TTTTTTTCTATTCGGCTGCGTAGATTTTTATTTTTGTAGTAACAACAACAAACTAATCAAAATGA
* *
59578946 TAAAACTTCATATAGGAAAA-
66 GAAAACTTCATATACGAAAAT
59578966 TTTTTTTCTAT
1 TTTTTTTCTAT
59578977 ACTCTTTTTT
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 11 0.12
86 80 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (86 bp):
TTTTTTTCTATTCGGCTGCGTAGATTTTTATTTTTGTAGTAACAACAACAAACTAATCAAAATGA
GAAAACTTCATATACGAAAAT
Found at i:59585068 original size:43 final size:43
Alignment explanation
Indices: 59584984--59585068 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
59584974 TAACATGTAA
* * *
59584984 CGCATCCATAATGAACCCAGACCTCTCAACGAGCTCGGATGCT
1 CGCATCCATAATGAACCCAGACATCTCAACAAGCTCAGATGCT
* * *
59585027 CGCATCTATAATGAATTCC-GACATCTCAACAAGCTTAGATGC
1 CGCATCCATAATGAA-CCCAGACATCTCAACAAGCTCAGATGC
59585069 CACATATCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (43 bp):
CGCATCCATAATGAACCCAGACATCTCAACAAGCTCAGATGCT
Found at i:59591867 original size:27 final size:27
Alignment explanation
Indices: 59591820--59592092 Score: 318
Period size: 27 Copynumber: 10.2 Consensus size: 27
59591810 TTAGTTTACC
*
59591820 AAATTAAC-AAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
59591846 AAATTACTAGAATATCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
59591873 AAATCACCAAAATACCCCTGG-TTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
59591899 AAATTACC-AAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
59591925 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
59591952 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
59591979 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
59592006 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
59592033 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
59592060 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
59592087 AAATTA
1 AAATTA
59592093 TTGAAATACC
Statistics
Matches: 204, Mismatches: 40, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
25 11 0.05
26 28 0.14
27 165 0.81
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:59591889 original size:54 final size:54
Alignment explanation
Indices: 59591828--59592078 Score: 362
Period size: 54 Copynumber: 4.7 Consensus size: 54
59591818 CCAAATTAAC
* * * *
59591828 AAATACCCCTGGTTTGTAAAATTACTAGAATATCCTTGGTTTATAAAATCACCA
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * *
59591882 AAATACCCCT-GGTTGTAAAATTACC-AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* *
59591934 AAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATCACCA
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * * *
59591988 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCATGGTTTGTAAAATTATCA
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
59592042 AAATACCCCTAGTTTGTAAAATTACCAAAATATCCCT
1 AAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCT
59592079 GATTTGTGAA
Statistics
Matches: 176, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
52 33 0.19
53 26 0.15
54 114 0.65
55 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
Found at i:59592156 original size:27 final size:27
Alignment explanation
Indices: 59591840--59592164 Score: 218
Period size: 27 Copynumber: 12.1 Consensus size: 27
59591830 ATACCCCTGG
* * * * *
59591840 TTTGTAAAATTACTAGAATATCCTTGG
1 TTTGTAAAATTACCAAAATACCCTCGA
* *
59591867 TTTATAAAATCACCAAAATACCC-CTG-
1 TTTGTAAAATTACCAAAATACCCTC-GA
* * *
59591893 GTTGTAAAATTACC-AAATACCCTTGG
1 TTTGTAAAATTACCAAAATACCCTCGA
** *
59591919 TTTACAAAATTACCAAAATACCC-CTA
1 TTTGTAAAATTACCAAAATACCCTCGA
* *
59591945 GTTTGTAAAATTACTAAAATACCCTTTG-
1 -TTTGTAAAATTACCAAAATACCC-TCGA
* * *
59591973 TTTATAAAATCACCAAAATACCC-CTA
1 TTTGTAAAATTACCAAAATACCCTCGA
*
59591999 GTTTGTAAAATTACCAAAATACCCAT-GG
1 -TTTGTAAAATTACCAAAATACCC-TCGA
* *
59592027 TTTGTAAAATTATCAAAATACCC-CTA
1 TTTGTAAAATTACCAAAATACCCTCGA
59592053 GTTTGTAAAATTACCAAAATATCCCT-GA
1 -TTTGTAAAATTACCAAAATA-CCCTCGA
* *** *
59592081 TTTGTGAAATTATTGAAATACCTTCGA
1 TTTGTAAAATTACCAAAATACCCTCGA
** ***
59592108 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTCGA
* * *
59592135 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTGTAAAATTACCAAAATACCCTCGA
59592162 TTT
1 TTT
59592165 ACAGAATTAC
Statistics
Matches: 231, Mismatches: 51, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
25 9 0.04
26 25 0.11
27 193 0.84
28 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCTCGA
Found at i:59592210 original size:27 final size:27
Alignment explanation
Indices: 59592123--59592212 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
59592113 AAAATTATTG
*
59592123 AAATACCCTCGACTTGTA-AAATTACCA
1 AAATACCCTCGACTT-AAGAAATTACCA
* * * *
59592150 AAGTACCCTTGATTTACAG-AATTACCG
1 AAATACCCTCGACTTA-AGAAATTACCA
***
59592177 TTTTACCCTCGACTTAAGAAATTACCA
1 AAATACCCTCGACTTAAGAAATTACCA
59592204 AAATACCCT
1 AAATACCCT
59592213 TGTAGGGTAG
Statistics
Matches: 46, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATACCCTCGACTTAAGAAATTACCA
Found at i:59592233 original size:27 final size:27
Alignment explanation
Indices: 59592196--59592685 Score: 696
Period size: 27 Copynumber: 18.2 Consensus size: 27
59592186 CGACTTAAGA
* *
59592196 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
59592223 AAATACTAAAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
59592250 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
59592277 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
59592304 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
59592331 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
59592358 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
59592385 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
59592412 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
59592439 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
59592466 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
59592493 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
59592520 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
59592547 AATTACCGGAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
59592574 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
59592601 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
59592628 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
59592655 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
59592681 AATTA
1 AATTA
59592686 TAGAGATACC
Statistics
Matches: 418, Mismatches: 43, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
26 6 0.01
27 411 0.98
28 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:59593183 original size:22 final size:22
Alignment explanation
Indices: 59593158--59593204 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
59593148 GGCTTCGTGT
59593158 CAACCT-ACATATGACTCTGTGC
1 CAACCTGA-ATATGACTCTGTGC
* *
59593180 CAACCTGATTATGGCTCTGTGC
1 CAACCTGAATATGACTCTGTGC
59593202 CAA
1 CAA
59593205 ACGTATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (22 bp):
CAACCTGAATATGACTCTGTGC
Found at i:59593393 original size:27 final size:27
Alignment explanation
Indices: 59593363--59593464 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
59593353 ATTCTGTTAA
* * *
59593363 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
59593390 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
59593417 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
59593444 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
59593465 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.78
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:59593639 original size:6 final size:6
Alignment explanation
Indices: 59593625--59593738 Score: 108
Period size: 6 Copynumber: 18.7 Consensus size: 6
59593615 TTTTGTTACT
* * * *
59593625 TGATAC TGATTC TGATTT TGATTC TG-TTACC TGATAC TGATTC AGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
* *
59593674 TGATTC TGATTC TG-TCACC TAATTC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATTC
59593723 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
59593739 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.04
6 77 0.87
7 6 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (6 bp):
TGATTC
Found at i:59593660 original size:31 final size:31
Alignment explanation
Indices: 59593601--59593681 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
59593591 TTGCATTCAC
* *
59593601 ATTCTGATTTTAGATTTTGTTACTTGATACTG
1 ATTCTGATTTT-GATTCTGTTACCTGATACTG
59593633 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
59593664 ATTCAGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
59593682 ATTCTGTCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 34 0.76
32 11 0.24
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:59593673 original size:37 final size:37
Alignment explanation
Indices: 59593632--59593724 Score: 141
Period size: 37 Copynumber: 2.5 Consensus size: 37
59593622 ACTTGATACT
* * *
59593632 GATTCTGATTTTGATTCTGTTACCTGATACTGATTCA
1 GATTCTGATTCTGATTCTGTCACCTAATACTGATTCA
* *
59593669 GATTCTGATTCTGATTCTGTCACCTAATTCTGATTCT
1 GATTCTGATTCTGATTCTGTCACCTAATACTGATTCA
59593706 GATTCTGATTCTGATTCTG
1 GATTCTGATTCTGATTCTG
59593725 ATTCTAGTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.46
Consensus pattern (37 bp):
GATTCTGATTCTGATTCTGTCACCTAATACTGATTCA
Found at i:59599497 original size:48 final size:45
Alignment explanation
Indices: 59599352--59599513 Score: 130
Period size: 48 Copynumber: 3.4 Consensus size: 45
59599342 TTTGGCTATG
* * *
59599352 GGCCATGATTTTAGCACTTTGGGTGTGAGTTACTTTGATTTGGCTTC-
1 GGCCATGATATTAGCACTTCGGGTGTGAGTTAC--T-AGTTGGCTTCA
* * * * *
59599399 GAGCCATGATATTGGCA-TTCGGGTGCGAGCTTCACTGGTTTGTCTACA
1 G-GCCATGATATTAGCACTTCGGGTGTGAG-TT-ACTAG-TTGGCTTCA
59599447 GGCCATGATATTAGCACTTCGGGTGTGAGATATACTAAGTTGGCTTCA
1 GGCCATGATATTAGCACTTCGGGTGTGAG-T-TACT-AGTTGGCTTCA
* *
59599495 GGCCATGATAGTGGCACTT
1 GGCCATGATATTAGCACTT
59599514 AGTGTGCGAG
Statistics
Matches: 91, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
47 32 0.35
48 55 0.60
49 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (45 bp):
GGCCATGATATTAGCACTTCGGGTGTGAGTTACTAGTTGGCTTCA
Found at i:59606297 original size:20 final size:21
Alignment explanation
Indices: 59606258--59606298 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59606248 ACTTGAATTA
*
59606258 CTATCATCAAATATTCAAAAT
1 CTATCATCAAACATTCAAAAT
*
59606279 CTATCATTAAACA-TCAAAAT
1 CTATCATCAAACATTCAAAAT
59606299 ACTCATGTAT
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:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
CTATCATCAAACATTCAAAAT
Found at i:59607644 original size:11 final size:11
Alignment explanation
Indices: 59607628--59607686 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
59607618 GATGTTTGAG
59607628 TGGTGGTGATA
1 TGGTGGTGATA
59607639 TGGTGGTTG-TA
1 TGGTGG-TGATA
*
59607650 TGGTCGTGAT-
1 TGGTGGTGATA
59607660 TCGGTGGTGATA
1 T-GGTGGTGATA
* *
59607672 GGGTGGTGATT
1 TGGTGGTGATA
59607683 TGGT
1 TGGT
59607687 TTGCAATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 3 0.08
11 34 0.87
12 2 0.05
ACGTcount: A:0.12, C:0.03, G:0.46, T:0.39
Consensus pattern (11 bp):
TGGTGGTGATA
Found at i:59623935 original size:24 final size:24
Alignment explanation
Indices: 59623908--59624046 Score: 260
Period size: 24 Copynumber: 5.8 Consensus size: 24
59623898 GCTGGAAATA
59623908 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
59623932 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
59623956 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
59623980 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
59624004 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
59624028 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
59624047 ACATAATAAG
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 113 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:59624060 original size:72 final size:72
Alignment explanation
Indices: 59623907--59624068 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
59623897 TGCTGGAAAT
* *
59623907 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
**
59623972 CGATTTA
66 CGACATA
* * *
59623979 CTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
59624044 CGAACATA
66 CG-ACATA
59624052 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
59624069 CACATTCGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 77 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
CGACATA
Found at i:59629714 original size:91 final size:90
Alignment explanation
Indices: 59629597--59629779 Score: 303
Period size: 91 Copynumber: 2.0 Consensus size: 90
59629587 GTGACATGAG
* *
59629597 CACGAACATGGGCTGGACACGGGTGTGTGTCCCTACTTTGAATGCCCACACAGCTTGAGACACAG
1 CACGAACATGGGCTGGACACGAGTGTGTGTCCCTACTTTGAAAGCCCACACAGCTTGAGACACAG
*
59629662 GCGTGTGTCTTAATCATGTGAGTCA
66 GCATGTGTCTTAATCATGTGAGTCA
* *
59629687 CACGGACATGGGCTGGGACACGAGTGTGTGTCCCTACTTTGAAAGCCCACACAGCTTGAGACACG
1 CACGAACATGGGCT-GGACACGAGTGTGTGTCCCTACTTTGAAAGCCCACACAGCTTGAGACACA
*
59629752 GGCATGTGTCTTAATTATGTGAGTCA
65 GGCATGTGTCTTAATCATGTGAGTCA
59629778 CA
1 CA
59629780 TGGCCTGGCC
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
90 13 0.15
91 73 0.85
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (90 bp):
CACGAACATGGGCTGGACACGAGTGTGTGTCCCTACTTTGAAAGCCCACACAGCTTGAGACACAG
GCATGTGTCTTAATCATGTGAGTCA
Found at i:59633708 original size:49 final size:49
Alignment explanation
Indices: 59633639--59634125 Score: 839
Period size: 49 Copynumber: 10.1 Consensus size: 49
59633629 GTACATAATA
*
59633639 ATATATGTGATGAGGCCTAATGGCAGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
59633688 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59633737 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
59633786 ATATATGTGATGAGGCCTAATGGCC--TATG-TG-A--TG--AAT-TAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
59633826 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
59633875 ATATATGTGATGAGGCCTAATGGCCGATGTGTTGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59633924 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59633973 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59634022 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
59634071 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59634120 ATATAT
1 ATATAT
59634126 ATGTGGTAAA
Statistics
Matches: 417, Mismatches: 12, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
40 27 0.06
41 3 0.01
42 3 0.01
43 4 0.01
44 1 0.00
45 1 0.00
46 4 0.01
47 3 0.01
48 3 0.01
49 368 0.88
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:59633830 original size:138 final size:139
Alignment explanation
Indices: 59633681--59634109 Score: 725
Period size: 138 Copynumber: 3.0 Consensus size: 139
59633671 TGAATGTGAA
59633681 AATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTG
1 AATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTG
59633746 ATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCCTAATGGCC
66 ATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCCTAATGGCC
59633811 TATGTGATG
131 TATGTGATG
59633820 AAT-TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTG
1 AATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTG
*
59633884 ATGAGGCCTAATGGCCGATGTGTTGAATGTGAAAATGTATATATATGTGATGAGGCCTAATGGCC
66 ATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCCTAATGGCC
*
59633949 GATGTGATGAATGTG
131 --TATG-TG-A--TG
*
59633964 AAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATG
1 --AATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATG
*
59634029 TGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGG
64 TGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCCTAATGG
* *
59634094 CCGACGTGATG
129 CCTATGTGATG
59634105 AATGT
1 AATGT
59634110 GAAAGTGTAT
Statistics
Matches: 273, Mismatches: 8, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
138 125 0.46
139 8 0.03
140 3 0.01
141 4 0.01
142 1 0.00
143 1 0.00
144 4 0.01
145 1 0.00
146 3 0.01
147 123 0.45
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (139 bp):
AATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTG
ATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCCTAATGGCC
TATGTGATG
Found at i:59634249 original size:37 final size:36
Alignment explanation
Indices: 59634194--59634280 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
59634184 AACTTGGAAA
*
59634194 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCAATGACTACGTGTGGAGAT
59634232 TATGTCCGGGTACGACCCAATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCAATGACTACGTGTGGAGAT
59634269 TATGTCCGGGTA
1 TATGTCCGGGTA
59634281 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCAATGACTACGTGTGGAGAT
Found at i:59650761 original size:970 final size:969
Alignment explanation
Indices: 59647938--59651198 Score: 5557
Period size: 970 Copynumber: 3.4 Consensus size: 969
59647928 TACCACTAAA
* * * *
59647938 ATGTAACAACCCTTACCCGTGTTCTACGCTAGAACAGGGTACGAGATATTACCGAAACATAACAC
1 ATGTAACACCCCTTACCCTTGTTCTACGCCAGAACAGGGTACGAGACATTACCGAAACATAACAC
* * *
59648003 ATGCAATCGTACAAAACCGTGACATAAATTTTGAATCCAAATTGAAACAATTCAATTTTTATAGT
66 ATGTAATCGTACAAAACCGTGACATAAATTTTGCATCCAAATTAAAACAATTCAATTTTTATAGT
** *
59648068 CAAGTACCTAATATAGACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAATTGAG
131 CAAGTACCTAATATAGACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAACCGAA
* * * * *
59648133 AACTTTTGAGAACATTGGAAAATTGTTTTGAAATTAGGGGCACACACTTGTGCCCAAGGCCGTGT
196 AACTTTGGAGAACATTGAAAAATT-TCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTGT
*
59648198 CCCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAATAAAG
260 CCCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAACAAAG
* * * *
59648263 TCATGCATATCATACCGTATAATTTGAATATATGTATGGTTGGGGTTGCTTATTATTTTCTTGTG
325 TCATGCATATCATACCGTATAACTTGAATATATGTATGGTTGGGGTTGCTTATTATTTGCATATG
* *
59648328 AACTTTCTAAGCTGTATTATATAGCTTACCCCCATTCCTTTCCCATGTATTATAGAGTTAAATAG
390 AACTTACTAAGCTATATTATATAGCTTACCCCC-TTCCTTTCCCATGTATTATAGAGTTAAATAG
* * * * *
59648393 CTAGCTCGAGTTAGAGATCATCGGAGATCCTATCACACTATCCAACTATCACTTTGGGCATTGAT
454 CTAGCTCGGGTTGGAGATCATCGGAGATCCTATCACACTATCTAGCTATCACTTTGGGTATTGAT
* * *
59648458 GAATTCAAGTATTTTAAGCTTAT-AGCATGTATAGGAATTGGTA-TTTGGCTATATGTGTC---A
519 GAATTCAAGTATTTTGAGCTTATGA-CATGTATAAGAATTGGTATTTTGGTTATATGTGTCATTA
59648518 TTAATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCCATGCAAGT
583 TTAATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCCATGCAAGT
* *
59648583 TAGCTAATATTGGTTATGAATATATTCATATATTAATGCCATTTATGAATGTGAAATTTTACATG
648 TAGCTAATATTGGTTATGAGTATATTCATATATTAATGCCATTTATGAATGTGAAATTTTGCATG
59648648 ATATTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTA
713 ATATTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTA
* * *
59648713 TCTTGATTATGGATGTGCTTGTGTTATGTTTGAGTTTGAACAAAGTATGATGTTTTAAGAATCAT
778 TCTTGATTATGGATGTGCTTGTGGTACGTTTGAGTTTGAACAAAGTATGATGTTTTAAGCATCAT
* *
59648778 AGATGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTCGGTATTGGCTGCTTGTTTGGAT
843 AGATGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTTGGTATTGGCTGCTTGTTTGTAT
59648843 TATGAGTTATGCTATTGAAGTTGTATAGATGTGTGCAAGTGAGGGTGGCAAAATGGCTTGGT
908 TATGAGTTATGCTATTGAAGTTGTATAGATGTGTGCAAGTGAGGGTGGCAAAATGGCTTGGT
* * *
59648905 ATGTAACACCCCTTATCCTTGTTCTACGTCGGAACAGGGTACGAGACATTACCGAAACATAACAC
1 ATGTAACACCCCTTACCCTTGTTCTACGCCAGAACAGGGTACGAGACATTACCGAAACATAACAC
* * *
59648970 ATGTAATCTTACAAAACCGTGACATAAATTTTGCAACCAAATCAAAACAATTCAATTTTTATAGT
66 ATGTAATCGTACAAAACCGTGACATAAATTTTGCATCCAAATTAAAACAATTCAATTTTTATAGT
* *
59649035 CAAGTACCTAATATAGACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAATCGAG
131 CAAGTACCTAATATAGACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAACCGAA
* * * * *
59649100 AACTTTGAAGAACATTGCAAAATTTTTTGAAATTAGGGGCACATGCTTGTTCCCAAGGCCGTGTT
196 AACTTTGGAGAACATTGAAAAATTTCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTGTC
*
59649165 CCTCACATGACCATTCACATGTCTCAATTTCCATACTTAATCATTACACACTCATACAACAAAGT
261 CCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAACAAAGT
59649230 CATGCATCATCATACCGTATAACTTGAATATATGTATGGTTGGGGTTGCTTATTATTTGCATATG
326 CATGCAT-ATCATACCGTATAACTTGAATATATGTATGGTTGGGGTTGCTTATTATTTGCATATG
*
59649295 AACTTACTAAGCTATATTATATAGCTTACCCCTCTTCCTTTCCCATTTATTATAGAGTTAAATAG
390 AACTTACTAAGCTATATTATATAGCTTACCCC-CTTCCTTTCCCATGTATTATAGAGTTAAATAG
* *
59649360 CTAGCTCGGGTTGGAGATCATCGGAGATCCTATCACACAATCTAGCTATAACTTTGGGTATTGAT
454 CTAGCTCGGGTTGGAGATCATCGGAGATCCTATCACACTATCTAGCTATCACTTTGGGTATTGAT
59649425 GAATTCAAGTATTTTGAGCTTATGACATGTATAAGAATTGGTATTTTGGTTATATGTGTCATTAT
519 GAATTCAAGTATTTTGAGCTTATGACATGTATAAGAATTGGTATTTTGGTTATATGTGTCATTAT
*
59649490 TAATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCTATGCAAGTT
584 TAATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCCATGCAAGTT
59649555 AGCTAATATTGGTTATGAGTATATTCATATATTAATGCCATTTATGAATGTGAAATTTTGCATGA
649 AGCTAATATTGGTTATGAGTATATTCATATATTAATGCCATTTATGAATGTGAAATTTTGCATGA
59649620 TATTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTAT
714 TATTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTAT
59649685 CTTGATTATGGATGTGCTTGTGGTACGTTTGAGTTTGAACAAAGTATGATGTTTTAAGCATCATA
779 CTTGATTATGGATGTGCTTGTGGTACGTTTGAGTTTGAACAAAGTATGATGTTTTAAGCATCATA
59649750 GATGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTTGGTATTGGCTGCTTGTTTGTATT
844 GATGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTTGGTATTGGCTGCTTGTTTGTATT
*
59649815 ATGAGTTATGCTATTGAAGTTGTATAGATATGTGCAAGTGAGGGTGGCAAAATGGCTTGGT
909 ATGAGTTATGCTATTGAAGTTGTATAGATGTGTGCAAGTGAGGGTGGCAAAATGGCTTGGT
*
59649876 ATGTAACACCCCTTACCCTTGTTCTA-GTCCAGAACATGGTACGAGACATTACCGAAACATAACA
1 ATGTAACACCCCTTACCCTTGTTCTACG-CCAGAACAGGGTACGAGACATTACCGAAACATAACA
* * * *
59649940 CATGTAATCATACAAAATCGTGACATAAATTTTGCATCCAAATTAAAATACTTCAATTTTTATAG
65 CATGTAATCGTACAAAACCGTGACATAAATTTTGCATCCAAATTAAAACAATTCAATTTTTATAG
* * ** *
59650005 TCAAGTCCCTAAGAT-GAACCTACGAGGTCCAAAACATACTTTGGAAATGGTCTGGGACAAACCG
130 TCAAGTACCTAATATAG-ACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAACCG
*
59650069 AAAATTTTGGAGAACATTGAAAAATTTCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTG
194 AAAACTTTGGAGAACATTGAAAAATTTCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTG
59650134 TCCCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAACAAA
259 TCCCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAACAAA
*
59650199 GTCATGCATCATCATACCGTATAACTTGAATATATGTGTGGTTGGGGTTGCTTATTATTTGCATA
324 GTCATGCAT-ATCATACCGTATAACTTGAATATATGTATGGTTGGGGTTGCTTATTATTTGCATA
* *
59650264 TGAACTTACTAAGCCATATTATATAGCTTACCCCCTTCCTTTCTCATGTATTATAGAGTTAAATA
388 TGAACTTACTAAGCTATATTATATAGCTTACCCCCTTCCTTTCCCATGTATTATAGAGTTAAATA
*
59650329 GCTAGGTCGGGTTGGAGATCATCGGAGATCCTATCACACTATCTAGCTATCACTTTGGGTATTGA
453 GCTAGCTCGGGTTGGAGATCATCGGAGATCCTATCACACTATCTAGCTATCACTTTGGGTATTGA
* *
59650394 TGAATTCAAGTATTTTGAGCTTATGACATGCATAAGAATTGGTATTTTTGTTATATGTGTCATTA
518 TGAATTCAAGTATTTTGAGCTTATGACATGTATAAGAATTGGTATTTTGGTTATATGTGTCATTA
59650459 TTAATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCCATGCAAGT
583 TTAATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCCATGCAAGT
59650524 TAGCTAATATTGGTTATGAGTATATTCATATATTAATGCCATTTATGAATGTGAAATTTTGCATG
648 TAGCTAATATTGGTTATGAGTATATTCATATATTAATGCCATTTATGAATGTGAAATTTTGCATG
59650589 ATATTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTA
713 ATATTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTA
* *
59650654 TCTTGATTATGGATGTGCTTGTGGTAGGTTTGAGTTTGAACAAAGTATGATGTATTAAGCATCAT
778 TCTTGATTATGGATGTGCTTGTGGTACGTTTGAGTTTGAACAAAGTATGATGTTTTAAGCATCAT
59650719 AGATGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTTGGTATTGGCTGCTTGTTTGTAT
843 AGATGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTTGGTATTGGCTGCTTGTTTGTAT
*
59650784 TATGAGTTATGCTATTGAAGTTGTATAGATGTGTGCAAGTGAGGGTGGAAAAATGGCTTGGT
908 TATGAGTTATGCTATTGAAGTTGTATAGATGTGTGCAAGTGAGGGTGGCAAAATGGCTTGGT
* * *
59650846 ATGTAACACCCCTTACCCTTGTTCTACGCTAGAACATGGTACGAGACATTACCGAAACATAACAG
1 ATGTAACACCCCTTACCCTTGTTCTACGCCAGAACAGGGTACGAGACATTACCGAAACATAACAC
* * * *
59650911 ATGTAATCGTACGAAATCGTGACATAAATTTTGCATCCAAATTAAAATACTTCAATTTTTATAGT
66 ATGTAATCGTACAAAACCGTGACATAAATTTTGCATCCAAATTAAAACAATTCAATTTTTATAGT
* * **
59650976 CAAGTCCCTAATAT-GAACCTACGAGGTCCAAAGCATACTTTGGAAATGGTCCGGGACAAACCGA
131 CAAGTACCTAATATAG-ACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAACCGA
*
59651040 CAACTTTGGAGAACATTGAAAAATTTCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTGT
195 AAACTTTGGAGAACATTGAAAAATTTCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTGT
*
59651105 CCCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAAAAAAG
260 CCCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAACAAAG
* *
59651170 TCATGCATAGTCATACCCTATAAATTGAA
325 TCATGCATA-TCATACCGTATAACTTGAA
59651199 CAATATTAGC
Statistics
Matches: 2184, Mismatches: 99, Indels: 19
0.95 0.04 0.01
Matches are distributed among these distances:
966 107 0.05
967 412 0.19
968 17 0.01
969 1 0.00
970 875 0.40
971 772 0.35
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (969 bp):
ATGTAACACCCCTTACCCTTGTTCTACGCCAGAACAGGGTACGAGACATTACCGAAACATAACAC
ATGTAATCGTACAAAACCGTGACATAAATTTTGCATCCAAATTAAAACAATTCAATTTTTATAGT
CAAGTACCTAATATAGACCTACGAGGTCCAAAACATACTTTGGAAACAGTCCGGGACAAACCGAA
AACTTTGGAGAACATTGAAAAATTTCTTGAAATTAGGGGCACACGCTTGTTCCCAAGGCCGTGTC
CCTCACATGACCATTCACATGTCGCAATTTCCATACTTAATCATTACACACTCATACAACAAAGT
CATGCATATCATACCGTATAACTTGAATATATGTATGGTTGGGGTTGCTTATTATTTGCATATGA
ACTTACTAAGCTATATTATATAGCTTACCCCCTTCCTTTCCCATGTATTATAGAGTTAAATAGCT
AGCTCGGGTTGGAGATCATCGGAGATCCTATCACACTATCTAGCTATCACTTTGGGTATTGATGA
ATTCAAGTATTTTGAGCTTATGACATGTATAAGAATTGGTATTTTGGTTATATGTGTCATTATTA
ATTTGGCCATATGTGTTGGCTTGCAATGGTGTTTGTTCATTTTTGTATAAAGCCATGCAAGTTAG
CTAATATTGGTTATGAGTATATTCATATATTAATGCCATTTATGAATGTGAAATTTTGCATGATA
TTGTGTAGAATGGTTGATGTTCTATGCATGATAAATACTGGCATGAGGATGTCAAATTATTATCT
TGATTATGGATGTGCTTGTGGTACGTTTGAGTTTGAACAAAGTATGATGTTTTAAGCATCATAGA
TGTTGACTTTTAAATGACATGTTTAAGCCTTAGTTATGTTGGTATTGGCTGCTTGTTTGTATTAT
GAGTTATGCTATTGAAGTTGTATAGATGTGTGCAAGTGAGGGTGGCAAAATGGCTTGGT
Found at i:59652393 original size:51 final size:51
Alignment explanation
Indices: 59652253--59652394 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 51
59652243 ACTGATGCTG
* * *
59652253 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAAA
1 GTGGCTTGCACATAGTACCACACTTGTGA-TCAAAGCTATCTTCTTCACAAA
* * *
59652304 GTGGCCTT-CACATAGTACCACACTTGTGACCCAAGCTATCTT-TTACACATA
1 GTGG-CTTGCACATAGTACCACACTTGTGATCAAAGCTATCTTCTT-CACAAA
* * *
59652355 GTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATC
1 GTGGCTTGCACATAGTACCACACTTGTGATCAAAGCTATC
59652395 GGCTACATAC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
50 5 0.06
51 69 0.90
52 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (51 bp):
GTGGCTTGCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAAA
Found at i:59652416 original size:51 final size:51
Alignment explanation
Indices: 59652298--59652423 Score: 126
Period size: 51 Copynumber: 2.5 Consensus size: 51
59652288 CTACCTTCTT
* * * * * ***
59652298 CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCCAAGCTATCTTTTA
1 CACACAGTAGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGCTA
* * * * *
59652349 CACATAGTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATCGGCTA
1 CACACAGTAGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGCTA
*
59652400 CATACAGTAGCCTGCACTTAGTAC
1 CACACAGTAGCCTGCACTTAGTAC
59652424 TATACATGCG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (51 bp):
CACACAGTAGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGCTA
Found at i:59652431 original size:51 final size:50
Alignment explanation
Indices: 59652361--59652479 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 50
59652351 CATAGTGGCT
* * *
59652361 TGCACTTAGTACCACACATGTGATCGAAGCTATCGGCTACATACAGTAGCC
1 TGCACTTAGTACTACACATGCGACCGAAGC-ATCGGCTACATACAGTAGCC
* * * ** **
59652412 TGCACTTAGTACTATACATGCGACCTAATCATCTTCTACATGTAGTAGCC
1 TGCACTTAGTACTACACATGCGACCGAAGCATCGGCTACATACAGTAGCC
*
59652462 TACACTTAGTACTACACA
1 TGCACTTAGTACTACACA
59652480 CATGACCGCA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
50 32 0.57
51 24 0.43
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (50 bp):
TGCACTTAGTACTACACATGCGACCGAAGCATCGGCTACATACAGTAGCC
Done.