Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 21 of 295
Found at i:5664022 original size:44 final size:44
Alignment explanation
Indices: 5663974--5664112 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
5663964 TAATGTAGGA
5663974 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * * ** ** * * *
5664018 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGG
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG
5664061 AAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
5664106 AGGCAAG
1 AGGCAAG
5664113 GTTTGTGTCT
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 16 0.24
44 35 0.52
45 16 0.24
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
Found at i:5664057 original size:88 final size:88
Alignment explanation
Indices: 5663835--5664170 Score: 439
Period size: 88 Copynumber: 3.9 Consensus size: 88
5663825 TGCTCCAATG
** * * *
5663835 CAACCGATGGAGGCAAGGCTT-TGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
** * * * *
5663899 ACT-TCTTTAACTAGCTCCA-CTG
66 TTTGTCTTCAACCAGCTCTATC-A
* ** * * *
5663921 CAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
5663984 TTTTGTCTTCAACCAGCTCTATCA
65 TTTTGTCTTCAACCAGCTCTATCA
*
5664008 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
5664073 TTTGTCTTCAACCAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
* *
5664096 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCC
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
5664161 TTTGTCTTCA
66 TTTGTCTTCA
5664171 TTGATCTGTC
Statistics
Matches: 225, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
86 59 0.26
87 31 0.14
88 135 0.60
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (88 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
TTTGTCTTCAACCAGCTCTATCA
Found at i:5664154 original size:44 final size:44
Alignment explanation
Indices: 5664018--5664156 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
5664008 CAACCGAAAG
* *
5664018 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
* * * * * * * *
5664062 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACA-ACCGAAA
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCA-ATGCAG-AA
5664105 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
5664150 AGGCAAG
1 AGGCAAG
5664157 ATCCTTTGTC
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 6 0.09
43 15 0.22
44 25 0.36
45 16 0.23
46 7 0.10
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
Found at i:5664167 original size:176 final size:173
Alignment explanation
Indices: 5663835--5664170 Score: 433
Period size: 174 Copynumber: 1.9 Consensus size: 173
5663825 TGCTCCAATG
** * *
5663835 CAACCGATGGAGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTA
1 CAACCGAAAGAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTA
* * * * ** * *
5663900 CTTCTTTAACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
66 CTTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTC
* * *
5663965 AATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
131 AATGCAGAAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCA
* *
5664008 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGCTT-TGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
** *
5664073 TTTGTCTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCG
65 ACT-TCTTCAACCAGCTCCACT-ACAACCGAAAGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCG
5664136 CTGTCAATGCAGAAAGGCAAGATCCTTTGTCTTCA
126 CTGTCAATGCAGAAAGGCAAGATCCTTTGTCTTCA
5664171 TTGATCTGTC
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
173 18 0.13
174 47 0.34
175 28 0.20
176 45 0.33
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (173 bp):
CAACCGAAAGAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTA
CTTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTC
AATGCAGAAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCA
Found at i:5668411 original size:19 final size:20
Alignment explanation
Indices: 5668377--5668430 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
5668367 AGGGTCACTT
* *
5668377 CATGAAAATCTAATGCATATG
1 CATG-AAATGTAATGCAAATG
*
5668398 -ATGCAATGTAATGCAAATG
1 CATGAAATGTAATGCAAATG
5668417 CATGAAATG-AATGC
1 CATGAAATGTAATGC
5668431 CTAAAGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (20 bp):
CATGAAATGTAATGCAAATG
Found at i:5670706 original size:3 final size:3
Alignment explanation
Indices: 5670698--5670764 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
5670688 ATATAGAAAC
* * ** *
5670698 AAT AAT AAT AAT AAC ATT AAT AAT AAT AGC AAT AA- AAC AAT GAACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T
5670744 AAAT AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AA
5670765 GGACTAAGTC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 3 0.06
5 3 0.06
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:5679988 original size:28 final size:28
Alignment explanation
Indices: 5679956--5680015 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
5679946 ACCCAGCAAG
*
5679956 CCCATTAACCTGTAACCCAGCTAAACTA
1 CCCATTAACCCGTAACCCAGCTAAACTA
5679984 CCCATTAACCCGTAACCCAGCTAAACTA
1 CCCATTAACCCGTAACCCAGCTAAACTA
5680012 CCCA
1 CCCA
5680016 AAACTCAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.40, G:0.07, T:0.18
Consensus pattern (28 bp):
CCCATTAACCCGTAACCCAGCTAAACTA
Found at i:5682801 original size:3 final size:3
Alignment explanation
Indices: 5682779--5682836 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
5682769 ACATTATAAG
*
5682779 ATT ATT -TT ATT A-T ATAT ATT ATT ATT ATT -TT A-C ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
5682821 TTT A-T ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
5682837 ATCTTACTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.20
3 33 0.73
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5682829 original size:14 final size:14
Alignment explanation
Indices: 5682798--5682834 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
5682788 TTATATATAT
5682798 TATTATTA-TTTTA
1 TATTATTATTTTTA
*
5682811 CATTATTATTTTTA
1 TATTATTATTTTTA
5682825 TATTATTATT
1 TATTATTATT
5682835 ATATCTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:5682830 original size:11 final size:11
Alignment explanation
Indices: 5682779--5682878 Score: 57
Period size: 11 Copynumber: 9.0 Consensus size: 11
5682769 ACATTATAAG
*
5682779 ATTATTTTATT
1 ATTATATTATT
5682790 ATATATATTATT
1 AT-TATATTATT
* *
5682802 ATTATTTTA-C
1 ATTATATTATT
5682812 A-T-TATTATT
1 ATTATATTATT
*
5682821 TTTATATTATT
1 ATTATATTATT
*
5682832 ATTATA-TCTT
1 ATTATATTATT
*
5682842 ACTTGTATTATAT
1 A-TTATATTAT-T
5682855 ATT-TATTAATT
1 ATTATATT-ATT
5682866 ATTTATATATATT
1 A-TTATAT-TATT
5682879 GTTCTTACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
8 4 0.06
9 1 0.01
10 6 0.09
11 30 0.44
12 18 0.26
13 8 0.12
14 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (11 bp):
ATTATATTATT
Found at i:5683506 original size:30 final size:30
Alignment explanation
Indices: 5683470--5683542 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
5683460 TTGTATTACT
*
5683470 CTTTTTTGTATGTCATGCATTATTTTATTA
1 CTTTTTTGTATGTCATGCATTATTTAATTA
*
5683500 CTTTTTTGTATATCATGCATTATTTAATTA
1 CTTTTTTGTATGTCATGCATTATTTAATTA
*
5683530 -TTACTTTGTATGT
1 CTT-TTTTGTATGT
5683543 TTGTACGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (30 bp):
CTTTTTTGTATGTCATGCATTATTTAATTA
Found at i:5686315 original size:27 final size:26
Alignment explanation
Indices: 5686278--5686392 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
5686268 AGCATGGCTG
* *
5686278 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
5686304 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
5686332 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
5686359 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
5686386 CCAGAAC
1 CCAGAAC
5686393 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:5686337 original size:54 final size:54
Alignment explanation
Indices: 5686278--5686392 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
5686268 AGCATGGCTG
*
5686278 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
5686332 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
5686386 CCAGAAC
1 CCAGAAC
5686393 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:5688067 original size:26 final size:25
Alignment explanation
Indices: 5687998--5688105 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 25
5687988 CATGAAATTC
5687998 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
5688024 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
*
5688049 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
*
5688075 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCCA
5688100 TTATCA
1 TTATCA
5688106 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 48 0.60
26 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:5688078 original size:51 final size:51
Alignment explanation
Indices: 5687998--5688105 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
5687988 CATGAAATTC
5687998 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
* * *
5688049 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
5688100 TTATCA
1 TTATCA
5688106 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
Found at i:5692017 original size:25 final size:25
Alignment explanation
Indices: 5691989--5692072 Score: 100
Period size: 27 Copynumber: 3.3 Consensus size: 25
5691979 TGGCTGCCAA
* *
5691989 ACAGATAATGACAGAGTCACCAGAT
1 ACAGATAATGGCAGAGCCACCAGAT
5692014 ACAGATAATCGGCAGAGCCACCAGA-
1 ACAGATAAT-GGCAGAGCCACCAGAT
5692039 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-A--TGGCAGAGCCACCAGAT
5692067 -CAGATA
1 ACAGATA
5692073 TTTGTGGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 16 0.31
26 14 0.27
27 21 0.40
28 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (25 bp):
ACAGATAATGGCAGAGCCACCAGAT
Found at i:5692057 original size:27 final size:27
Alignment explanation
Indices: 5692000--5692094 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
5691990 CAGATAATGA
* *
5692000 CAGAGTCACCAGATACAGATA-AT-CGG
1 CAGAGCCACCAGA-ACAGATATATGTGG
5692026 CAGAGCCACCAGAACAGATATATGTGG
1 CAGAGCCACCAGAACAGATATATGTGG
* *
5692053 CAGAGCCACCAGATCAGATATTTGTGG
1 CAGAGCCACCAGAACAGATATATGTGG
*
5692080 CATAGCCACCAGAAC
1 CAGAGCCACCAGAAC
5692095 GCTTCCTCCA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
25 7 0.11
26 14 0.23
27 40 0.66
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAGAACAGATATATGTGG
Found at i:5693747 original size:25 final size:25
Alignment explanation
Indices: 5693704--5693785 Score: 130
Period size: 25 Copynumber: 3.2 Consensus size: 25
5693694 CATGAAATTC
5693704 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
5693730 TTATCATGAACATTTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCA
*
5693754 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
5693780 TTATCA
1 TTATCA
5693786 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
24 10 0.19
25 27 0.51
26 16 0.30
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:5722234 original size:18 final size:19
Alignment explanation
Indices: 5722200--5722235 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5722190 TAGGATTTTA
5722200 TATTTAAAATCATTAAAAG
1 TATTTAAAATCATTAAAAG
5722219 TATTTAAAAT-ATTAAAA
1 TATTTAAAATCATTAAAA
5722236 TTCAAGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TATTTAAAATCATTAAAAG
Found at i:5727233 original size:19 final size:19
Alignment explanation
Indices: 5727163--5727237 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 19
5727153 TAGATATTAT
5727163 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATGTACA
* * *
5727182 TACTT-TTATTATACGCATATA
1 TA-TTATTATTTTATG--TACA
5727203 TATATATGTATTTTATGTACA
1 TAT-TAT-TATTTTATGTACA
5727224 TATTATTATTTTAT
1 TATTATTATTTTAT
5727238 ATTATTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
18 2 0.05
19 15 0.35
20 6 0.14
21 12 0.28
22 1 0.02
23 7 0.16
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (19 bp):
TATTATTATTTTATGTACA
Found at i:5727703 original size:23 final size:22
Alignment explanation
Indices: 5727652--5727706 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
5727642 TTAAGAATAT
*
5727652 ATACA-TAAGAAATATATAACA
1 ATACATTAAAAAATATATAACA
* *
5727673 ATGGCATTAAAAAATATATACATA
1 AT-ACATTAAAAAATATATA-ACA
5727697 ATACATTAAA
1 ATACATTAAA
5727707 TACCTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 19 0.70
24 4 0.15
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.27
Consensus pattern (22 bp):
ATACATTAAAAAATATATAACA
Found at i:5729910 original size:34 final size:33
Alignment explanation
Indices: 5729872--5729953 Score: 101
Period size: 34 Copynumber: 2.5 Consensus size: 33
5729862 TTCGCATGCT
* *
5729872 CATATTGGCTCGCATGTACCTAGGGTTCACATGG
1 CATATAGGCTCGCATGCACCTAGGGTTCACAT-G
* * *
5729906 CATATAAGCTTGCATGCACCTAGGGTTCGCATG
1 CATATAGGCTCGCATGCACCTAGGGTTCACATG
*
5729939 CATATAGGTTCGCAT
1 CATATAGGCTCGCAT
5729954 ACATACGTGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 13 0.32
34 27 0.68
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (33 bp):
CATATAGGCTCGCATGCACCTAGGGTTCACATG
Found at i:5729937 original size:17 final size:17
Alignment explanation
Indices: 5729860--5729953 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
5729850 CACATTTCTA
* *
5729860 GGTTCGCATGCTCATATT
1 GGTTCGCATGCACATA-G
* * *
5729878 GGCTCGCATGTACCTAG
1 GGTTCGCATGCACATAG
* * *
5729895 GGTTCACATGGCATATAA
1 GGTTCGCAT-GCACATAG
* *
5729913 GCTT-GCATGCACCTAG
1 GGTTCGCATGCACATAG
*
5729929 GGTTCGCATGCATATA-
1 GGTTCGCATGCACATAG
5729945 GGTTCGCAT
1 GGTTCGCAT
5729954 ACATACGTGC
Statistics
Matches: 55, Mismatches: 19, Indels: 6
0.69 0.24 0.08
Matches are distributed among these distances:
16 17 0.31
17 19 0.35
18 19 0.35
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (17 bp):
GGTTCGCATGCACATAG
Found at i:5729981 original size:32 final size:33
Alignment explanation
Indices: 5729945--5730030 Score: 102
Period size: 32 Copynumber: 2.6 Consensus size: 33
5729935 CATGCATATA
** *
5729945 GGTTCGCATACATACGTGCTCCCATAA-TCTTG
1 GGTTCGCATACATACAAGCTCCCATAATTCTAG
* *
5729977 GGTTCGTATACATACAAGCTCGCATAATTCTAG
1 GGTTCGCATACATACAAGCTCCCATAATTCTAG
* *
5730010 GGTTCACATACATACAGGCTC
1 GGTTCGCATACATACAAGCTC
5730031 GTATAATCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 23 0.51
33 22 0.49
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (33 bp):
GGTTCGCATACATACAAGCTCCCATAATTCTAG
Found at i:5730021 original size:33 final size:33
Alignment explanation
Indices: 5729945--5730037 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
5729935 CATGCATATA
** * *
5729945 GGTTCGCATACATACGTGCTCCCATAA-TCTTG
1 GGTTCGCATACATACAAGCTCGCATAATTCTAG
*
5729977 GGTTCGTATACATACAAGCTCGCATAATTCTAG
1 GGTTCGCATACATACAAGCTCGCATAATTCTAG
* * *
5730010 GGTTCACATACATACAGGCTCGTATAAT
1 GGTTCGCATACATACAAGCTCGCATAAT
5730038 CCTATATGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
32 23 0.45
33 28 0.55
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (33 bp):
GGTTCGCATACATACAAGCTCGCATAATTCTAG
Found at i:5732085 original size:10 final size:10
Alignment explanation
Indices: 5732042--5732117 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
5732032 AACTTTTTGC
5732042 TCTTTTATATA
1 TCTTTTATA-A
*
5732053 TATTTT-TAA
1 TCTTTTATAA
*
5732062 T-TTTAAT-A
1 TCTTTTATAA
*
5732070 TTTTTTATAA
1 TCTTTTATAA
*
5732080 TCTTTTATGA
1 TCTTTTATAA
5732090 T-TTTGTATAA
1 TCTTT-TATAA
*
5732100 TTTTTTATAA
1 TCTTTTATAA
5732110 TTCTTTTA
1 -TCTTTTA
5732118 AAATTTCTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 5 0.10
9 11 0.21
10 22 0.42
11 14 0.27
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (10 bp):
TCTTTTATAA
Found at i:5732092 original size:20 final size:20
Alignment explanation
Indices: 5732042--5732117 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
5732032 AACTTTTTGC
*
5732042 TCTTTTATATATATTTT-TAA
1 TCTTTTATA-ATTTTTTATAA
*
5732062 T-TTTAAT-ATTTTTTATAA
1 TCTTTTATAATTTTTTATAA
* *
5732080 TCTTTTATGATTTTGTATAA
1 TCTTTTATAATTTTTTATAA
*
5732100 TTTTTTATAATTCTTTTA
1 TCTTTTATAATT-TTTTA
5732118 AAATTTCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.13
18 4 0.09
19 10 0.22
20 21 0.47
21 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (20 bp):
TCTTTTATAATTTTTTATAA
Found at i:5732309 original size:22 final size:21
Alignment explanation
Indices: 5732270--5732310 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5732260 AATCTTTTAT
*
5732270 TTTTTTTGTAATTTTATATAA
1 TTTTTTTGCAATTTTATATAA
*
5732291 TTTTTTTGCACTTTCTATAT
1 TTTTTTTGCAATTT-TATAT
5732311 TTGTATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTTTTGCAATTTTATATAA
Found at i:5732350 original size:26 final size:25
Alignment explanation
Indices: 5732321--5732410 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
5732311 TTGTATAATC
*
5732321 ATTTTAATAATTTTTTATATTTTAAA
1 ATTTTCATAATTTTTTA-ATTTTAAA
* **
5732347 ATTTTTCAT-ATTTTTTAATTCATACC
1 A-TTTTCATAATTTTTTAATT-TTAAA
* *
5732373 ATTTTTA-AATTTTTTAATTTTCATA
1 ATTTTCATAATTTTTTAATTTT-AAA
5732398 ATTTTCATAATTT
1 ATTTTCATAATTT
5732411 ATATATCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
24 1 0.02
25 26 0.52
26 17 0.34
27 6 0.12
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTTCATAATTTTTTAATTTTAAA
Found at i:5732351 original size:17 final size:18
Alignment explanation
Indices: 5732321--5732360 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
5732311 TTGTATAATC
*
5732321 ATTTTAATAATTTTTTAT
1 ATTTTAATAATTTTTCAT
5732339 ATTTTAA-AATTTTTCAT
1 ATTTTAATAATTTTTCAT
5732356 ATTTT
1 ATTTT
5732361 TTAATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTAATAATTTTTCAT
Found at i:5732366 original size:17 final size:17
Alignment explanation
Indices: 5732321--5732413 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
5732311 TTGTATAATC
*
5732321 ATTTTAATAATTTTTTAT
1 ATTTT-ATAATTTTTCAT
*
5732339 ATTTTAAAATTTTTCAT
1 ATTTTATAATTTTTCAT
* **
5732356 ATTTTTTAATTCATACCAT
1 ATTTTATAATT--TTTCAT
*
5732375 -TTTTA-AATTTTTTA-
1 ATTTTATAATTTTTCAT
5732389 ATTTTCATAA-TTTTCAT
1 ATTTT-ATAATTTTTCAT
*
5732406 AATTTATA
1 ATTTTATA
5732414 TATCTTTAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
15 6 0.11
16 9 0.16
17 29 0.51
18 9 0.16
19 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATAATTTTTCAT
Found at i:5732401 original size:25 final size:26
Alignment explanation
Indices: 5732329--5732410 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
5732319 TCATTTTAAT
*
5732329 AATTTTTTATATTTT-AAAATTTTTCA
1 AATTTTTTA-ATTTTCATAATTTTTCA
*
5732355 TATTTTTTAA--TTCATACCATTTTT-A
1 AATTTTTTAATTTTCATA--ATTTTTCA
5732380 AATTTTTTAATTTTCATAA-TTTTCA
1 AATTTTTTAATTTTCATAATTTTTCA
5732405 TAATTT
1 -AATTT
5732411 ATATATCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
23 2 0.04
24 6 0.13
25 13 0.28
26 19 0.41
27 6 0.13
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (26 bp):
AATTTTTTAATTTTCATAATTTTTCA
Found at i:5732449 original size:10 final size:9
Alignment explanation
Indices: 5732253--5732450 Score: 63
Period size: 9 Copynumber: 21.7 Consensus size: 9
5732243 AATTGTAAAT
5732253 ATTTTT-TA
1 ATTTTTATA
*
5732261 ATCTTTTATT
1 AT-TTTTATA
* *
5732271 TTTTTTGTA
1 ATTTTTATA
5732280 ATTTTATATA
1 ATTTT-TATA
*
5732290 ATTTTTTTGCA
1 ATTTTTAT--A
* *
5732301 CTTTCTAT-
1 ATTTTTATA
*
5732309 ATTTGTATA
1 ATTTTTATA
5732318 ATCATTTTAATA
1 AT--TTTT-ATA
5732330 ATTTTT-T-
1 ATTTTTATA
*
5732337 ATATTTTAAA
1 AT-TTTTATA
5732347 ATTTTTCAT-
1 ATTTTT-ATA
5732356 ATTTTT-TA
1 ATTTTTATA
** **
5732364 ATTCATACC
1 ATTTTTATA
5732373 ATTTTTA-A
1 ATTTTTATA
5732381 ATTTTT-TA
1 ATTTTTATA
*
5732389 ATTTTCATA
1 ATTTTTATA
*
5732398 ATTTTCATA
1 ATTTTTATA
*
5732407 ATTTATAT-
1 ATTTTTATA
* *
5732415 ATCTTTAGTC
1 ATTTTTA-TA
*
5732425 ATTTATAATA
1 ATTT-TTATA
5732435 ATTTTTATA
1 ATTTTTATA
5732444 ACTTTTT
1 A-TTTTT
5732451 GCACTTTTAC
Statistics
Matches: 138, Mismatches: 31, Indels: 40
0.66 0.15 0.19
Matches are distributed among these distances:
7 3 0.02
8 34 0.25
9 55 0.40
10 30 0.22
11 11 0.08
12 5 0.04
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:5732877 original size:3 final size:3
Alignment explanation
Indices: 5732871--5732904 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5732861 ATGAGCTTAT
5732871 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
5732905 TTATTCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5734762 original size:39 final size:39
Alignment explanation
Indices: 5734719--5734950 Score: 284
Period size: 39 Copynumber: 5.9 Consensus size: 39
5734709 ATAGAATCTA
* *
5734719 GTGATTATTCAGGCTGTGTGCCTAGCAGGCTATGTGCCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
* **
5734758 GTGATTATTCGAGCTATGTGCCTAGCAGGCTATGTGCTA
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
* * * * *
5734797 GTGATTATTTGGGCTATGTGTCTAGCAGGCTTTGTACTG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
* * * * * *
5734836 TTGATTATTCGAGCTATGTGCCTAGGAGGCTGTATGTCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
* * * *
5734875 GAGATTATTCGGGCTATGTGCCTAGCAAGCTGTGTGCCA
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
5734914 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGC
5734951 TGATGTATTG
Statistics
Matches: 161, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.34
Consensus pattern (39 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
Found at i:5734928 original size:117 final size:117
Alignment explanation
Indices: 5734720--5734944 Score: 326
Period size: 117 Copynumber: 1.9 Consensus size: 117
5734710 TAGAATCTAG
* * *
5734720 TGATTATTCAGGCTGTGTGCCTAGCAGGCTATGTGCCGGTGATTATTCGAGCTATGTGCCTAGCA
1 TGATTATTCAGGCTATGTGCCTAGCAGGCTATATGCCGGAGATTATTCGAGCTATGTGCCTAGCA
* * * *
5734785 GGCTATGTGCTAGTGATTATTTGGGCTATGTGTCTAGCAGGCTTTGTACTGT
66 AGCTATGTGCCAGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTACTGT
* * * *
5734837 TGATTATTC-GAGCTATGTGCCTAGGAGGCTGTATGTCGGAGATTATTCGGGCTATGTGCCTAGC
1 TGATTATTCAG-GCTATGTGCCTAGCAGGCTATATGCCGGAGATTATTCGAGCTATGTGCCTAGC
*
5734901 AAGCTGTGTGCCAGTGATTATTCGGGCTATGTGCCTAGCAGGCT
65 AAGCTATGTGCCAGTGATTATTCGGGCTATGTGCCTAGCAGGCT
5734945 ATGTGCTGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 1 0.01
117 94 0.99
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.34
Consensus pattern (117 bp):
TGATTATTCAGGCTATGTGCCTAGCAGGCTATATGCCGGAGATTATTCGAGCTATGTGCCTAGCA
AGCTATGTGCCAGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTACTGT
Found at i:5740051 original size:34 final size:34
Alignment explanation
Indices: 5740013--5740095 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 34
5740003 TGACTCTAAA
*
5740013 ATAATAGCAAAATTAACAATAAAATAAG-AGATAT
1 ATAATAGCAAAATTAACAACAAAAT-AGTAGATAT
* **
5740047 ATAATATCCAAACATTAACAACAAAATAGTATCTAT
1 ATAATA-GCAAA-ATTAACAACAAAATAGTAGATAT
5740083 ATAATAGCAAAAT
1 ATAATAGCAAAAT
5740096 GATAGCAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
34 8 0.20
35 10 0.24
36 23 0.56
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (34 bp):
ATAATAGCAAAATTAACAACAAAATAGTAGATAT
Found at i:5746180 original size:25 final size:24
Alignment explanation
Indices: 5746152--5746205 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
5746142 CGAATCCAAA
5746152 TATTTCGATAATTCATA-TATTTTAG
1 TATTT-GATAATTCATAGTATTTT-G
*
5746177 TA-TTGATAATTTATATGTATTTTG
1 TATTTGATAATTCATA-GTATTTTG
5746201 TATTT
1 TATTT
5746206 TTAATTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 10 0.40
24 5 0.20
25 10 0.40
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (24 bp):
TATTTGATAATTCATAGTATTTTG
Found at i:5751242 original size:17 final size:19
Alignment explanation
Indices: 5751220--5751254 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5751210 CTAAAATAGT
5751220 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
5751237 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
5751255 TCAAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:5755625 original size:11 final size:10
Alignment explanation
Indices: 5755605--5755638 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5755595 TATAAGTTTG
5755605 TTTTTATTTT
1 TTTTTATTTT
*
5755615 TTTTTACTTT
1 TTTTTATTTT
*
5755625 TTTTAATTTT
1 TTTTTATTTT
5755635 TTTT
1 TTTT
5755639 CTTTTTGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:5762515 original size:37 final size:37
Alignment explanation
Indices: 5762465--5762547 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
5762455 TTGTGAGGCA
5762465 TGATAGAAAGTGTTGGAGAAGTAGGGGTGTAACGGAG
1 TGATAGAAAGTGTTGGAGAAGTAGGGGTGTAACGGAG
*
5762502 TGATAGAAAGTGTTGGAGAAGTAGGGGTGTAATGGAG
1 TGATAGAAAGTGTTGGAGAAGTAGGGGTGTAACGGAG
5762539 TGATGAGAA
1 TGAT-AGAA
5762548 TTTTTTTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 40 0.91
38 4 0.09
ACGTcount: A:0.34, C:0.01, G:0.42, T:0.23
Consensus pattern (37 bp):
TGATAGAAAGTGTTGGAGAAGTAGGGGTGTAACGGAG
Found at i:5762904 original size:24 final size:23
Alignment explanation
Indices: 5762838--5762906 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
5762828 AATGCTTTTA
* * *
5762838 TGGTGCATTCTGTTTGGCCTGTG
1 TGGTGTATTTTGTTTGGCCTTTG
5762861 TGGTGTATTTTGTTTGGCCTTTG
1 TGGTGTATTTTGTTTGGCCTTTG
*
5762884 TGGTGTACTTTTGTTTTGCCTTT
1 TGGTGTA-TTTTGTTTGGCCTTT
5762907 ATGGCGAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 27 0.66
24 14 0.34
ACGTcount: A:0.04, C:0.13, G:0.29, T:0.54
Consensus pattern (23 bp):
TGGTGTATTTTGTTTGGCCTTTG
Found at i:5766940 original size:10 final size:10
Alignment explanation
Indices: 5766920--5766952 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
5766910 TAATTTTAAT
5766920 ATTCAAATCTA
1 ATTC-AATCTA
5766931 ATTCAATCTA
1 ATTCAATCTA
5766941 ATTCAATCTA
1 ATTCAATCTA
5766951 AT
1 AT
5766953 CCACATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTCAATCTA
Found at i:5767154 original size:5 final size:5
Alignment explanation
Indices: 5767144--5767173 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
5767134 ACCCACCCTT
*
5767144 TTTTA TTTTA TTTTG TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
5767174 CAAAAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:5767164 original size:15 final size:15
Alignment explanation
Indices: 5767144--5767172 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5767134 ACCCACCCTT
5767144 TTTTATTTTATTTTG
1 TTTTATTTTATTTTG
5767159 TTTTATTTTATTTT
1 TTTTATTTTATTTT
5767173 ACAAAAATGG
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:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATTTTG
Found at i:5768916 original size:15 final size:15
Alignment explanation
Indices: 5768898--5768927 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5768888 ACATGGCAAT
5768898 CAAATATAAAATTTG
1 CAAATATAAAATTTG
*
5768913 CAAATATGAAATTTG
1 CAAATATAAAATTTG
5768928 GATTACAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (15 bp):
CAAATATAAAATTTG
Found at i:5771197 original size:21 final size:21
Alignment explanation
Indices: 5771173--5771229 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
5771163 GCAACTCCTC
* *
5771173 CAACAACAACAACAGCAACTG
1 CAACATCAACAACAGCAACAG
* *
5771194 CAACTTCAACAACAGCAAGAG
1 CAACATCAACAACAGCAACAG
*
5771215 CAACATGAACAACAG
1 CAACATCAACAACAG
5771230 TTACAGTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.51, C:0.30, G:0.12, T:0.07
Consensus pattern (21 bp):
CAACATCAACAACAGCAACAG
Found at i:5774980 original size:17 final size:17
Alignment explanation
Indices: 5774954--5774988 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5774944 TCTTAAATAA
*
5774954 TATCTTGAATTCAAATT
1 TATCTCGAATTCAAATT
5774971 TATCTCGAATTCAAATT
1 TATCTCGAATTCAAATT
5774988 T
1 T
5774989 TATAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (17 bp):
TATCTCGAATTCAAATT
Found at i:5775349 original size:2 final size:2
Alignment explanation
Indices: 5775342--5775382 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5775332 GAAGTTTGAT
5775342 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5775383 AAGTTGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:5778306 original size:11 final size:11
Alignment explanation
Indices: 5778292--5778331 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
5778282 TGTTTTCTCC
5778292 CTATTTTGCTA
1 CTATTTTGCTA
*
5778303 CTATTTTACTA
1 CTATTTTGCTA
* *
5778314 TTATGTTGCTA
1 CTATTTTGCTA
5778325 CTATTTT
1 CTATTTT
5778332 TTTTATTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:5778574 original size:13 final size:11
Alignment explanation
Indices: 5778546--5778573 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5778536 TATATATATT
5778546 TAAAAATTATA
1 TAAAAATTATA
5778557 TAAAAATTATA
1 TAAAAATTATA
5778568 TAAAAA
1 TAAAAA
5778574 AGGAGGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:5787259 original size:2 final size:2
Alignment explanation
Indices: 5787254--5787279 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5787244 TTAATTTATA
5787254 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
5787280 TTGCATTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5789207 original size:21 final size:21
Alignment explanation
Indices: 5789181--5789229 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
5789171 TCACTTCCCA
5789181 TTTGAGAAAGCAACACAAAAG
1 TTTGAGAAAGCAACACAAAAG
*
5789202 TTTGAGAAAGCAACACAAAAT
1 TTTGAGAAAGCAACACAAAAG
5789223 TTTGAGA
1 TTTGAGA
5789230 GGAGCATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (21 bp):
TTTGAGAAAGCAACACAAAAG
Found at i:5793640 original size:13 final size:13
Alignment explanation
Indices: 5793596--5793645 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
5793586 ATTTAATAAT
*
5793596 ATTTTAATTGATAA
1 ATTTTAATTTAT-A
* *
5793610 ATTTTAAAATTATT
1 ATTTT-AATTTATA
5793624 ATTTTAATTTATA
1 ATTTTAATTTATA
5793637 ATTTTAATT
1 ATTTTAATT
5793646 AAAAAACTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 15 0.50
14 10 0.33
15 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
ATTTTAATTTATA
Found at i:5801201 original size:28 final size:28
Alignment explanation
Indices: 5801169--5801233 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
5801159 ATTTACTAGA
*
5801169 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
5801197 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
5801225 ATACCCCTA
1 ATACCCCTA
5801234 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:5801380 original size:28 final size:28
Alignment explanation
Indices: 5801339--5801428 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
5801329 AGGAAGCGTC
5801339 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* *
5801367 CTGGTGGCCCTGCCACAAATTATTTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
5801395 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
5801424 CTGGT
1 CTGGT
5801429 AACTCTGTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 49 0.89
29 6 0.11
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:5801920 original size:18 final size:18
Alignment explanation
Indices: 5801881--5801921 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5801871 TAATATGGCC
* *
5801881 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
5801899 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
5801917 TTTTA
1 TTTTA
5801922 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:5803973 original size:18 final size:18
Alignment explanation
Indices: 5803950--5803985 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5803940 CATTATTAGA
*
5803950 TAGTTTTATTTTTGGACT
1 TAGTTTTATTTTTAGACT
5803968 TAGTTTTATTTTTAGACT
1 TAGTTTTATTTTTAGACT
5803986 GTTTATTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.14, T:0.61
Consensus pattern (18 bp):
TAGTTTTATTTTTAGACT
Found at i:5804686 original size:19 final size:19
Alignment explanation
Indices: 5804664--5804702 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5804654 AAAATTAGTA
5804664 TGTTTTT-TATATTTTATAT
1 TGTTTTTGTA-ATTTTATAT
5804683 TGTTTTTGTAATTTTATAT
1 TGTTTTTGTAATTTTATAT
5804702 T
1 T
5804703 TTTAATATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
TGTTTTTGTAATTTTATAT
Found at i:5804723 original size:26 final size:26
Alignment explanation
Indices: 5804667--5804724 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
5804657 ATTAGTATGT
* * *
5804667 TTTTTATATTTTATATTGTTTTTGTA
1 TTTTTATATTTTATAATATTTTAGTA
*
5804693 ATTTTATATTTT-TAATATCTTTAGTA
1 TTTTTATATTTTATAATAT-TTTAGTA
5804719 TTTTTA
1 TTTTTA
5804725 ATAATTTTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTTTATATTTTATAATATTTTAGTA
Found at i:5804739 original size:18 final size:18
Alignment explanation
Indices: 5804700--5804741 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
5804690 GTAATTTTAT
*
5804700 ATTTTTAATATCTTTAGT
1 ATTTTTAATATCTTTAGC
*
5804718 ATTTTTAATAAT-TTTGGC
1 ATTTTTAAT-ATCTTTAGC
5804736 ATTTTT
1 ATTTTT
5804742 CGCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (18 bp):
ATTTTTAATATCTTTAGC
Found at i:5804894 original size:27 final size:28
Alignment explanation
Indices: 5804860--5804927 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 28
5804850 TCTCATAATG
* *
5804860 TTAAGGACTAAAATGAGATAAAAAAA-T
1 TTAAGGACTAAAATAAAATAAAAAAACT
*
5804887 TTAAGGACCAAAATAAAATAAAAAAACT
1 TTAAGGACTAAAATAAAATAAAAAAACT
*
5804915 TTAGGGACTAAAA
1 TTAAGGACTAAAA
5804928 AATACATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (28 bp):
TTAAGGACTAAAATAAAATAAAAAAACT
Found at i:5812876 original size:20 final size:21
Alignment explanation
Indices: 5812853--5812894 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
5812843 AAAACTCATC
*
5812853 AAAAATCATTAAAAA-TTATT
1 AAAAATCAATAAAAATTTATT
*
5812873 -AAAATTAATAAAAATTTATT
1 AAAAATCAATAAAAATTTATT
5812893 AA
1 AA
5812895 TATTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.67
20 5 0.28
21 1 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATCAATAAAAATTTATT
Found at i:5824402 original size:42 final size:43
Alignment explanation
Indices: 5824319--5824459 Score: 135
Period size: 42 Copynumber: 3.3 Consensus size: 43
5824309 TCCCAGATGT
* * *
5824319 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAA
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAA
* * *
5824362 GGTCTTACACGAAATCATATAT-GATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAA
* * * **
5824404 GGTCTTACACGTAAAT-ATCAA-ATCGATGCTAACGTCTCAGACGT
1 GGTCTTACACG-AAATCA--AATATCGATGCCAATGTCCCAGACAA
5824448 GGTCTTACACGA
1 GGTCTTACACGA
5824460 TAACACATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.35
43 26 0.32
44 27 0.33
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAA
Found at i:5830460 original size:20 final size:19
Alignment explanation
Indices: 5830437--5830492 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
5830427 AAACTCATTA
*
5830437 AAAATATAAAAAAATTTATT
1 AAAATATAAAAAAACTTA-T
5830457 AAAAT-TAATAAAAACTTAT
1 AAAATATAA-AAAAACTTAT
5830476 AAATATTATAAAAAAAC
1 AAA-A-TATAAAAAAAC
5830493 AAAACTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 7 0.23
20 14 0.45
21 7 0.23
22 3 0.10
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATATAAAAAAACTTAT
Found at i:5830483 original size:26 final size:27
Alignment explanation
Indices: 5830453--5830520 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
5830443 TAAAAAAATT
*
5830453 TATTAAAATTAATA-AAAACTTATAAA
1 TATTAAAATTAAAACAAAACTTATAAA
5830479 TATTATAAA--AAAACAAAACTTATAAA
1 TATTA-AAATTAAAACAAAACTTATAAA
5830505 TATTTTAAAATTAAAA
1 TA--TTAAAATTAAAA
5830521 ATATCCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 3 0.09
26 19 0.54
27 6 0.17
28 3 0.09
29 4 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (27 bp):
TATTAAAATTAAAACAAAACTTATAAA
Found at i:5831368 original size:10 final size:10
Alignment explanation
Indices: 5831355--5831603 Score: 64
Period size: 10 Copynumber: 25.7 Consensus size: 10
5831345 TAATTTATAG
5831355 TTTTTATAAT
1 TTTTTATAAT
* *
5831365 TTTTAAT-AG
1 TTTTTATAAT
*
5831374 TTTTGAT-A-
1 TTTTTATAAT
5831382 TTTTTAT-AT
1 TTTTTATAAT
*
5831391 TTTATTA-GAT
1 TTT-TTATAAT
*
5831401 TTTTT-TTAT
1 TTTTTATAAT
* *
5831410 ATTTTTACAAG
1 -TTTTTATAAT
*
5831421 CTTTTATGAA-
1 TTTTTAT-AAT
**
5831431 TTTTTATAGG
1 TTTTTATAAT
*
5831441 TTTTTGTAAT
1 TTTTTATAAT
*
5831451 ATTTTAT-AT
1 TTTTTATAAT
* *
5831460 ATTTTAAATAT
1 TTTTTATA-AT
5831471 GTTTTTATTAA-
1 -TTTTTA-TAAT
*
5831482 ATT-TATAATT
1 TTTTTATAA-T
5831492 TTTTTATAAT
1 TTTTTATAAT
* *
5831502 TTATTATAAC
1 TTTTTATAAT
* *
5831512 TTATTA-GAT
1 TTTTTATAAT
*
5831521 TTATTATAAT
1 TTTTTATAAT
*
5831531 TTATTATAA-
1 TTTTTATAAT
*
5831540 TATTTATAAGT
1 TTTTTATAA-T
*
5831551 TTTTT-TATT
1 TTTTTATAAT
5831560 ATTTTTATAA-
1 -TTTTTATAAT
* *
5831570 -GTTTATCAT
1 TTTTTATAAT
*
5831579 TTTTAATAA-
1 TTTTTATAAT
5831588 -TTTTATAAT
1 TTTTTATAAT
5831597 TTTTTAT
1 TTTTTAT
5831604 GATGTTTATG
Statistics
Matches: 177, Mismatches: 38, Indels: 48
0.67 0.14 0.18
Matches are distributed among these distances:
8 23 0.13
9 41 0.23
10 90 0.51
11 16 0.09
12 6 0.03
13 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:5831373 original size:19 final size:18
Alignment explanation
Indices: 5831351--5831387 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
5831341 TTAGTAATTT
*
5831351 ATAGTTTTTATAATTTTTA
1 ATAGTTTTGAT-ATTTTTA
5831370 ATAGTTTTGATATTTTTA
1 ATAGTTTTGATATTTTTA
5831388 TATTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (18 bp):
ATAGTTTTGATATTTTTA
Found at i:5831524 original size:19 final size:19
Alignment explanation
Indices: 5831500--5831536 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5831490 TTTTTTTATA
5831500 ATTTATTATAACTTATTAG
1 ATTTATTATAACTTATTAG
*
5831519 ATTTATTATAATTTATTA
1 ATTTATTATAACTTATTA
5831537 TAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTTATTATAACTTATTAG
Found at i:5831546 original size:19 final size:20
Alignment explanation
Indices: 5831484--5831548 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 20
5831474 TTTATTAAAT
* *
5831484 TTATAATTTTTTTATAATTTA
1 TTATAA-TTTATTATAATATA
* * *
5831505 TTATAACTTATTA-GATTTA
1 TTATAATTTATTATAATATA
5831524 TTATAATTTATTATAATAT-
1 TTATAATTTATTATAATATA
5831543 TTATAA
1 TTATAA
5831549 GTTTTTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 23 0.62
20 8 0.22
21 6 0.16
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TTATAATTTATTATAATATA
Found at i:5831580 original size:17 final size:18
Alignment explanation
Indices: 5831554--5831600 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
5831544 TATAAGTTTT
*
5831554 TTTATTATTTTT-ATAAG
1 TTTATAATTTTTAATAAG
* *
5831571 TTTATCATTTTTAATAAT
1 TTTATAATTTTTAATAAG
5831589 TTTATAATTTTT
1 TTTATAATTTTT
5831601 TATGATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATAATTTTTAATAAG
Found at i:5833695 original size:27 final size:26
Alignment explanation
Indices: 5833659--5833728 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 26
5833649 AAGTTACATG
*
5833659 TTATAAAAGTGTTATAATATATTTCT
1 TTATAAAAGTGTTATAATATATTTAT
5833685 TATATAAAAGTGTTATAATATATTTAT
1 T-TATAAAAGTGTTATAATATATTTAT
*
5833712 TTATAAGAAATGTTATA
1 TTATAA-AAGTGTTATA
5833729 GTTTTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (26 bp):
TTATAAAAGTGTTATAATATATTTAT
Found at i:5834346 original size:92 final size:93
Alignment explanation
Indices: 5834188--5834378 Score: 303
Period size: 92 Copynumber: 2.1 Consensus size: 93
5834178 ATATCACCTT
* * * *
5834188 AGTATAATATAGAAAAATGTCGGATCGTGCTAGCATGTTGCATATTTTATATCTTTAATTATTGG
1 AGTATAATATAGAAAAAAGTCGGATCGTACTAGCATGTTGCATATTTTATAACTTTAATTACTGG
5834253 TGGAATTGAGATGATTCATACTTCGTAG
66 TGGAATTGAGATGATTCATACTTCGTAG
* *
5834281 AGTATAATATA-AAAAAAGTCGGATCGTATTAGCATGTTTCATATTTTATAACTTTAATTACTGG
1 AGTATAATATAGAAAAAAGTCGGATCGTACTAGCATGTTGCATATTTTATAACTTTAATTACTGG
*
5834345 TGGAATTGAGATGATTTATACTTCGTAG
66 TGGAATTGAGATGATTCATACTTCGTAG
*
5834373 AATATA
1 AGTATA
5834379 TGAAAGAAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 79 0.88
93 11 0.12
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (93 bp):
AGTATAATATAGAAAAAAGTCGGATCGTACTAGCATGTTGCATATTTTATAACTTTAATTACTGG
TGGAATTGAGATGATTCATACTTCGTAG
Found at i:5837463 original size:25 final size:25
Alignment explanation
Indices: 5837402--5837519 Score: 88
Period size: 25 Copynumber: 4.8 Consensus size: 25
5837392 TACGTGTATA
*
5837402 TATATACTTTTTATAACTA-TGTTATG
1 TATATA-TTTTAAT-ACTATTGTTATG
* *
5837428 TATACAATTTACATA-TATTGTTATG
1 TATATATTTTA-ATACTATTGTTATG
*
5837453 TATATATTTTAATATTATTAGTTAT-
1 TATATATTTTAATACTATT-GTTATG
*
5837478 T-TAT-TTTTTATACTATT-TTATG
1 TATATATTTTAATACTATTGTTATG
* *
5837500 TATAT-TTCTAATACCATTGT
1 TATATATTTTAATACTATTGT
5837520 ATATTTCTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
21 4 0.05
22 1 0.01
23 24 0.32
24 9 0.12
25 25 0.33
26 12 0.16
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TATATATTTTAATACTATTGTTATG
Found at i:5837513 original size:23 final size:24
Alignment explanation
Indices: 5837404--5837519 Score: 82
Period size: 23 Copynumber: 4.8 Consensus size: 24
5837394 CGTGTATATA
5837404 TATACTTTTT-ATAACTA-TGTTATG
1 TATA-TTTTTAAT-ACTATTGTTATG
**
5837428 TATACAATTTACATA-TATTGTTATG
1 TATA-TTTTTA-ATACTATTGTTATG
*
5837453 TATATATTTTAATATTATTAGTTAT-
1 TATAT-TTTTAATACTATT-GTTATG
*
5837478 T-TATTTTTTATACTATT-TTATG
1 TATATTTTTAATACTATTGTTATG
* *
5837500 TATATTTCTAATACCATTGT
1 TATATTTTTAATACTATTGT
5837520 ATATTTCTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.05
22 1 0.01
23 24 0.32
24 17 0.23
25 21 0.28
26 7 0.09
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATTTTTAATACTATTGTTATG
Found at i:5837536 original size:19 final size:19
Alignment explanation
Indices: 5837498--5837536 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5837488 TACTATTTTA
*
5837498 TGTATATTTCTAATACCAT
1 TGTATATTTCTAACACCAT
*
5837517 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACACCAT
5837536 T
1 T
5837537 ATTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TGTATATTTCTAACACCAT
Found at i:5837712 original size:24 final size:24
Alignment explanation
Indices: 5837685--5837777 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 24
5837675 TTCCATGTGC
* *
5837685 ATATTTTTATATCATCTTATGTAT
1 ATATTTTTATAACATATTATGTAT
* *
5837709 ATATTCTTA-AACACTATTATATAT
1 ATATTTTTATAACA-TATTATGTAT
* *
5837733 ATATATTTTAATACCATATTGTGTAT
1 ATAT-TTTT-ATAACATATTATGTAT
* *
5837759 ATATTATTATTACAT-TTAT
1 ATATTTTTATAACATATTAT
5837778 TTTATTCCTA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
23 6 0.11
24 25 0.47
25 6 0.11
26 13 0.25
27 3 0.06
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (24 bp):
ATATTTTTATAACATATTATGTAT
Found at i:5837961 original size:21 final size:22
Alignment explanation
Indices: 5837919--5838061 Score: 101
Period size: 22 Copynumber: 6.0 Consensus size: 22
5837909 CACTTATTAT
5837919 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTATGTA
**
5837941 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TATGTA
* *
5837966 TTTA-TTAATATATTTTTATGTTA
1 TTTATTTTA-ATATTATTATG-TA
*
5837989 TTAATATTTATAATATATATTATATA
1 TT--TATTT-TAATAT-TATTATGTA
5838015 TGTTCATTTTACATA-TATTATGTA
1 T-TT-ATTTTA-ATATTATTATGTA
* *
5838039 TATATTTTAGTATTATTATGTA
1 TTTATTTTAATATTATTATGTA
5838061 T
1 T
5838062 ACACTTTTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
21 2 0.02
22 26 0.27
23 13 0.14
24 18 0.19
25 13 0.14
26 16 0.17
27 7 0.07
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTATTTTAATATTATTATGTA
Found at i:5837967 original size:25 final size:22
Alignment explanation
Indices: 5837919--5837971 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
5837909 CACTTATTAT
**
5837919 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTACATA
5837941 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TACATA
5837966 TTTATT
1 TTTATT
5837972 AATATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 5 0.19
24 3 0.12
25 10 0.38
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTATTTTAATATTATTACATA
Found at i:5841907 original size:22 final size:22
Alignment explanation
Indices: 5841882--5841926 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5841872 ATTCATGACT
5841882 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
5841904 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
5841926 A
1 A
5841927 TTCATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:5850312 original size:76 final size:73
Alignment explanation
Indices: 5850219--5850621 Score: 450
Period size: 76 Copynumber: 5.2 Consensus size: 73
5850209 TGGTATTCTG
* * *
5850219 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGCTCAAATGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTG
5850284 AGGTATTTTCA
63 AGGTATTTTCA
*
5850295 ATTTCTGTATTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACCCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGA
5850359 GGTAATTTT-A
64 GGT-ATTTTCA
** * *
5850369 ATTTCTGTTCATAAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCATGACACGCTG
1 ATTTCTGTT--TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
5850434 AGGTATTTTCA
63 AGGTATTTTCA
* * *
5850445 ATTTCCGCTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTCAG
1 ATTTCTG-TTTTC-A---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
5850510 GACACGCTGAGGTATTTTCA
54 GACACGCTGAGGTATTTTCA
*
5850530 ATTTCTGTTTTTCAAAAAAATCAAGCTCATATTGCGAGAGGTGAGCTGAGCCTCGGGACACGCTG
1 ATTTCTG-TTTTCAAAAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
5850595 AGGTATTTTCA
63 AGGTATTTTCA
*
5850606 GTTTCTGTTTTTCAAA
1 ATTTCTG-TTTTCAAA
5850622 TTCTATTTTT
Statistics
Matches: 285, Mismatches: 23, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
73 1 0.00
74 18 0.06
75 21 0.07
76 167 0.59
77 8 0.03
79 1 0.00
81 1 0.00
84 1 0.00
85 67 0.24
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (73 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGG
TATTTTCA
Found at i:5850511 original size:161 final size:161
Alignment explanation
Indices: 5850289--5850672 Score: 529
Period size: 161 Copynumber: 2.3 Consensus size: 161
5850279 TGCTGAGGTA
*
5850289 TTTTCAATTTCTGTATTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTATG--TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
5850354 CCTGAGGTAATTTT-AATTTCTGTTCATAAAAAAAAATCAA-CTCATATTGAGAGAGGTGAGTTG
63 CCTGAGGT-ATTTTCAATTTCTGTT-ATAAAAAAAAATCAAGCTCATATTGAGAGAGGTGAGCTG
*
5850417 AGCCTCATGACACGCTGAGGTATTTTCAATTTCCGC
126 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGC
* * *
5850453 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTCAGGACACGCT
1 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACCCT
* ** *
5850518 GAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAAGCTCATATTGCGAGAGGTGAGCTGAGCCT
66 GAGGTATTTTCAATTTCTGTTATAAAAAAAAATCAAGCTCATATTGAGAGAGGTGAGCTGAGCCT
* * * *
5850583 CGGGACACGCTGAGGTATTTTCAGTTTCTGT
131 CAGGACACGCTGAGGTATTTTCAATTTCCGC
* *
5850614 TTTTCAAATTCTATTTTTATCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTC-AATT-TA-TGTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
5850673 GGGTCACGTG
Statistics
Matches: 196, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
160 17 0.09
161 117 0.60
162 8 0.04
163 2 0.01
164 15 0.08
165 37 0.19
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (161 bp):
TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACCCT
GAGGTATTTTCAATTTCTGTTATAAAAAAAAATCAAGCTCATATTGAGAGAGGTGAGCTGAGCCT
CAGGACACGCTGAGGTATTTTCAATTTCCGC
Found at i:5850528 original size:85 final size:84
Alignment explanation
Indices: 5850385--5850672 Score: 344
Period size: 85 Copynumber: 3.5 Consensus size: 84
5850375 GTTCATAAAA
* * *
5850385 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
5850450 CGCTTTTCAATTTATGTTTC
66 TGTTTTTCAATTTAT-TTTC
*
5850470 AAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
5850535 TGTTTTTC-A---A-----
66 TGTTTTTCAATTTATTTTC
* *
5850545 AAAAATCAAGCTCATATTGCGAGAGGTGAG-CTGAGCCTCGGGACACGCTGAGGTATTTTCAGTT
1 AAAAATCAA-CTCATATTGCGAGAGGTGAGTC-GAGCCTCAGGACACGCTGAGGTATTTTCAATT
5850609 TCTGTTTTTCAAATTCTATTTTTATC
64 TCTGTTTTTC-AATT-TA--TTT-TC
* *
5850635 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTC
5850673 GGGTCACGTG
Statistics
Matches: 175, Mismatches: 11, Indels: 30
0.81 0.05 0.14
Matches are distributed among these distances:
75 10 0.06
76 59 0.34
78 1 0.01
81 1 0.01
82 1 0.01
84 1 0.01
85 67 0.38
89 27 0.15
90 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (84 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATTTTC
Found at i:5852411 original size:11 final size:10
Alignment explanation
Indices: 5852357--5852422 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 10
5852347 TTATTTATAC
5852357 TATTATTACTGT
1 TATTATTA-T-T
5852369 TATTATTATT
1 TATTATTATT
*
5852379 ATAGTTTTTATT
1 -TA-TTATTATT
*
5852391 TATTAGTATT
1 TATTATTATT
5852401 TCATTATTA-T
1 T-ATTATTATT
*
5852411 TATTTTTATT
1 TATTATTATT
5852421 TA
1 TA
5852423 ATACTTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 6 0.13
10 13 0.29
11 11 0.24
12 15 0.33
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (10 bp):
TATTATTATT
Found at i:5852609 original size:25 final size:25
Alignment explanation
Indices: 5852550--5852665 Score: 86
Period size: 24 Copynumber: 4.8 Consensus size: 25
5852540 ATTACGTATA
*
5852550 TATATATTTT-ATAACTA-TATTATG
1 TATATATTTTAAT-ACTATTGTTATG
* *
5852574 TATACAATTTACATA-TATTGTTATG
1 TATATATTTTA-ATACTATTGTTATG
*
5852599 TATATATTTTAATATTATTAGTTAT-
1 TATATATTTTAATACTATT-GTTATG
*
5852624 T-TATCTTTT-ATACTATT-TTATG
1 TATATATTTTAATACTATTGTTATG
* *
5852646 TATAT-TTCTAATACCATTGT
1 TATATATTTTAATACTATTGT
5852666 ATATTTCTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.05
22 4 0.05
23 17 0.23
24 21 0.28
25 21 0.28
26 7 0.09
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATATTTTAATACTATTGTTATG
Found at i:5852682 original size:19 final size:19
Alignment explanation
Indices: 5852644--5852682 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5852634 TACTATTTTA
*
5852644 TGTATATTTCTAATACCAT
1 TGTATATTTCTAACACCAT
*
5852663 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACACCAT
5852682 T
1 T
5852683 ATTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TGTATATTTCTAACACCAT
Found at i:5852755 original size:2 final size:2
Alignment explanation
Indices: 5852748--5852776 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5852738 TTCATTTTCA
5852748 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5852777 TATGTATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5853108 original size:21 final size:22
Alignment explanation
Indices: 5853066--5853208 Score: 92
Period size: 22 Copynumber: 6.0 Consensus size: 22
5853056 TACTTTTTAT
5853066 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTATGTA
**
5853088 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TATGTA
* *
5853113 TTTA-TTAATATATTTTTATGTTA
1 TTTATTTTA-ATATTATTATG-TA
* *
5853136 TTAATATTTATAATATATATTGTATA
1 TT--TATTT-TAATAT-TATTATGTA
5853162 TGTTCATTTTACATA-TATTATGTA
1 T-TT-ATTTTA-ATATTATTATGTA
* *
5853186 TATATTTTAGTATTATTATGTA
1 TTTATTTTAATATTATTATGTA
5853208 T
1 T
5853209 ACACTTTTCA
Statistics
Matches: 93, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
21 2 0.02
22 26 0.28
23 13 0.14
24 17 0.18
25 13 0.14
26 16 0.17
27 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTATTTTAATATTATTATGTA
Found at i:5853114 original size:25 final size:22
Alignment explanation
Indices: 5853066--5853118 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
5853056 TACTTTTTAT
**
5853066 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTACATA
5853088 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TACATA
5853113 TTTATT
1 TTTATT
5853119 AATATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 5 0.19
24 3 0.12
25 10 0.38
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTATTTTAATATTATTACATA
Found at i:5858471 original size:26 final size:26
Alignment explanation
Indices: 5858415--5858465 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
5858405 TTGGCATTTA
5858415 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
5858441 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
5858466 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:5862980 original size:120 final size:120
Alignment explanation
Indices: 5862783--5864448 Score: 3089
Period size: 120 Copynumber: 13.8 Consensus size: 120
5862773 TTTTCAAGTT
5862783 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
5862848 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5862903 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
5862968 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5863023 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
5863088 TAATATAAGAACATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5863143 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
5863208 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5863263 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5863328 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
5863383 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
5863448 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
5863503 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5863568 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5863623 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5863688 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5863743 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5863808 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
5863863 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5863928 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
5863983 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5864048 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
5864103 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
5864168 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
5864223 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
5864288 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
5864343 TTATATTTAATAATAATTATGTTTAATTATGATATTATTTACATGATATCAATATTATTATGATT
1 ATATATTTAATAATAATTATG-TTAATT-T-ATA-T-TTTACA-G-TATC-ATA-TATTATGATT
* *
5864408 TCAGTAAATTAATATCAATAATCATTAATTATTAAGAATTT
57 TGAGTAAATTAATAT-AAGAAT-ATTAATTATTAAGAATTT
5864449 CATGCTAAAT
Statistics
Matches: 1522, Mismatches: 13, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
120 1449 0.95
121 6 0.00
122 1 0.00
123 3 0.00
124 1 0.00
125 6 0.00
126 1 0.00
127 4 0.00
128 3 0.00
129 25 0.02
130 5 0.00
131 18 0.01
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:5863142 original size:18 final size:17
Alignment explanation
Indices: 5863114--5863148 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5863104 ATTATTAAGA
*
5863114 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5863131 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5863149 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5863382 original size:18 final size:17
Alignment explanation
Indices: 5863354--5863388 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5863344 ATTATTAAGA
*
5863354 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5863371 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5863389 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5863622 original size:18 final size:17
Alignment explanation
Indices: 5863594--5863628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5863584 ATTATTAAGA
*
5863594 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5863611 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5863629 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5863742 original size:18 final size:17
Alignment explanation
Indices: 5863714--5863748 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5863704 ATTATTAAGA
*
5863714 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5863731 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5863749 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5863862 original size:18 final size:17
Alignment explanation
Indices: 5863834--5863868 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5863824 ATTATTAAGA
*
5863834 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5863851 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5863869 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5863982 original size:18 final size:17
Alignment explanation
Indices: 5863954--5863988 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5863944 ATTATTAAGA
*
5863954 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5863971 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5863989 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5864102 original size:18 final size:17
Alignment explanation
Indices: 5864074--5864108 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5864064 ATTATTAAGA
*
5864074 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5864091 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5864109 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5864342 original size:18 final size:17
Alignment explanation
Indices: 5864314--5864348 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
5864304 ATTATTAAGA
5864314 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
5864331 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
5864349 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:5864349 original size:16 final size:16
Alignment explanation
Indices: 5864314--5864371 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
5864304 ATTATTAAGA
5864314 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-T-TAT
5864331 ATTTTAATTAAATTAT
1 ATTTTAATTAAATTAT
*
5864347 A-TTTAATAATAATTAT
1 ATTTTAATTA-AATTAT
*
5864363 -GTTTAATTA
1 ATTTTAATTA
5864372 TGATATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 7 0.19
16 17 0.47
17 6 0.17
18 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAATTAT
Found at i:5864356 original size:18 final size:18
Alignment explanation
Indices: 5864319--5864369 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
5864309 TAAGAATTTT
*
5864319 ATTAAATTATATATT-TTA
1 ATTAAATTATAT-TTAATA
5864337 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
*
5864355 A-T-AATTATGTTTAAT
1 ATTAAATTATATTTAAT
5864370 TATGATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 12 0.40
17 3 0.10
18 15 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:5864768 original size:16 final size:16
Alignment explanation
Indices: 5864743--5864811 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
5864733 GATTAGCTAT
*
5864743 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
5864759 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
5864776 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
5864792 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
5864808 TACA
1 TACA
5864812 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5864786 original size:33 final size:32
Alignment explanation
Indices: 5864743--5864811 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
5864733 GATTAGCTAT
5864743 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* *
5864776 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
5864808 TACA
1 TACA
5864812 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:5866043 original size:64 final size:64
Alignment explanation
Indices: 5865941--5866133 Score: 287
Period size: 64 Copynumber: 3.0 Consensus size: 64
5865931 ATTCATTCAT
* **
5865941 AACACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGC
1 AACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGC
* * * *
5866005 AACACATTTAGTTAGGTGCATTTGATTTATTTTGATCATAGCATCCTAATTATCTGACATAAGC
1 AACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGC
* * * *
5866069 ATCACATCTAGTTAGGAGCATTTAATTCATTTTGATCATAACATCCTAATTATTTGGCATAAGC
1 AACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGC
5866133 A
1 A
5866134 TGATACATGA
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 114 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (64 bp):
AACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGC
Found at i:5866394 original size:44 final size:45
Alignment explanation
Indices: 5866310--5866431 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 45
5866300 TAGATCATAA
* * ***
5866310 CAAACCTTATCTCCCTGAAGTTGCAGGGGAACAGGTTGAAG-T-G
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAG
** * *
5866353 ACAGGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAG
*
5866399 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACA
5866432 GATGAAAGCT
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 32 0.52
45 29 0.47
46 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAG
Found at i:5866752 original size:146 final size:145
Alignment explanation
Indices: 5866498--5866777 Score: 393
Period size: 146 Copynumber: 1.9 Consensus size: 145
5866488 GAAGATGGTG
* * * * *
5866498 AATCTTATTTCCATGTATCGGCAATGGAACAGATTTTACCACTAGCCTTATCTCTCTGAGGTTGC
1 AATCTTATCTCCATGTATCGGCAATGGAACAGATTTAACCACAAACCTTATCTCTCTGAGGTAGC
* * *
5866563 AAGAGAGCAGGTTGAAGAATGAGTTTTATCTTTCTGGGGTAGCAA-GAAAGCAAACTGA-AGATT
66 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAA-CAAACTGAGA-ATT
5866626 GAAGATTGGAAGAGGCA
129 GAAGATTGGAAGAGGCA
* * * *
5866643 AATCTTATCTCTATGTATCGGCAATGGAGCAGATTTAAGCCTCAAACCTTTTCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAACAGATTTAA-CCACAAACCTTATCTCTCTGAGGTAG
* *
5866708 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGTTAGCAAGGAAACAAACTGAGAATTG
65 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAAACTGAGAATTG
5866773 AAGAT
130 AAGAT
5866778 CTTATCTCCC
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
145 34 0.29
146 79 0.67
147 5 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (145 bp):
AATCTTATCTCCATGTATCGGCAATGGAACAGATTTAACCACAAACCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAAACTGAGAATTGA
AGATTGGAAGAGGCA
Found at i:5867090 original size:411 final size:410
Alignment explanation
Indices: 5866479--5867268 Score: 1137
Period size: 411 Copynumber: 1.9 Consensus size: 410
5866469 AATTGCAGTG
* * * *
5866479 GAGCAGATCGAAGATGGTGAATCTTATTTCCATGTATCGGCAATGGAACAGATTTTACCACTAGC
1 GAGCAGATCGAAGAAGGAGAATCTTATCTCCATGTATCAGCAATGGAACAGATTTTACCACTAGC
* * * **
5866544 CTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGAATGAGTTTTATCTTTCTGGGGTAGCAAG
66 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAAGTAGCAAG
*
5866609 AAAGCAAACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCGGCAATGGAGCA
131 AAAGCAAACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCAGCAATGGAGCA
* * * * *
5866674 GATTTAAGCCTCAAACCTTTTCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTAT
196 GATTTAAACCCCAAACCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAAGATTGAAGTCTTAT
*
5866738 CTTCCTGAGTTAGCAAGGAAACAAACTG-AGAATTGAAGATCTTATCTCCCTAAACGGTAGCAG-
261 CTTCCTGAGGTAGCAAGGAAACAAACTGAAG-ATTGAAGATCTTATCTCCCTAAA--GTAGCAGT
5866801 A-GCAGATCGAAAGA-GGCGAATCTTATCTCCATGTATCGGCAATGGAACAGATTTAAGCCCAAG
323 AGGCAGATC-AAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAACAGATTTAAGCCCAAG
5866864 ATTCATTTCCTTGAAGTTGTAGCA
387 ATTCATTTCCTTGAAGTTGTAGCA
*
5866888 GAGCAGATCGAAGAAGGCAG-ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTAGCCACT-
1 GAGCAGATCGAAGAAGG-AGAATCTTATCTCCATGTATCAGCAATGGAACAGATTTTA-CCACTA
* *
5866951 GACCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGAAGTCTTATCTTCCTGAAGTAG
64 G-CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTCCTGAAGTAG
* * *
5867016 CAAGGAAGCAGACTGAAGATTGAAGATTGGAAG-GGATAAATCTTATCTCTATGTATCAGCAATG
127 CAAGAAAGCAAACTGAAGATTGAAGATTGGAAGAGG-CAAATCTTATCTCTATGTATCAGCAATG
* *
5867080 GAGTAGATTTAAACCCCAAACCTTATCTCTCTGAGGTAGTAAGAGAGCAAGTTAAAGATTGAAGT
191 GAGCAGATTTAAACCCCAAACCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAAGATTGAAGT
* * * *
5867145 CTTATTTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGATCTTATCTCTCTAAAGTTGCA
256 CTTATCTTCCTGAGGTAGCAAGGAAACAAACTGAAGATTGAAGATCTTATCTCCCTAAAGTAGCA
* * * * *
5867210 GTAGGGTAGATCAAAGATGGTGAATCTTATCTTCATGTATCTGCAATGGAGCAGATTTA
321 GTA-GGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAACAGATTTA
5867269 CCACTAGCCT
Statistics
Matches: 337, Mismatches: 33, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
409 51 0.15
410 52 0.15
411 129 0.38
412 60 0.18
413 45 0.13
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (410 bp):
GAGCAGATCGAAGAAGGAGAATCTTATCTCCATGTATCAGCAATGGAACAGATTTTACCACTAGC
CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAAGTAGCAAG
AAAGCAAACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCAGCAATGGAGCA
GATTTAAACCCCAAACCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAAGATTGAAGTCTTAT
CTTCCTGAGGTAGCAAGGAAACAAACTGAAGATTGAAGATCTTATCTCCCTAAAGTAGCAGTAGG
CAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAACAGATTTAAGCCCAAGATTC
ATTTCCTTGAAGTTGTAGCA
Found at i:5867149 original size:44 final size:45
Alignment explanation
Indices: 5867101--5867200 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 45
5867091 AACCCCAAAC
* **
5867101 CTTATCTCTCTGAGGTAGTAA-GAGAGCAAGTTAAAGATTGAAG-T
1 CTTATCTCTCTGAGGTAGCAAGGA-AGCAAACTAAAGATTGAAGAT
* *
5867145 CTTAT-TTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGAT
1 CTTATCTCT-CTGAGGTAGCAAGGAAGCAAACTAAAGATTGAAGAT
5867190 CTTATCTCTCT
1 CTTATCTCTCT
5867201 AAAGTTGCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.04
44 32 0.70
45 10 0.22
46 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGGAAGCAAACTAAAGATTGAAGAT
Found at i:5867178 original size:147 final size:147
Alignment explanation
Indices: 5866908--5867189 Score: 438
Period size: 147 Copynumber: 1.9 Consensus size: 147
5866898 AAGAAGGCAG
* * **
5866908 ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTAGCCACTGACCTTATCTCTCTGAGGTAGC
1 ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCACAAACCTTATCTCTCTGAGGTAGC
* * * *
5866973 AAGAGAGTAGGTTGAAGATTGAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAGATTG
66 AAGAGAGCAAGTTAAAGATTGAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTGAAGATTG
5867038 AAGATTGGAAGGGATAA
131 AAGATTGGAAGGGATAA
* * * *
5867055 ATCTTATCTCTATGTATCAGCAATGGAGTAGATTTAAACCCCAAACCTTATCTCTCTGAGGTAGT
1 ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCACAAACCTTATCTCTCTGAGGTAGC
* *
5867120 AAGAGAGCAAGTTAAAGATTGAAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTG
66 AAGAGAGCAAGTTAAAGATTGAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTGAAGATTG
5867185 AAGAT
131 AAGAT
5867190 CTTATCTCTC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
147 121 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (147 bp):
ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCACAAACCTTATCTCTCTGAGGTAGC
AAGAGAGCAAGTTAAAGATTGAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTGAAGATTG
AAGATTGGAAGGGATAA
Found at i:5867360 original size:176 final size:174
Alignment explanation
Indices: 5867054--5867443 Score: 455
Period size: 176 Copynumber: 2.2 Consensus size: 174
5867044 GGAAGGGATA
* * *
5867054 AATCTTATC-TCTATGTATCAGCAATGGAGTAGATTTAAACCCCAAACCTTATCTCTCTGAGGTA
1 AATCTTATCTTC-ATGTATCTGCAATGGAGCAGATTT--ACCACAAACCTTATCTCTCTGAGGTA
* * *
5867118 GTAAGAGAGCAAGTTAAAGATTGAAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAAACTGAAGAT
63 GCAAGAGAGCAAGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAGAT
* * * *
5867183 TGAAGATCTTATCTCTCT-AA-AGTTGCAGTAGGGTAGATCAAAGATGGTG
128 TGAAGATC-TATCTCCCTAAACAGTTGC-GGA-GG-AAATCAAAGATGGCG
* * *
5867232 AATCTTATCTTCATGTATCTGCAATGGAGCAGATTTACCACTAGCCTTATTTCTCTGAGGTAGCA
1 AATCTTATCTTCATGTATCTGCAATGGAGCAGATTTACCACAAACCTTATCTCTCTGAGGTAGCA
* *** ** *
5867297 AGAGAGCAGGTTGGCGATTTTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGA
66 AGAGAGCAAGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAGATTGA
* * *
5867362 AGATCTATTTCCCTAAAGCAGTTGCGGAGGAAATTAAGGATGGCG
131 AGATCTATCTCCCTAAA-CAGTTGCGGAGGAAATCAAAGATGGCG
*
5867407 AATCTTATCTCCATGTAT-TGGCAATGGAGCAGATTTA
1 AATCTTATCTTCATGTATCT-GCAATGGAGCAGATTTA
5867444 AGTCACCAGT
Statistics
Matches: 183, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
174 1 0.01
175 52 0.28
176 89 0.49
177 2 0.01
178 37 0.20
179 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (174 bp):
AATCTTATCTTCATGTATCTGCAATGGAGCAGATTTACCACAAACCTTATCTCTCTGAGGTAGCA
AGAGAGCAAGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAGATTGA
AGATCTATCTCCCTAAACAGTTGCGGAGGAAATCAAAGATGGCG
Found at i:5885271 original size:29 final size:31
Alignment explanation
Indices: 5885213--5885273 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
5885203 TTTCATCAAT
5885213 ATATATAAAGTTTAAATTTTTAAAAGTTTAG
1 ATATATAAAGTTTAAATTTTTAAAAGTTTAG
* * *
5885244 ATATATATA-TTTGAATTTTTAGAA-TTTAG
1 ATATATAAAGTTTAAATTTTTAAAAGTTTAG
5885273 A
1 A
5885274 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 6 0.22
30 13 0.48
31 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (31 bp):
ATATATAAAGTTTAAATTTTTAAAAGTTTAG
Found at i:5889749 original size:19 final size:20
Alignment explanation
Indices: 5889709--5889751 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
5889699 ATTGGGCTTG
*
5889709 TTTGGGTCTTGGGTTATGTT
1 TTTGGGTCTTGGGTTATATT
5889729 TTTGGGT-TTGGGTT-TAATT
1 TTTGGGTCTTGGGTTAT-ATT
5889748 TTTG
1 TTTG
5889752 TTTATTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.62
20 7 0.33
ACGTcount: A:0.07, C:0.02, G:0.33, T:0.58
Consensus pattern (20 bp):
TTTGGGTCTTGGGTTATATT
Found at i:5898988 original size:46 final size:46
Alignment explanation
Indices: 5898936--5899209 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
5898926 GTTTTCTGAA
** * *
5898936 ATGAAATGTGTAAGACCATGGTTGAAAGTTACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
5898982 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
5899028 GGGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
5899074 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
5899120 ATGAAATGAACAAGACTATGGTTGAAAGACACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
5899166 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
5899210 TCAAAGATAA
Statistics
Matches: 202, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 201 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:5899007 original size:21 final size:21
Alignment explanation
Indices: 5898937--5899008 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
5898927 TTTTCTGAAA
5898937 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
5898958 TGAAA-GT-TACCATGGCAACATGAT
1 TGAAATGTGTA--A--G-ACCATGGT
5898982 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
5899004 TGAAA
1 TGAAA
5899009 GATACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 11 0.28
22 6 0.15
23 2 0.05
24 6 0.15
25 6 0.15
26 2 0.05
27 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:5899184 original size:138 final size:138
Alignment explanation
Indices: 5898936--5899204 Score: 412
Period size: 138 Copynumber: 1.9 Consensus size: 138
5898926 GTTTTCTGAA
** * ***
5898936 ATGAAATGTGTAAGACCATGGTTGAAAGTTACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAGACCAT
* * * * *
5899001 GGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACTATGGC
66 GGTTGAAAGACACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC
5899066 AGCGTGAC
131 AGCGTGAC
* *
5899074 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACTAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAGACCAT
*
5899139 GGTTGAAAGACACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
66 GGTTGAAAGACACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC
5899204 A
131 A
5899205 TCATGTCAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 117 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (138 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAGACCAT
GGTTGAAAGACACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC
AGCGTGAC
Found at i:5912979 original size:21 final size:21
Alignment explanation
Indices: 5912955--5913010 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
5912945 CACTATTGTT
** *
5912955 TCTAATCTCACTGCTACGGTA
1 TCTAATCTCACCACTACAGTA
5912976 TCTAATCTCACCACTACAGTA
1 TCTAATCTCACCACTACAGTA
* *
5912997 ACTAATCTCGCCAC
1 TCTAATCTCACCAC
5913011 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCACTACAGTA
Found at i:5914016 original size:25 final size:24
Alignment explanation
Indices: 5913977--5914035 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
5913967 AAAATGATTG
5913977 TATAAAAAATTTT-AATAATTAAAA
1 TATAAAAAATTTTAAAT-ATTAAAA
*
5914001 TATATAAAATTATTAAATATTAAAA
1 TATAAAAAATT-TTAAATATTAAAA
5914026 TA-AAATAAAT
1 TATAAA-AAAT
5914036 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 12 0.40
25 15 0.50
26 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATAAAAAATTTTAAATATTAAAA
Found at i:5917443 original size:26 final size:26
Alignment explanation
Indices: 5917414--5917471 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
5917404 CTAACATTAT
*
5917414 TACTATTTATAT-ATATATTATGTACA
1 TACTATTAATATCAT-TATTATGTACA
* *
5917440 TACTCTTAATATCATTATTATGTATA
1 TACTATTAATATCATTATTATGTACA
5917466 TA-TATT
1 TACTATT
5917472 CATTGTTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.11
26 22 0.81
27 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (26 bp):
TACTATTAATATCATTATTATGTACA
Found at i:5922429 original size:3 final size:3
Alignment explanation
Indices: 5922421--5922449 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5922411 ACCATTTGTA
5922421 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5922450 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5930540 original size:30 final size:30
Alignment explanation
Indices: 5930504--5930561 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
5930494 TACATAGTCC
5930504 GTGGAGTAGGATTTTGATTAGCCGCAATCT
1 GTGGAGTAGGATTTTGATTAGCCGCAATCT
5930534 GTGGAGTAGGATTTTGATTAGCCGCAAT
1 GTGGAGTAGGATTTTGATTAGCCGCAAT
5930562 TACAGGAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (30 bp):
GTGGAGTAGGATTTTGATTAGCCGCAATCT
Done.