Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold341
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: 1349338
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:935856 original size:165 final size:165
Alignment explanation
Indices: 935505--936145 Score: 623
Period size: 165 Copynumber: 3.8 Consensus size: 165
935495 TCGCCTTTTT
* * *
935505 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGTACTTTTCTAGTCCTCCAA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCC-CCAA
*
935570 A-AGCGGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAA
64 AGAGCAGGACGCCTTTT-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA-AA
* * *
935634 -CAGG-GCGCTTTTCAAAGCCCACACCAGTTGGGGGCACCTTTCA
123 GCAGGAGC-CTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCA
*
935677 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCTACACAAGTTGGTGGCA-CTTCCTAGTCCCCAAA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCCCAAA
* *
935741 GAGCAGGACGCC-TTTCAAAGCCTACACGAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGAT
65 GAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGA-
* *
935805 GCCTCTT-AAAGCCCACGCAAGTTGGTGGCACTTCCCA
129 GCCTTTTCAAAGCCCACACAAGTTGGTGGCACTT-CCA
* * * * * ** * *
935842 ATCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAG
* * * * * **
935907 AGCAGGATGCCTCTT-AAAGCCCACGCAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGAAA
66 AGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGAGC
* *
935971 CTTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCA
131 CTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCA
* ** *
936007 GTCCTCAAAGAGAAGGATGCTTTCTCTTTGCAAAGCCCACATGAGTTGATGGCACCTTCCAGTCC
1 GTCCTCAAAGAGCAGGATGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCC
* * * ** *
936072 TCAAAGAGTAGGACGTCTTTCCTTTTCAAAGCCCATATGAGTTGGTGGCACTTTT-TAGTCCTCA
60 CCAAAGAGCAGGACG-----CCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCA
*
936136 AAGAGCAGGA
119 AAAAGCAGGA
936146 TGCACTTTAT
Statistics
Matches: 393, Mismatches: 53, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
164 9 0.02
165 206 0.52
166 12 0.03
167 2 0.01
168 2 0.01
169 3 0.01
170 11 0.03
171 57 0.15
172 46 0.12
176 5 0.01
177 36 0.09
178 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (165 bp):
GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAG
AGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGAGC
CTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCA
Found at i:936071 original size:61 final size:59
Alignment explanation
Indices: 935505--936148 Score: 516
Period size: 55 Copynumber: 11.3 Consensus size: 59
935495 TCGCCTTTTT
* * *
935505 GTCCTCAAAGAGCAGGATGC--CT-TTT-AAAGCCCACACAAGTTGGTGGTACTTTTCTA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCA
* * * * *
935561 GTCCTCCAAA-AGCGGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCT-CAAAGAGCAGGATG-CTTCT-CTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
* * * * *
935622 GTCCTCAAAGAACAGG--GC-GCT-TTTCAAAGCCCACACCAGTTGGGGGCACCTTT-CA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCA
* * *
935677 GTCCTCAAAGAGCAGGATGC--CT-TTT-AAAGCCTACACAAGTTGGTGGCA-CTTCCTA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCC-A
* * *
935732 GTCCCCAAAGAGCAGGA--C-GC-CTTTCAAAGCCTACACGAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
* * * * *
935787 GTCCTCAAAAAGCAGGATGC--CTC-TT-AAAGCCCACGCAAGTTGGTGGCACTTCCCA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
* * *
935842 ATCCTTAAAGAGCAGGA--C-GC-CTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
* * *
935897 GTCCTCAAAAAGCAGGATGC--CTC-TT-AAAGCCCACGCAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
* ** * *
935952 GTCCTCAAAGAGTAGGA---AACT-TTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
* * * **
936007 GTCCTCAAAGAGAAGGATGCTTTCTCTTTGCAAAGCCCACATGAGTTGATGGCACCTTCCA
1 GTCCTCAAAGAGCAGGATGC-TTCTCTTT-CAAAGCCCACACGAGTTGGTGGCATTTTCCA
* * * * *
936068 GTCCTCAAAGAGTAGGACGTCTT-TCCTTTTCAAAGCCCATATGAGTTGGTGGCACTTTT-TA
1 GTCCTCAAAGAGCAGGATG-CTTCT-C-TTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCA
936129 GTCCTCAAAGAGCAGGATGC
1 GTCCTCAAAGAGCAGGATGC
936149 ACTTTATTTT
Statistics
Matches: 486, Mismatches: 62, Indels: 76
0.78 0.10 0.12
Matches are distributed among these distances:
53 5 0.01
54 12 0.02
55 282 0.58
56 30 0.06
57 12 0.02
58 1 0.00
59 4 0.01
60 9 0.02
61 103 0.21
62 28 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGATGCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCA
Found at i:936297 original size:42 final size:40
Alignment explanation
Indices: 936244--936337 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
936234 CTCTTTTTCA
* * *
936244 CTTTATCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
936286 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
936326 CTTTGTCCTCAA
1 CTTTGTCCTCAA
936338 AAAGTGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:937038 original size:13 final size:13
Alignment explanation
Indices: 937020--937044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
937010 CATTATGCTT
937020 TGTATCGATACAA
1 TGTATCGATACAA
937033 TGTATCGATACA
1 TGTATCGATACA
937045 TGTTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:940712 original size:13 final size:13
Alignment explanation
Indices: 940694--940719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
940684 CAATTTTTTG
940694 TGTATCGATACAT
1 TGTATCGATACAT
940707 TGTATCGATACAT
1 TGTATCGATACAT
940720 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:940734 original size:32 final size:33
Alignment explanation
Indices: 940674--940737 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
940664 TACAAGCCAA
** *
940674 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
940707 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
940738 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:943734 original size:52 final size:51
Alignment explanation
Indices: 943667--944009 Score: 192
Period size: 51 Copynumber: 6.6 Consensus size: 51
943657 TTAAGTTTCT
* * *
943667 CAATTGTTCATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* * ***** * *
943719 CAATTTTTCACAATCGAGGATACTCCAAC-CTCGTTATTTCATCGGGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAACTC-CG--ATTTTATTTCCAAAACAC
*** * * ** * *
943772 CAACCCCGTT-AC-CTCTGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CAA--TTTTTCACAATC-G--GGGATACTCCAACTCCGATTTTATTTCCAAAACAC
** * * * * *
943826 TGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * *
943877 TAATTTTCCACAATCGAGGATACTCCAA-TCCCGGTTTTATCTT-CAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACT-CCGATTTTAT-TTCCAAAACAC
* ** * *
943928 CAATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACTCCGATTTTA-TTTCCAAAACAC
*
943981 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTTCACAATCGGGGATACTCCAAC
944010 CTCGTTATTT
Statistics
Matches: 215, Mismatches: 59, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
51 80 0.37
52 72 0.33
53 28 0.13
54 18 0.08
55 2 0.01
56 14 0.07
57 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:943767 original size:28 final size:28
Alignment explanation
Indices: 943731--943807 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
943721 ATTTTTCACA
* * **
943731 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
943759 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
*
943787 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
943808 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:943853 original size:51 final size:51
Alignment explanation
Indices: 943790--944010 Score: 230
Period size: 51 Copynumber: 4.3 Consensus size: 51
943780 TTACCTCTGA
* * * * *
943790 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTC-CACAATC
*
943841 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATC
* * * **
943892 GAGGATACTCCAATCCCGGTTTTATCTT-CAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTAT-TTCCAAAACACTAATTTTCC-ACAATC
* * * * * *
943944 GGGGATACTCCAACTCTGATTTTATTTTCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTCCAAAACACTAATTTTCCACAATC
*
943996 GAGGATACTCCAACC
1 GGGGATACTCCAACC
944011 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
51 78 0.55
52 48 0.34
53 16 0.11
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATC
Found at i:944172 original size:79 final size:79
Alignment explanation
Indices: 944024--944204 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 79
944014 TTATTTCATC
* ** * * *
944024 GGAGATACTCCAACCCTGTTACCTTCGAGGGGATACTCCAATCCCGGCTTTATTCCCAAAATATT
1 GGAGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAATCCCGACTTTATTCCCAAAATATC
* *
944089 GATTTCTCATAATT
66 GATTTCTCAGAACT
* * * * * *
944103 GGGGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAATCTCGATTTTATTTCCTAATTATC
1 GGAGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAATCCCGACTTTATTCCCAAAATATC
*
944168 GATTTTTCAGAACT
66 GATTTCTCAGAACT
944182 GGAGATACTCCAACCCCGTTATT
1 GGAGATACTCCAACCCCGTTATT
944205 ATCTCCAAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 86 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGAGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAATCCCGACTTTATTCCCAAAATATC
GATTTCTCAGAACT
Found at i:947192 original size:13 final size:13
Alignment explanation
Indices: 947174--947199 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
947164 ATCAAAGATC
947174 ACATCATAAATAT
1 ACATCATAAATAT
947187 ACATCATAAATAT
1 ACATCATAAATAT
947200 GTGTGACAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATCATAAATAT
Found at i:950848 original size:9 final size:9
Alignment explanation
Indices: 950836--950867 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
950826 TATTTTTTAT
950836 ATTATAATA
1 ATTATAATA
950845 ATTATAATA
1 ATTATAATA
*
950854 ATTATAATT
1 ATTATAATA
950863 ATTAT
1 ATTAT
950868 TTTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTATAATA
Found at i:950869 original size:39 final size:41
Alignment explanation
Indices: 950826--950919 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 41
950816 TCTTTATTTG
* *
950826 TATTTTTTATA-TTATAATAATTATAATA-ATT-ATAATTAT
1 TATTTTATATATTTAT-ATAATTATAATATATTAATAATTAA
*
950865 TATTTTATATATTTATATAATTTTAATATATTAATAATTAA
1 TATTTTATATATTTATATAATTATAATATATTAATAATTAA
* *
950906 TATTATATAAATTT
1 TATTTTATATATTT
950920 TGATATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 21 0.45
40 7 0.15
41 19 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (41 bp):
TATTTTATATATTTATATAATTATAATATATTAATAATTAA
Found at i:950901 original size:17 final size:18
Alignment explanation
Indices: 950866--950928 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 18
950856 TATAATTATT
950866 ATTTTATATATTTATATA
1 ATTTTATATATTTATATA
950884 ATTTTA-ATATATTA-ATA
1 ATTTTATATAT-TTATATA
950901 A--TTA-ATA-TTATATAA
1 ATTTTATATATTTATAT-A
950916 ATTTTGATATATT
1 ATTTT-ATATATT
950929 AAATTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 8 0.22
17 10 0.27
18 10 0.27
19 3 0.08
20 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTATATATTTATATA
Found at i:952108 original size:2 final size:2
Alignment explanation
Indices: 952101--952148 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
952091 GTTTAACTGC
952101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
952143 TA -A TA T
1 TA TA TA T
952149 TAACCATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:952863 original size:3 final size:3
Alignment explanation
Indices: 952855--952890 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
952845 TCAATTTTCA
952855 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
952891 GAATAGTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:953446 original size:20 final size:20
Alignment explanation
Indices: 953421--953461 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
953411 TTTGGTATTA
*
953421 AAATATTTAAA-ATATTTAAT
1 AAATA-TTAAAGAAATTTAAT
953441 AAATATTAAAGAAATTTAAT
1 AAATATTAAAGAAATTTAAT
953461 A
1 A
953462 CATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATATTAAAGAAATTTAAT
Found at i:953741 original size:8 final size:8
Alignment explanation
Indices: 953728--953753 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
953718 TCTTAATTAT
953728 TTATAAAA
1 TTATAAAA
953736 TTATAAAA
1 TTATAAAA
953744 TTATAAAA
1 TTATAAAA
953752 TT
1 TT
953754 CTTTCTGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTATAAAA
Found at i:954479 original size:18 final size:19
Alignment explanation
Indices: 954458--954503 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
954448 TTTTATATTT
954458 TATATATTATATAATAA-A
1 TATATATTATATAATAATA
* *
954476 TATATATAATATTATAATA
1 TATATATTATATAATAATA
*
954495 TAAATATTA
1 TATATATTA
954504 AAAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATATTATATAATAATA
Found at i:954573 original size:28 final size:30
Alignment explanation
Indices: 954499--954573 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 30
954489 ATAATATAAA
* *
954499 TATTAAAAAATATATT-AAATTATTTATAT
1 TATTAAAAATTAAATTAAAATTATTTATAT
* *
954528 T-TT-AAAATTTAATAAAAATTA-TTA-AT
1 TATTAAAAATTAAATTAAAATTATTTATAT
954554 TATTAAAAATTAAATTAAAA
1 TATTAAAAATTAAATTAAAA
954574 AAACGAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
26 3 0.08
27 12 0.32
28 21 0.57
29 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TATTAAAAATTAAATTAAAATTATTTATAT
Found at i:956606 original size:22 final size:22
Alignment explanation
Indices: 956551--956606 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
956541 ACAGTGATCT
956551 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
956573 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
956594 ATGAACAGTGATG
1 ATGAACAGTGATG
956607 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:956613 original size:10 final size:10
Alignment explanation
Indices: 956594--956624 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
956584 GTATCGATAC
956594 ATGAACAGTG
1 ATGAACAGTG
*
956604 ATGAATAGTG
1 ATGAACAGTG
956614 ATGAACAGTG
1 ATGAACAGTG
956624 A
1 A
956625 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:956684 original size:18 final size:19
Alignment explanation
Indices: 956648--956684 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
956638 CTACTACCAA
956648 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
956667 TGTATCGATACA-ATTTTG
1 TGTATCGATACATATTTTG
956685 GCTACTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:956712 original size:53 final size:53
Alignment explanation
Indices: 956648--956784 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
956638 CTACTACCAA
*
956648 TGTATCGATACATATTTTGTGTATCGATACAATTTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
956701 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
956754 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
956785 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:956820 original size:21 final size:20
Alignment explanation
Indices: 956772--956826 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
956762 TACATATTTG
**
956772 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
956792 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
956813 TGTGTATCGATACT
1 TGTGTATCGATACT
956827 TTTCAGAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:962122 original size:21 final size:21
Alignment explanation
Indices: 962089--962133 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
962079 TTGCAAGTTG
*
962089 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
962111 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
962131 AAA
1 AAA
962134 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:963957 original size:15 final size:15
Alignment explanation
Indices: 963937--963975 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
963927 TAAAAATGTC
*
963937 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
963952 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
963967 CCAAATGAA
1 CAAAATGAA
963976 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:966064 original size:13 final size:13
Alignment explanation
Indices: 966046--966071 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
966036 ACATTTTTCT
966046 TTGTATCGATACA
1 TTGTATCGATACA
966059 TTGTATCGATACA
1 TTGTATCGATACA
966072 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:970865 original size:37 final size:38
Alignment explanation
Indices: 970781--970893 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 38
970771 TTGTGGTATA
* * * *
970781 GGTTAGAACAAAAATTACTATTCTAATCCGGTGACACG
1 GGTTAGAACAAAAACTACTATTCTTATCTGGTGGCACG
*
970819 GTTTAGAACAAAAACTACTATTCTTA-CTGGTGGCACG
1 GGTTAGAACAAAAACTACTATTCTTATCTGGTGGCACG
* * * *
970856 GGTTGGAACAAAAACCATTGTTCTTATCTGGTGGCACG
1 GGTTAGAACAAAAACTACTATTCTTATCTGGTGGCACG
970894 ACAAAAACCA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 30 0.47
38 34 0.53
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (38 bp):
GGTTAGAACAAAAACTACTATTCTTATCTGGTGGCACG
Found at i:970988 original size:31 final size:31
Alignment explanation
Indices: 970864--970987 Score: 131
Period size: 31 Copynumber: 4.0 Consensus size: 31
970854 CGGGTTGGAA
* * * *
970864 CAAAAACCATTGTTCTTATCTGGTGGCACGA
1 CAAAAACCACTATTCTTATCCGGTGGCACGG
* *
970895 CAAAAACCATTATTCTTATCCGGTGGCATGG
1 CAAAAACCACTATTCTTATCCGGTGGCACGG
* *
970926 CAAAAACCACTATTCTTATCCAGTGACACGG
1 CAAAAACCACTATTCTTATCCGGTGGCACGG
* * * * *
970957 TAAAAACTACTATTTTTAACTGGTGGCACGG
1 CAAAAACCACTATTCTTATCCGGTGGCACGG
970988 TTTGAAACCT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (31 bp):
CAAAAACCACTATTCTTATCCGGTGGCACGG
Found at i:974662 original size:25 final size:26
Alignment explanation
Indices: 974634--974701 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
974624 TAAAATAATT
974634 AAATTTCTTATTTAATTTTTTAA-AA
1 AAATTTCTTATTTAATTTTTTAATAA
** *
974659 AAATTTAGATATTAAATTTTTTAATAA
1 AAATTT-CTTATTTAATTTTTTAATAA
* *
974686 ATATTTTTATATTTAA
1 AAATTTCT-TATTTAA
974702 AAAATAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
25 6 0.18
26 14 0.42
27 13 0.39
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AAATTTCTTATTTAATTTTTTAATAA
Found at i:974700 original size:19 final size:19
Alignment explanation
Indices: 974678--974721 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
974668 TATTAAATTT
* * *
974678 TTTAATAAATATTTTTATA
1 TTTAAAAAATAATTATATA
974697 TTTAAAAAATAATTATATA
1 TTTAAAAAATAATTATATA
974716 -TTAAAA
1 TTTAAAA
974722 CTATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAAAAATAATTATATA
Found at i:974788 original size:21 final size:21
Alignment explanation
Indices: 974759--974798 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
974749 TTCAAAATTT
974759 TTTTAAAAAATCAT-ATATTGA
1 TTTTAAAAAAT-ATAATATTGA
*
974780 TTTTCAAAAATATAATATT
1 TTTTAAAAAATATAATATT
974799 AAAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTTAAAAAATATAATATTGA
Found at i:975071 original size:35 final size:35
Alignment explanation
Indices: 975025--975104 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 35
975015 TGAAAAAATT
* *
975025 AATTAAAAATTA-TATAATAT-A-ATTATATAAAA
1 AATTAAAAATAATTAAAATATAATATTATATAAAA
975057 AATTAAAAATAATTAAAATATAATATTATATAAAA
1 AATTAAAAATAATTAAAATATAATATTATATAAAA
975092 TAATATAAAAATA
1 -AAT-TAAAAATA
975105 TATAAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 11 0.27
33 7 0.17
34 1 0.02
35 11 0.27
36 3 0.07
37 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (35 bp):
AATTAAAAATAATTAAAATATAATATTATATAAAA
Found at i:975092 original size:33 final size:32
Alignment explanation
Indices: 975025--975115 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 32
975015 TGAAAAAATT
* *
975025 AATTAAAAATTATATAATATAATTATATAAAA
1 AATTAAAAATAATAAAATATAATTATATAAAA
975057 AATTAAAAATAATTAAAATATAATATTATATAAAA
1 AATTAAAAATAA-TAAAATAT-A-ATTATATAAAA
975092 TAATATAAAAATATATAAATATAT
1 -AAT-TAAAAATA-ATAAA-ATAT
975116 TAAAATTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
32 11 0.22
33 7 0.14
34 1 0.02
35 11 0.22
36 3 0.06
37 12 0.24
38 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (32 bp):
AATTAAAAATAATAAAATATAATTATATAAAA
Found at i:975113 original size:26 final size:26
Alignment explanation
Indices: 975036--975136 Score: 53
Period size: 28 Copynumber: 3.7 Consensus size: 26
975026 ATTAAAAATT
*
975036 ATATAATATAATTATATAAAAAATTAAA
1 ATATAATATAA-TATA-AAATAATTAAA
* * *
975064 A-ATAATTAAAATATAATATTATATAAA
1 ATATAA-TATAATATAAAATAAT-TAAA
*
975091 ATA-ATATAAAAATATATAAATATATTAAA
1 ATATA-AT-ATAATATA-AAATA-ATTAAA
* *
975120 ATTTTATATAATATAAA
1 ATATAATATAATATAAA
975137 TTATTAACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
26 4 0.07
27 17 0.30
28 22 0.39
29 11 0.20
30 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAATATAATATAAAATAATTAAA
Found at i:979378 original size:52 final size:50
Alignment explanation
Indices: 979309--979436 Score: 150
Period size: 51 Copynumber: 2.5 Consensus size: 50
979299 TATTTTAGAG
* *
979309 ATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAA-CGGTGTTCTAAAAA
1 ATAA-AACGGGGTTAGAGTATCCCCGATTAT-GAAAAATCGATGTT-TAAAAA
* * *
979361 ATAAAATCGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTATAA
1 ATAAAA-CGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTAAAAA
*
979412 ATAAAACTGGGGTTGGAGTATCCCC
1 ATAAAAC-GGGGTTAGAGTATCCCC
979437 TTGGAAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
50 1 0.01
51 34 0.51
52 32 0.48
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
ATAAAACGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTAAAAA
Found at i:979503 original size:79 final size:79
Alignment explanation
Indices: 979368--980145 Score: 1225
Period size: 79 Copynumber: 9.8 Consensus size: 79
979358 AAAATAAAAT
* * *
979368 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTATAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
979433 CCCCTTGGAAATAA
66 CCCCTCGGAAATAA
* * ** *
979447 TGGGGTTGGAGTATCCCTGATTATGAAAAATTGGCGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
979512 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
979526 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
979591 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * *
979605 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
979670 CACCTCGGAAATAA
66 CCCCTCGGAAATAA
*
979684 CGGGGTTGGAGTATCCCCGATTATGAAAAATT-AGTGTTTTAGAAATAAAACCGAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACCGGGGTTGGAGTA
**
979748 TCCCCTCAAAAATAA
65 TCCCCTCGGAAATAA
* * * *
979763 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
979828 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* *
979842 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
979907 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
** *
979921 CGGGGTTGGAGTATCCCTAATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
979986 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
** * *
980000 CGGGGTTGGAGTATCAACGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
980065 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
980079 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
980144 CC
66 CC
980146 TCGATTAAAG
Statistics
Matches: 635, Mismatches: 62, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
79 634 1.00
80 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:980271 original size:104 final size:103
Alignment explanation
Indices: 980079--980515 Score: 309
Period size: 104 Copynumber: 4.2 Consensus size: 103
980069 TCGGAAATAA
* * *
980079 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTAAAGAAAAATTGATGTTTTAAAAATAAAATCGGGGTTAGAGTA
* *
980143 TCCTCGATTAAAGGAAATTGGTGTTTT-GAAAATAAAAC
66 TCCCCGATTAAAGGAAATTAGTGTTTTAG-AAATAAAAC
* * * *
980181 CGGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTAAAAAATAAAATCGGGTTTAGAGT
1 CGGGGTTGGAGTATCCCCGATTAAAGAAAAATTGATGTTTT-AAAAATAAAATCGGGGTTAGAGT
* * *
980246 ATCCCCGATT-ATGGAAAGTTAGTGTTTTAGAAATGAAAT
65 ATCCCCGATTAAAGGAAA-TTAGTGTTTTAGAAATAAAAC
* * ** * ** ** *
980285 CGGGGTTAGAGTATCCGCC-ATT-AAGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
1 CGGGGTTGGAGTATCC-CCGATTAAAGAAAAATTGATGTTTTAAAAATAAAATCGGGGTTAGAGT
* * ** * * * ***** *
980348 ATCCCCTCGGAGGTAACGG-GGTTGGAGTATCCCCGATGAAATAA
65 AT-CCC-C-GA-TTAAAGGAAATTAGTGTTTTAGAAAT-AAA-AC
* * * * * *
980392 CGAGGTTGGAGTATCCTCGATT---GAAAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTAAAGAAAAATTGATG-TTTTAAAAATAAAATCGGGGTTAGAGT
*
980454 ATCCCCGATTAAAGGAAATTGGTGTTTT-GAAAATAAAAC
65 ATCCCCGATTAAAGGAAATTAGTGTTTTAG-AAATAAAAC
*
980493 CGAGGTTGGAGTATCCCCGATTA
1 CGGGGTTGGAGTATCCCCGATTA
980516 TGAGCAATTG
Statistics
Matches: 254, Mismatches: 64, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
101 22 0.09
102 49 0.19
103 45 0.18
104 65 0.26
105 23 0.09
106 29 0.11
107 21 0.08
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (103 bp):
CGGGGTTGGAGTATCCCCGATTAAAGAAAAATTGATGTTTTAAAAATAAAATCGGGGTTAGAGTA
TCCCCGATTAAAGGAAATTAGTGTTTTAGAAATAAAAC
Found at i:980286 original size:155 final size:153
Alignment explanation
Indices: 980072--980515 Score: 443
Period size: 155 Copynumber: 2.9 Consensus size: 153
980062 TATCCCCTCG
* *
980072 GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTT
1 GAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTG-TGTTTTAGAAATAAAATCGGGGTT
*
980137 GGAGTATCCTCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAT
65 GGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAT
* * *
980202 TAAAGGAAATTTGGTGTTTTAAAAAAT
130 TAAAGG--AGTTGGAG-TATAAAAAAT
* * * *
980229 -AAA-ATCG-GGTTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAATCGGGGT
1 GAAATAACGAGG-TTAGAGTATCCCCGATTATGAAAAATT-GTGTTTTAGAAATAAAATCGGGGT
* *** * * *
980291 TAGAGTATCCGCC-ATT-AAGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
64 TGGAGTATCC-CCGATTAAAG-GAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT-CCC
* * * *****
980354 TCGGAGGTAACGGGGTTGGAGTATCCCCGAT
126 -C-GA-TTAAAGGAGTTGGAGTATAAAAAAT
* * * *
980385 GAAATAACGAGGTTGGAGTATCCTCGA-T-TGAAAAATTGGTGTTTTTGAAAATAAAATCGGAGT
1 GAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATT-GTGTTTTAG-AAATAAAATCGGGGT
*
980448 TGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGA
64 TGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGA
980513 TTA
129 TTA
980516 TGAGCAATTG
Statistics
Matches: 231, Mismatches: 42, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
153 2 0.01
154 7 0.03
155 95 0.41
156 32 0.14
157 67 0.29
158 21 0.09
159 7 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (153 bp):
GAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGTGTTTTAGAAATAAAATCGGGGTTG
GAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
AAAGGAGTTGGAGTATAAAAAAT
Found at i:980392 original size:28 final size:28
Alignment explanation
Indices: 980336--980417 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
980326 GAAATAAAGC
*** **
980336 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
980364 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
980392 CGAGGTTGGAGTATCCTCGATTGAAA
1 CGGGGTTGGAGTATCCCCGA-TGAAA
980418 AATTGGTGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 41 0.89
29 5 0.11
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:980501 original size:51 final size:51
Alignment explanation
Indices: 980079--980515 Score: 345
Period size: 51 Copynumber: 8.5 Consensus size: 51
980069 TCGGAAATAA
*
980079 CGGGGTTGGAGTATCCCCGATTATGAA--AAATTGATGTTTT-AGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTA--AAGGAAATTGGTGTTTTGA-AAATAAAAT
* *
980130 CGGGGTTGGAGTATCCTCGATTAAAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAAT
*
980181 CGGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTAAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAA-TTGGTGTTTT-GAAAATAAAAT
* * * * *
980234 CGGGTTTAGAGTATCCCCGATT-ATGGAAAGTTAGTGTTTT-AGAAATGAAAT
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAA-TTGGTGTTTTGA-AAATAAAAT
* *** * * **
980285 CGGGGTTAGAGTATCCGCC-ATT-AAGAGAAATCAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCC-CCGATTAAAG-GAAATTGGTGTTTTGAAAATAAAAT
* * ** * * ***** *
980336 CGGGGTTGGAGTATCCCCTCGGAGGTAACGG-GGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTAT-CCC-C-GA-TTAAAGGAAATTGGTGTTTTGAAAAT-AAA-AT
* * *
980392 CGAGGTTGGAGTATCCTCGATTGAA--AAATTGGTGTTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAATTGGTG-TTTTGAAAATAAAAT
* *
980442 CGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAAT
*
980493 CGAGGTTGGAGTATCCCCGATTA
1 CGGGGTTGGAGTATCCCCGATTA
980516 TGAGCAATTG
Statistics
Matches: 304, Mismatches: 61, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
49 2 0.01
50 23 0.08
51 169 0.56
52 50 0.16
53 31 0.10
54 7 0.02
55 7 0.02
56 15 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAAT
Found at i:981513 original size:43 final size:43
Alignment explanation
Indices: 981466--981567 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
981456 TCTCGCTGGA
*
981466 GCTGCTGTTGCATGCTGAAGCTGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGAAGCTGCAGTCGCTGCTGGAGTTGCT
* *
981509 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGTTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGAAGCTGCAGTCGCTGCTGGAGTTGCT
981552 GCTGCTGTTGCGTGCT
1 GCTGCTGTTGCGTGCT
981568 AGAACTGTCG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.08, C:0.23, G:0.37, T:0.32
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTGAAGCTGCAGTCGCTGCTGGAGTTGCT
Found at i:981515 original size:18 final size:18
Alignment explanation
Indices: 981440--981515 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
981430 AAATTGCTAC
*
981440 CTGCTGGAGTTGCTGCT-
1 CTGCTGGAGCTGCTGCTG
*
981457 CTCGCTGGAGCTGCTGTTG
1 CT-GCTGGAGCTGCTGCTG
* *
981476 CATGCTGAAGCTGCAG-TCG
1 C-TGCTGGAGCTGCTGCT-G
*
981495 CTGCTGGAGTTGCTGCTG
1 CTGCTGGAGCTGCTGCTG
981513 CTG
1 CTG
981516 TTGCGTGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.04
18 29 0.62
19 15 0.32
20 1 0.02
ACGTcount: A:0.09, C:0.25, G:0.36, T:0.30
Consensus pattern (18 bp):
CTGCTGGAGCTGCTGCTG
Found at i:981587 original size:43 final size:43
Alignment explanation
Indices: 981466--981594 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
981456 TCTCGCTGGA
* * * *
981466 GCTGCTGTTGCATGCT-GAAGCTGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTAGAA-CTGCAGCCACCGCTGGAGTTGCT
* * * ***
981509 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGTTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTAGAACTGCAGCCACCGCTGGAGTTGCT
*
981552 GCTGCTGTTGCGTGCTAGAACTGTC-GCCACCGCTGGAGCTGCT
1 GCTGCTGTTGCGTGCTAGAACTG-CAGCCACCGCTGGAGTTGCT
981595 TTTGCGTGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 71 0.96
44 3 0.04
ACGTcount: A:0.10, C:0.25, G:0.36, T:0.29
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTAGAACTGCAGCCACCGCTGGAGTTGCT
Found at i:981943 original size:26 final size:26
Alignment explanation
Indices: 981908--982061 Score: 283
Period size: 26 Copynumber: 6.0 Consensus size: 26
981898 TCCAATTACA
981908 ATTTT-TATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
*
981933 ATTTTTTATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
981959 ATTTTCTATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
*
981985 ATTTTTTATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
982011 ATTTTCTATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
982037 ATTTTCTATTTCCTTTCCCATGCTG
1 ATTTTCTATTTCCTTTCCCATGCTG
982062 TAAGTTTTCA
Statistics
Matches: 125, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 5 0.04
26 120 0.96
ACGTcount: A:0.12, C:0.29, G:0.08, T:0.52
Consensus pattern (26 bp):
ATTTTCTATTTCCTTTCCCATGCTGC
Found at i:982100 original size:4 final size:4
Alignment explanation
Indices: 982093--982131 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
982083 TTTTTTTTAA
*
982093 ATTT ATTTT ATTT ATTT ATTT ATTT ATTT ATTT TTTT AT
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
982132 GCATGAATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:982821 original size:42 final size:41
Alignment explanation
Indices: 982775--982868 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
982765 CCCGTTTTTC
** *
982775 GAGGATAAAGGAAAAAGGGAAATGAAA-TACGTCCTGCTCTTT
1 GAGGATAAA-GAAAAAGAAAAAT-AAAGTACATCCTGCTCTTT
**
982817 GAGGATGAAAGAAAAAGAAAAATAAAGTGTATCCTGCTCTTT
1 GAGGAT-AAAGAAAAAGAAAAATAAAGTACATCCTGCTCTTT
982859 GAGGACTAAA
1 GAGGA-TAAA
982869 AAGTGCCACC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 3 0.07
42 37 0.84
43 4 0.09
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (41 bp):
GAGGATAAAGAAAAAGAAAAATAAAGTACATCCTGCTCTTT
Found at i:983005 original size:56 final size:55
Alignment explanation
Indices: 982848--983242 Score: 497
Period size: 55 Copynumber: 7.0 Consensus size: 55
982838 ATAAAGTGTA
* *
982848 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * * *
982903 TCCTGCTCTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
982958 TCCTGCTCTTTGAGGACTAAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
983014 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
*
983074 TCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
983130 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAG---GCG
* **
983190 TCCTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
983243 AAAAGGCGTC
Statistics
Matches: 301, Mismatches: 23, Indels: 32
0.85 0.06 0.09
Matches are distributed among these distances:
54 24 0.08
55 92 0.31
56 79 0.26
57 5 0.02
58 5 0.02
59 3 0.01
60 68 0.23
62 25 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:983104 original size:116 final size:114
Alignment explanation
Indices: 982848--983269 Score: 568
Period size: 116 Copynumber: 3.6 Consensus size: 114
982838 ATAAAGTGTA
* *
982848 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
982913 TGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTT----AAAAGGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCG
*
982958 TCCTGCTCTTTGAGGACTAAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
*
983023 TTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AAAAGGCG
*
983074 TCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * *
983139 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
65 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAA-AAGGCG
* ***
983190 TCCTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCT
983255 GCTCTTTGAGGACTG
60 GCTCTTTGAGGACTG
983270 GAGGCCTAAA
Statistics
Matches: 278, Mismatches: 17, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
110 49 0.18
111 46 0.17
115 27 0.10
116 96 0.35
117 31 0.11
118 3 0.01
120 1 0.00
121 25 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (114 bp):
TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCG
Found at i:983125 original size:27 final size:27
Alignment explanation
Indices: 983095--983180 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
983085 GAGGACTAGA
983095 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
* ** ** * * * **
983122 AAAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACT-TGTGTGGGCTTT
983150 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
983177 AAAA
1 AAAA
983181 AAGAAAGCAT
Statistics
Matches: 38, Mismatches: 20, Indels: 2
0.63 0.33 0.03
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (27 bp):
AAAATGCCACCAACTTGTGTGGGCTTT
Found at i:989464 original size:51 final size:52
Alignment explanation
Indices: 989362--989476 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 52
989352 ACAACGGGAC
*
989362 TAGAGTATCCCCGATTATGGAAAAACGGTGTTCTAAAAAATAAAATCGGGGT
1 TAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAATCGGGGT
* * *
989414 TAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAA-CTGGGGT
1 TAGAGTATCCCCGATTATGGAAAAA-CGATGTTCTAAAAAATAAAATC-GGGGT
* *
989465 TTGTGTATCCCC
1 TAGAGTATCCCC
989477 TCGAAAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.02
51 31 0.56
52 23 0.42
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (52 bp):
TAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAATCGGGGT
Found at i:989543 original size:79 final size:79
Alignment explanation
Indices: 989408--990266 Score: 1423
Period size: 79 Copynumber: 10.9 Consensus size: 79
989398 AAAATAAAAT
* * * * *
989408 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTTGTGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
989473 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * *
989487 TGGGGTTGGAGTATCCCTGATTATGAAAAATTGGCGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
989552 CCCCTCTG-AAATAA
66 CCCCTC-GAAAATAA
* ** *
989566 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
989631 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
989645 CGGGGTTGGAGTATCCCCGACTATGAAAAATTGGTGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
989710 CACCTCGGAAATAA
66 CCCCTCGAAAATAA
989724 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
989789 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * ** *
989803 CGAGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
989868 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
989882 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
989947 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
989961 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
990026 CCCCTTGGAAATAA
66 CCCCTCGAAAATAA
990040 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
990105 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
990119 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
990184 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* *
990198 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
990263 CCCC
66 CCCC
990267 GATTAAAGGA
Statistics
Matches: 728, Mismatches: 50, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
78 1 0.00
79 726 1.00
80 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:990409 original size:155 final size:152
Alignment explanation
Indices: 990192--990634 Score: 416
Period size: 155 Copynumber: 2.9 Consensus size: 152
990182 ATCCCCTCGG
* *
990192 AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTG
1 AAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTG-TGTTTTAGAAATAAAATCGGGGTTG
*
990257 GAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
65 GAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
* * **
990322 AAAGGAAATTTGGTGT-T-TTGA-A
130 AAAGG--AGTTGGAGTATCCCGATA
* * * *
990344 AAATAAAATCG-GGTTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAATTGGG
1 AAAT--AA-CGAGG-TTAGAGTATCCCCGATTATGAAAAATT-GTGTTTTAGAAATAAAATCGGG
* * *** * * * *
990408 GTTAGAGTATCCGCC-ATT-CAGAGAAATCAATATTTTGGAAATAAAGCCGGAGTTGGAGTATCC
61 GTTGGAGTATCC-CCGATTAAAG-GAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT-C
* * * *
990471 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATG
123 CC-C-GA-TTAAAGGAGTTGGAGTAT-CCCGATA
* * * *
990505 AAATAACGAGGTTGGAGTATCCTCGA-T-TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTT
1 AAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATT-GTG-TTTTAGAAATAAAATCGGGGTT
*
990568 GGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGAT
64 GGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAT
990633 TA
129 TA
990635 TGAGCAATTG
Statistics
Matches: 229, Mismatches: 43, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
152 4 0.02
153 2 0.01
154 8 0.03
155 91 0.40
156 21 0.09
157 68 0.30
158 20 0.09
159 9 0.04
160 2 0.01
161 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (152 bp):
AAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGTGTTTTAGAAATAAAATCGGGGTTGG
AGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
AAGGAGTTGGAGTATCCCGATA
Found at i:990511 original size:28 final size:29
Alignment explanation
Indices: 990480--990536 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
990470 CCCTCGGAGG
*
990480 TAACGGGGTTGGAGTATCCCCGA-TGAAA
1 TAACGAGGTTGGAGTATCCCCGATTGAAA
*
990508 TAACGAGGTTGGAGTATCCTCGATTGAAA
1 TAACGAGGTTGGAGTATCCCCGATTGAAA
990537 AATTGGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
TAACGAGGTTGGAGTATCCCCGATTGAAA
Found at i:990644 original size:51 final size:49
Alignment explanation
Indices: 990200--990644 Score: 281
Period size: 51 Copynumber: 8.6 Consensus size: 49
990190 GGAAATAACG
* *
990200 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT-AGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTA-GAGAAATTGGTGTTTTGA-AAATAAAATC
*
990250 GGGGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAATC
1 -GGGTTGGAGTATCCCCGATTAGA-GAAATTGGTGTTTTGAAAATAAAATC
*
990301 GGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAATC
1 -GGGTTGGAGTATCCCCGATTAGA-GAAA-TTGGTGTTTTG-AAAATAAAATC
* * * *
990354 GGGTTTAGAGTATCCCCGATTATG-GAAAGTTAGTGTTTT-AGAAATGAAATTG
1 GGG-TTGGAGTATCCCCGATTA-GAGAAA-TTGGTGTTTTGA-AAAT-AAAATC
* *** * * **
990406 GGGTTAGAGTATCCGCC-ATTCAGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGTTGGAGTATCC-CCGATT-AGAGAAATTGGTGTTTTGAAAATAAAATC
* *** * * ***** *
990456 GGAGTTGGAGTATCCCCTCGGAGGTA-ACGGGGTTGGAGTATCCCCGATGAAATAAC
1 GG-GTTGGAGTAT-CCC-C-GA-TTAGA-GAAATTGGTGTTTTGAAAAT-AAA-ATC
* * *
990512 GAGGTTGGAGTATCCTCGATT-GAAAAATTGGTGTTTTTGGAAATAAAATC
1 G-GGTTGGAGTATCCCCGATTAGAGAAATTGGTG-TTTTGAAAATAAAATC
* *
990562 GGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACC
1 GG-GTTGGAGTATCCCCGATTAGA-GAAATTGGTGTTTTGAAAATAAAATC
*
990613 GAGGTTGGAGTATCCCCGATTATGAGCAATTG
1 G-GGTTGGAGTATCCCCGATTA-GAGAAATTG
990645 AGAAGCTTAA
Statistics
Matches: 310, Mismatches: 55, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
49 1 0.00
50 27 0.09
51 161 0.52
52 62 0.20
53 31 0.10
54 9 0.03
55 6 0.02
56 12 0.04
57 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (49 bp):
GGGTTGGAGTATCCCCGATTAGAGAAATTGGTGTTTTGAAAATAAAATC
Found at i:991620 original size:18 final size:19
Alignment explanation
Indices: 991583--991622 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
991573 GCTCTCGCTA
* *
991583 GAGCTGCTGTTGCGTGCTG
1 GAGCTGCAGTCGCGTGCTG
991602 GAGCTGCAGTCGC-TGCTG
1 GAGCTGCAGTCGCGTGCTG
991620 GAG
1 GAG
991623 TTGCTGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.10, C:0.23, G:0.42, T:0.25
Consensus pattern (19 bp):
GAGCTGCAGTCGCGTGCTG
Found at i:991632 original size:43 final size:43
Alignment explanation
Indices: 991585--991680 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
991575 TCTCGCTAGA
*
991585 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTAGAGCTGCAGTCGCTGCTGGAGTTGCT
*
991628 GCTGCTGTTGCGTGCTAGAGCTGCAGTCGTTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTAGAGCTGCAGTCGCTGCTGGAGTTGCT
*
991671 GCTACTGTTG
1 GCTGCTGTTG
991681 GAGCTGCTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.08, C:0.22, G:0.38, T:0.32
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTAGAGCTGCAGTCGCTGCTGGAGTTGCT
Found at i:991634 original size:18 final size:18
Alignment explanation
Indices: 991559--991634 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
991549 AAATTGCTAC
*
991559 CTGCTGGAGTTGCTGCT-
1 CTGCTGGAGCTGCTGCTG
* *
991576 CTCGCTAGAGCTGCTGTTG
1 CT-GCTGGAGCTGCTGCTG
*
991595 CGTGCTGGAGCTGCAG-TCG
1 C-TGCTGGAGCTGCTGCT-G
*
991614 CTGCTGGAGTTGCTGCTG
1 CTGCTGGAGCTGCTGCTG
991632 CTG
1 CTG
991635 TTGCGTGCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.04
18 29 0.62
19 15 0.32
20 1 0.02
ACGTcount: A:0.08, C:0.25, G:0.37, T:0.30
Consensus pattern (18 bp):
CTGCTGGAGCTGCTGCTG
Found at i:992071 original size:26 final size:26
Alignment explanation
Indices: 992042--992114 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
992032 AATTGCAATG
992042 TTTATTTCCTTTCCCATGCTGCATTT
1 TTTATTTCCTTTCCCATGCTGCATTT
992068 TTTATTTCCTTTCCCATGCTGCATTT
1 TTTATTTCCTTTCCCATGCTGCATTT
*
992094 TCTATTTCCTTTCCCATGCTG
1 TTTATTTCCTTTCCCATGCTG
992115 TAAGTTTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.11, C:0.29, G:0.08, T:0.52
Consensus pattern (26 bp):
TTTATTTCCTTTCCCATGCTGCATTT
Found at i:992158 original size:18 final size:17
Alignment explanation
Indices: 992137--992179 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
992127 TTTGTAGGTT
992137 TTTTTTTTAATTTATTTA
1 TTTTTTTT-ATTTATTTA
992155 TTTTTATTTATTTATTTA
1 TTTTT-TTTATTTATTTA
992173 TTTTTTT
1 TTTTTTT
992180 ATGCATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.08
18 19 0.79
19 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTATTTATTTA
Found at i:992163 original size:14 final size:15
Alignment explanation
Indices: 992140--992171 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
992130 GTAGGTTTTT
992140 TTTTTAATTTATTTA
1 TTTTTAATTTATTTA
992155 TTTTT-ATTTATTTA
1 TTTTTAATTTATTTA
992169 TTT
1 TTT
992172 ATTTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTAATTTATTTA
Found at i:992365 original size:12 final size:13
Alignment explanation
Indices: 992348--992379 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
992338 AAGTGTCTAC
992348 AAATATAAAT-AT
1 AAATATAAATAAT
992360 AAATATAAATAAT
1 AAATATAAATAAT
992373 AAA-ATAA
1 AAATATAA
992380 TTTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATAAATAAT
Found at i:994681 original size:20 final size:20
Alignment explanation
Indices: 994656--994701 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
994646 AAGAATTGAA
*
994656 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
994676 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
994696 GAGGGA
1 GAGGGA
994702 GCCTCCTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:994775 original size:24 final size:24
Alignment explanation
Indices: 994748--994817 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
994738 AATAAAAATT
*
994748 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAAAA
*
994772 AGCCA-TAATTTTTGACAAACAAAA
1 AGCCACCAA-TTTTGACAAACAAAA
*
994796 AGGAACCACCATTTTTGACAAA
1 A-G--CCACCAATTTTGACAAA
994818 TACAAAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 2 0.05
24 20 0.54
25 1 0.03
27 13 0.35
28 1 0.03
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAAAA
Found at i:994817 original size:27 final size:27
Alignment explanation
Indices: 994750--994846 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
994740 TAAAAATTAG
* *
994750 CCACCAATTTTGACAAACAACAA-G--
1 CCACCATTTTTGACAAACAAAAAGGAA
**
994774 CCATAATTTTTGACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* * *
994801 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGGAA
*
994828 CCACCATTGTTGACAAACA
1 CCACCATTTTTGACAAACA
994847 CATGGTGGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 19 0.32
25 1 0.02
27 39 0.66
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:994865 original size:24 final size:25
Alignment explanation
Indices: 994834--994891 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
994824 GTAACCACCA
*
994834 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
*
994858 TTGTTGACAAACACAAAGGGTGGTTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
994884 TTGTTGAC
1 TTGTTGAC
994892 TAGCCACCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.47
26 16 0.53
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:996781 original size:21 final size:22
Alignment explanation
Indices: 996755--996800 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
996745 ATCTGTTGAA
* *
996755 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGTGGAGTACT
996776 ACTCCACCTGCTGTGGAGTACT
1 ACTCCACCTGCTGTGGAGTACT
996798 ACT
1 ACT
996801 TGTCTGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (22 bp):
ACTCCACCTGCTGTGGAGTACT
Found at i:999278 original size:20 final size:20
Alignment explanation
Indices: 999253--999298 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
999243 AAGAATTGAA
*
999253 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
999273 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
999293 GAGGGA
1 GAGGGA
999299 GCCTCCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:999372 original size:24 final size:24
Alignment explanation
Indices: 999345--999414 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
999335 AATAAAAATT
*
999345 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAAAA
*
999369 AGCCA-TAATTTTTGACAAACAAAA
1 AGCCACCAA-TTTTGACAAACAAAA
*
999393 AGGAACCACCATTTTTGACAAA
1 A-G--CCACCAATTTTGACAAA
999415 TACAAAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 2 0.05
24 20 0.54
25 1 0.03
27 13 0.35
28 1 0.03
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAAAA
Found at i:999414 original size:27 final size:27
Alignment explanation
Indices: 999347--999443 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
999337 TAAAAATTAG
* *
999347 CCACCAATTTTGACAAACAACAA-G--
1 CCACCATTTTTGACAAACAAAAAGGAA
**
999371 CCATAATTTTTGACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* * *
999398 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGGAA
*
999425 CCACCATTGTTGACAAACA
1 CCACCATTTTTGACAAACA
999444 CATGGTGGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 19 0.32
25 1 0.02
27 39 0.66
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:999462 original size:24 final size:25
Alignment explanation
Indices: 999431--999488 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
999421 GTAACCACCA
*
999431 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
*
999455 TTGTTGACAAACACAAAGGGTGGTTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
999481 TTGTTGAC
1 TTGTTGAC
999489 TAGCCACCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.47
26 16 0.53
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:1001149 original size:12 final size:12
Alignment explanation
Indices: 1001132--1001165 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1001122 AATTTATTTG
1001132 AAAAATTATAAA
1 AAAAATTATAAA
**
1001144 GGAAATTATAAA
1 AAAAATTATAAA
1001156 AAAAATTATA
1 AAAAATTATA
1001166 CCAAATTGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:1004765 original size:4 final size:4
Alignment explanation
Indices: 1004756--1004783 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1004746 TTCCTCTGTC
1004756 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1004784 GTACTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:1005357 original size:15 final size:16
Alignment explanation
Indices: 1005339--1005375 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
1005329 TTGAAATTTT
1005339 TAAAAAATAAA-AAAA
1 TAAAAAATAAACAAAA
1005354 TAAAAAATAAACTAAAA
1 TAAAAAATAAAC-AAAA
1005371 TAAAA
1 TAAAA
1005376 TAATGCAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAAAATAAACAAAA
Found at i:1007339 original size:15 final size:15
Alignment explanation
Indices: 1007319--1007350 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1007309 TCCATGATAC
1007319 AAGTTTAGACCTGTA
1 AAGTTTAGACCTGTA
1007334 AAGTTTAGACCTGTA
1 AAGTTTAGACCTGTA
1007349 AA
1 AA
1007351 CATTTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (15 bp):
AAGTTTAGACCTGTA
Found at i:1007358 original size:16 final size:15
Alignment explanation
Indices: 1007322--1007358 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1007312 ATGATACAAG
*
1007322 TTTAGACCTGTAAAG
1 TTTAGACCTGTAAAA
1007337 TTTAGACCTGTAAACA
1 TTTAGACCTGTAAA-A
1007353 TTTAGA
1 TTTAGA
1007359 AAACCCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (15 bp):
TTTAGACCTGTAAAA
Found at i:1014624 original size:28 final size:28
Alignment explanation
Indices: 1014448--1015731 Score: 1233
Period size: 28 Copynumber: 46.5 Consensus size: 28
1014438 CCACGATTTA
* * *
1014448 GTGGCATTTCTTTTTAAGTCCACAACTCT
1 GTGGCA-TCCTTTTAAAGTCCACAACTCC
* *
1014477 GTAGCAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1014504 GTGGTAAT--TTTTTAAGTCCACAACTTC
1 GTGG-CATCCTTTTAAAGTCCACAACTCC
* *
1014531 GTGGTAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1014558 GTGGCATCC-TTTGAAGTCC-CTAACT-C
1 GTGGCATCCTTTTAAAGTCCAC-AACTCC
* *
1014584 GTGGCATCCTTTTAAAGTCCATAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1014612 GTGGCACCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1014639 ATGGCACCCTTTT-AAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1014666 GTGGCACCCTTTT-AAGTCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1014693 GTGGCAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1014720 GTGGCA-CCCTTTAAAGTTCACAGCTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1014747 GTGGCATCCTTTTAAAGTCCATAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1014775 ATGGCATCCTTTTAAAGTCTACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1014803 GTGGCA-CACTTTT-AAGTCCACAACTCC
1 GTGGCATC-CTTTTAAAGTCCACAACTCC
* *
1014830 GTGGTAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* **
1014857 GTGGCAACCTTTTAAAGTTTACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1014885 GTGGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1014913 GCGGCTTCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1014941 GTGGCATCCTTTTAAAGTTCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * **
1014969 GTGGCACCCTTTT-AAGTCCATAACTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1014996 GTGGCACCCTTTT-AAGTCCACAGCTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1015023 GTGGTAACCTTTT-AAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1015050 GTGGCATCCTTTTAAA-TCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1015077 GTGGTATCCTTTTAAAGTCCACAAATCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1015105 ATGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1015133 GTGGCA-CACTTTT-AAGTCCACAGCTCC
1 GTGGCATC-CTTTTAAAGTCCACAACTCC
*
1015160 GTGGCAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1015187 GTGGCAACCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1015215 GTGGCATTCTTTTAAAGTCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1015243 GTGGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
** * * *
1015271 GTGGCATTTTTTTAAAGTCTATAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
**
1015299 GTGGCATCCTTTTAAAGTCCACAACTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1015327 GTGGAATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1015355 GTGGGATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1015383 GTGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
1015410 GTGGCACCCTTTCAAAGTCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
1015438 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * **
1015466 GTGGCATCTTTTTCAAAGCCCACGAA-TTA
1 GTGGCATCCTTTT-AAAGTCCAC-AACTCC
* * *
1015495 GTGGCA-CTCTTTCAAAGCCCACAAGC-CA
1 GTGGCATC-CTTTTAAAGTCCACAA-CTCC
* * * *
1015523 GTGGCAT-CTTTTCTAAGCCCACAAGTCA
1 GTGGCATCCTTTT-AAAGTCCACAACTCC
* * * * *
1015551 GTGGTATCCTTTTAGAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
1015579 GTGGCATCCTTTTAGAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
1015607 ATGGCATCCTTTTAGAGCCCACAAATCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1015635 GTGGCATCTTTTTCAAAGCCCACGAA-TCA
1 GTGGCATCCTTTT-AAAGTCCAC-AACTCC
* * * * * *
1015664 GTGACACCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
1015692 GTGGCAT-CTTTTCTAAGCCCACAAGTCA
1 GTGGCATCCTTTT-AAAGTCCACAACTCC
1015720 GTGGCAT-CTTTT
1 GTGGCATCCTTTT
1015732 CATAGCCCAT
Statistics
Matches: 1088, Mismatches: 134, Indels: 67
0.84 0.10 0.05
Matches are distributed among these distances:
26 24 0.02
27 416 0.38
28 594 0.55
29 50 0.05
30 4 0.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (28 bp):
GTGGCATCCTTTTAAAGTCCACAACTCC
Found at i:1015037 original size:330 final size:329
Alignment explanation
Indices: 1014457--1015471 Score: 1398
Period size: 330 Copynumber: 3.1 Consensus size: 329
1014447 AGTGGCATTT
* * * **
1014457 CTTTTTAAGTCCACAACTCTGTAGCA-ACCTTTTAAGTCCACAACTCCGTGGTAATTTTTTAAGT
1 CTTTTAAAGTCCACAACTCCGTGGCACA-CTTTTAAGTCCACAACTCCGTGGTAACCTTTTAAGT
* * *
1014521 CCACAACTTCGTGGTAACCTTTT-AAGTCCACAACTCCGTGGCATCC-TTTGAAGTCC-CTAACT
65 CCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCAC-AACT
* * * *
1014583 CGTGGCATCCTTTTAAAGTCCATAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCATGGCACC
129 CGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTTCACAACTCCGTGGCACC
* *
1014647 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCCGTGGCAACCTTTTAAGTCC
194 CTTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC
* * * *
1014712 ACAACTCCGTGGCACCCTTTAAAGTTCACAGCTCCGTGGCATCCTTTTAAAGTCCATAACTCTAT
259 ACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAATCTAT
1014777 GGCATC
324 GGCATC
*
1014783 CTTTTAAAGTCTACAACTCCGTGGCACACTTTTAAGTCCACAACTCCGTGGTAACCTTTTAAGTC
1 CTTTTAAAGTCCACAACTCCGTGGCACACTTTTAAGTCCACAACTCCGTGGTAACCTTTTAAGTC
**
1014848 CACAACTCCGTGGCAACCTTTTAAAGTTTACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCT
66 CACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTC-
* * *
1014913 GCGGCTTCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTTCACAACTCCGTGGCACCC
130 GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTTCACAACTCCGTGGCACCC
* * * *
1014978 TTTTAAGTCCATAACTTTGTGGCACCCTTTTAAGTCCACAGCTTCGTGGTAACCTTTTAAGTCCA
195 TTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCA
* * *
1015043 CAACTCTGTGGCATCCTTTTAAA-TCCACAACTCCGTGGTATCCTTTTAAAGTCCACAAATCTAT
260 CAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAATCTAT
1015107 GGCATC
324 GGCATC
* *
1015113 CTTTTAAAGTCCACAACTCCGTGGCACACTTTTAAGTCCACAGCTCCGTGGCAACCTTTTAAGTC
1 CTTTTAAAGTCCACAACTCCGTGGCACACTTTTAAGTCCACAACTCCGTGGTAACCTTTTAAGTC
* *
1015178 CACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCATAACTCC
66 CACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACT-C
** * * *
1015243 GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATTTTTTTAAAG-TCTATAACTTCGTGGCATC
130 GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTTC-ACAACTCCGTGGCACC
* * * *
1015307 CTTTTAAAGTCCACAACTTTGTGGAATCCTTTTAAAGTCCACAACTCCGTGGGATCCTTTTAAAG
194 CTTTT-AAGTCCACAACTTTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAACCTTTT-AAG
* * * * *
1015372 TCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAAGTCCACAAGTC
256 TCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAATC
*
1015437 -AGTGGCACC
321 TA-TGGCATC
* * * *
1015446 CTTTCAAAGCCCACAAGTCAGTGGCA
1 CTTTTAAAGTCCACAACTCCGTGGCA
1015472 TCTTTTTCAA
Statistics
Matches: 609, Mismatches: 66, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
326 77 0.13
327 22 0.04
328 14 0.02
329 39 0.06
330 313 0.51
331 33 0.05
332 30 0.05
333 81 0.13
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (329 bp):
CTTTTAAAGTCCACAACTCCGTGGCACACTTTTAAGTCCACAACTCCGTGGTAACCTTTTAAGTC
CACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCG
TGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTTCACAACTCCGTGGCACCCT
TTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCAC
AACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAATCTATGG
CATC
Found at i:1015612 original size:84 final size:84
Alignment explanation
Indices: 1014538--1016017 Score: 667
Period size: 84 Copynumber: 17.8 Consensus size: 84
1014528 TTCGTGGTAA
* * * * * * *
1014538 CCTTT-TAAGTCCACAACTCCGTGGCATCC-TTTGAAGTCCC-TAACTC-GTGGCATCCTTTTAA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAG-CCCACAAGTCAGTGGCATCCTTTCAA
* * * * *
1014599 AGTCCATAACTCTGTGGCAC
65 AGCCCACAAGTCAGTGGCAT
* * * * * * * *
1014619 CCTTT-TAAGTCCACAACTCCA-TGGCACCCTTTT-AAGTCCACAACTCTGTGGCACCCTTT-TA
1 CCTTTCTAAGCCCACAAGT-CAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * * * *
1014680 AGTCCATAACTCCGTGGCAA
65 AGCCCACAAGTCAGTGGCAT
* * * * ** * *
1014700 CCTTT-TAAGTCCACAACTCCGTGGCA-CCCTTTAAAGTTCAC-AGCTCCGTGGCATCCTTTTAA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAG-TCAGTGGCATCCTTTCAA
* * *
1014762 AGTCCATAACTCTA-TGGCAT
65 AGCCCACAAGTC-AGTGGCAT
* * * * * * * * * *
1014782 CCTTT-TAAAGTCTACAACTCCGTGGCA-CACTTTT-AAGTCCACAACTCCGTGGTAACCTTT-T
1 CCTTTCT-AAGCCCACAAGTCAGTGGCATC-CTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCA
* * * *
1014843 AAGTCCACAACTCCGTGGCAA
64 AAGCCCACAAGTCAGTGGCAT
*** * * * * * * * *
1014864 CCTTT-TAAAGTTTACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGCGGCTTCCTTTTAA
1 CCTTTCT-AAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * *
1014928 AGTCCACAACTCCGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
** * * * * * * ** * *
1014948 CCTTT-TAAAGTTCACAACTCCGTGGCACCCTTTT-AAGTCCATAACTTTGTGGCACCCTTT-TA
1 CCTTTCT-AAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * *
1015010 AGTCCAC-AGCTTC-GTGGTAA
65 AGCCCACAAG--TCAGTGGCAT
* * * * * * * *
1015030 CCTTT-TAAGTCCACAACTCTGTGGCATCCTTTTAAA-TCCACAACTCCGTGGTATCCTTTTAAA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* *
1015093 GTCCACAAATCTA-TGGCAT
66 GCCCACAAGTC-AGTGGCAT
* * * * * *
1015112 CCTTT-TAAAGTCCACAACTCCGTGGCA-CACTTTT-AAGTCCAC-AGCTCCGTGGCAACCTTT-
1 CCTTTCT-AAGCCCACAAGTCAGTGGCATC-CTTTTAAAGCCCACAAG-TCAGTGGCATCCTTTC
* * * * *
1015172 TAAGTCCACAACTCCGTGGCAA
63 AAAGCCCACAAGTCAGTGGCAT
* * * * * * * * *
1015194 CCTTT-TAAAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAA
1 CCTTTCT-AAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * *
1015258 AGTCCACAACTCTGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* * * * * * * * ** * *
1015278 -TTTTTTAAAGTCTATAACTTC-GTGGCATCCTTTTAAAGTCCACAACTTTGTGGAATCCTTTTA
1 CCTTTCT-AAGCCCACAA-GTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCA
* * * *
1015341 AAGTCCACAACTCCGTGGGAT
64 AAGCCCACAAGTCAGTGGCAT
* * * * * * *
1015362 CCTTT-TAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTCAA
1 CCTTTCT-AAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* *
1015425 AGTCCACAAGTCAGTGGCAC
65 AGCCCACAAGTCAGTGGCAT
* * *
1015445 CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACGAA-TTAGTGGCA-CTCTTTC
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTT-AAAGCCCAC-AAGTCAGTGGCATC-CTTTC
*
1015508 AAAGCCCACAAGCCAGTGGCAT
63 AAAGCCCACAAGTCAGTGGCAT
* * * * *
1015530 CTTTTCTAAGCCCACAAGTCAGTGGTATCCTTTTAGAGCCCACAAGTCAGTGGCATCCTTTTAGA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
*
1015595 GCCCACAAGTCAATGGCAT
66 GCCCACAAGTCAGTGGCAT
* * * *
1015614 CCTTT-TAGAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACGAA-TCAGTGACACCCTTTC
1 CCTTTCTA-AGCCCACAAGTCAGTGGCATCCTTTT-AAAGCCCAC-AAGTCAGTGGCATCCTTTC
1015677 AAAGCCCACAAGTCAGTGGCAT
63 AAAGCCCACAAGTCAGTGGCAT
* * * * *
1015699 CTTTTCTAAGCCCACAAGTCAGTGGCAT-CTTTTCATAGCCCATAAGTCAATGGCA-CATTTTCA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTT-AAAGCCCACAAGTCAGTGGCATC-CTTTCA
* * * *
1015762 TAGCCTACAAGTCAATGGTA-
64 AAGCCCACAAGTCAGTGGCAT
** * * * * *
1015782 CCTTT-TAAG-TTACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCGGTGGCATCCTTTCAGA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* * *
1015845 GCCCATAAATCAGTGGTA-
66 GCCCACAAGTCAGTGGCAT
* ** * * * * * *
1015863 CCTTTTCAAAGCCCATGAGTTAGTGGTATCCTTTCAAAGCTCACAAGTTAGTGGCATCCTTCCAA
1 CC-TTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* *
1015928 AGCCCACGAGGCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* * ** * * * * *
1015948 CCTTCCAAAGCCCGTAAGTCAGAGGCA-CCTTCTCAAAACCTACAAGTCAGTGGCATCCTTTTAA
1 CCTTTCTAAGCCCACAAGTCAGTGGCATCCTT-TTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
*
1016012 CGCCCA
65 AGCCCA
1016018 TACAAGTTGG
Statistics
Matches: 1155, Mismatches: 188, Indels: 109
0.80 0.13 0.08
Matches are distributed among these distances:
80 9 0.01
81 192 0.17
82 191 0.17
83 240 0.21
84 377 0.33
85 140 0.12
86 6 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (84 bp):
CCTTTCTAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
GCCCACAAGTCAGTGGCAT
Found at i:1015707 original size:169 final size:167
Alignment explanation
Indices: 1015035--1015951 Score: 615
Period size: 169 Copynumber: 5.5 Consensus size: 167
1015025 GGTAACCTTT
* * * ** * * * * *
1015035 TAAGTCCACAACTCTGTGGCATCCTTTTAAATCCACAACTCCGTGGTATCCTTTTAAAGTCCACA
1 TAAGCCCACAAGTCAGTGGCATCCTTTTAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
* * * * * * * * *
1015100 AATCTATGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CACTTTT--AAGTCCAC-AGCTCCG
66 AGTCAATGGCATCCTTTT-AAGCCCACAAGTCAGTGGCATC-TTTTTCAAAGCCCACGA-ATCAG
* * * * * *
1015161 TGGCAACCTTT-TAAGTCCACAACTCCGTGGCAACCTTTT-
128 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ATCTTTTC
* * * * * * * * * * *
1015200 AAAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAAGTCCAC
1 TAAGCCCACAAGTCAGTGGCATCCTTTT-AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
* ** ** * * * * * * **
1015265 AACTCTGTGGCATTTTTTTAAAGTCTATAACTTC-GTGGCATCCTTTT-AAAGTCCAC-AACTTT
65 AAGTCAATGGCATCCTTTT-AAGCCCACAA-GTCAGTGGCATCTTTTTCAAAGCCCACGAA-TCA
* * * * * * *
1015327 GTGGAATCCTTTTAAAGTCCACAACTCCGTGGGATCCTTTT-
127 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTC
* * * * * * * * *
1015368 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAAGTCCACA
1 TAAGCCCACAAGTCAGTGGCATCCTTTTAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
* * * *
1015433 AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACGAATTAGTG
66 AGTCAATGGCATCCTTT-TAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACGAATCAGTG
* *
1015498 GCACTCTTTCAAAGCCCACAAGCCAGTGGCATCTTTTC
130 GCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * *
1015536 TAAGCCCACAAGTCAGTGGTATCCTTTTAGAGCCCACAAGTCAGTGGCATCCTTTTAGAGCCCAC
1 TAAGCCCACAAGTCAGTGGCATCCTTTTA-AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
*
1015601 AAGTCAATGGCATCCTTTTAGAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACGAATCAGT
65 AAGTCAATGGCATCCTTTTA-AGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACGAATCAGT
*
1015666 GACACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
129 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * * * *
1015705 TAAGCCCACAAGTCAGTGGCAT-CTTTTCATAGCCCATAAGTCAATGGCA-CATTTTCATAGCCT
1 TAAGCCCACAAGTCAGTGGCATCCTTTT-A-AGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCC
* ** * ** *
1015768 ACAAGTCAATGGTA-CCTTTTAAG-TTACAAGTCAGTAGCA-CCCTTTCAAAGCCCAC-AAGTCG
63 ACAAGTCAATGGCATCCTTTTAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACGAA-TCA
* * * * * *
1015829 GTGGCATCCTTTCAGAGCCCATAAATCAGTGGTACCTTTTC
127 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* ** * * * * * *
1015870 AAAGCCCATGAGTTAGTGGTATCCTTTCAAAGCTCACAAGTTAGTGGCATCCTTCCAAAGCCCAC
1 TAAGCCCACAAGTCAGTGGCATCCTTT-TAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
1015935 GAGGCAGTGGCATCCTT
65 AAGTCAATGGCATCCTT
1015952 CCAAAGCCCG
Statistics
Matches: 623, Mismatches: 108, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
164 2 0.00
165 125 0.20
166 92 0.15
167 96 0.15
168 124 0.20
169 184 0.30
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (167 bp):
TAAGCCCACAAGTCAGTGGCATCCTTTTAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
AGTCAATGGCATCCTTTTAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACGAATCAGTGG
CACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
Found at i:1015732 original size:28 final size:28
Alignment explanation
Indices: 1015040--1016017 Score: 640
Period size: 28 Copynumber: 35.1 Consensus size: 28
1015030 CCTTTTAAGT
* * * *
1015040 CCACAACTCTGTGGCATCCTTTTAAA-T
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
1015067 CCACAACTCCGTGGTATCCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1015095 CCACAAATCTA-TGGCATCCTTTTAAAGT
1 CCACAAGTC-AGTGGCATCCTTTCAAAGC
* * * *
1015123 CCACAACTCCGTGGCA-CACTTT-TAAGT
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
* * * *
1015150 CCAC-AGCTCCGTGGCAACCTTT-TAAGT
1 CCACAAG-TCAGTGGCATCCTTTCAAAGC
* * * * *
1015177 CCACAACTCCGTGGCAACCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
1015205 CCACAACTCCGTGGCATTCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
1015233 CCATAACTCCGTGGCATCCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * ** * *
1015261 CCACAACTCTGTGGCATTTTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
1015289 CTATAACTTC-GTGGCATCCTTTTAAAGT
1 CCACAA-GTCAGTGGCATCCTTTCAAAGC
* ** * * *
1015317 CCACAACTTTGTGGAATCCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
1015345 CCACAACTCCGTGGGATCCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
1015373 CCACAACTCCGTGGCATCCTTT-TAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
1015400 CCACAACTCCGTGGCACCCTTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
1015428 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
1015456 CCACAAGTCAGTGGCATCTTTTTCAAAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
*
1015485 CCACGAA-TTAGTGGCA-CTCTTTCAAAGC
1 CCAC-AAGTCAGTGGCATC-CTTTCAAAGC
* * *
1015513 CCACAAGCCAGTGGCATCTTTTCTAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1015541 CCACAAGTCAGTGGTATCCTTTTAGAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
1015569 CCACAAGTCAGTGGCATCCTTTTAGAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1015597 CCACAAGTCAATGGCATCCTTTTAGAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
1015625 CCACAAATCAGTGGCATCTTTTTCAAAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
* *
1015654 CCACGAA-TCAGTGACACCCTTTCAAAGC
1 CCAC-AAGTCAGTGGCATCCTTTCAAAGC
* *
1015682 CCACAAGTCAGTGGCATCTTTTCTAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
1015710 CCACAAGTCAGTGGCATCTTTTCATAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
1015738 CCATAAGTCAATGGCA-CATTTTCATAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
* * * *
1015766 CTACAAGTCAATGGTA-CCTTT-TAAG-
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
** * *
1015791 TTACAAGTCAGTAGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
1015819 CCACAAGTCGGTGGCATCCTTTCAGAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1015847 CCATAAATCAGTGGTA-CCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
** * *
1015875 CCATGAGTTAGTGGTATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1015903 TCACAAGTTAGTGGCATCCTTCCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1015931 CCACGAGGCAGTGGCATCCTTCCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
** * *
1015959 CCGTAAGTCAGAGGCA-CCTTCTCAAAAC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* * *
1015987 CTACAAGTCAGTGGCATCCTTTTAACGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
1016015 CCA
1 CCA
1016018 TACAAGTTGG
Statistics
Matches: 805, Mismatches: 120, Indels: 51
0.82 0.12 0.05
Matches are distributed among these distances:
25 12 0.01
26 8 0.01
27 113 0.14
28 618 0.77
29 50 0.06
30 4 0.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:1016031 original size:30 final size:32
Alignment explanation
Indices: 1015988--1016072 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
1015978 TCTCAAAACC
** *
1015988 TACAAGTCAGTGGCATCCTT-T-TAACGCCCA
1 TACAAGTTGGTGGCAACCTTCTCTAACGCCCA
* *
1016018 TACAAGTTGGTGGCAACTTTCTCTAATGCCCA
1 TACAAGTTGGTGGCAACCTTCTCTAACGCCCA
*
1016050 CACAAGTTGGTGGCAACCCTTCT
1 TACAAGTTGGTGGCAA-CCTTCT
1016073 AAACCTAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 16 0.36
31 1 0.02
32 23 0.51
33 5 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (32 bp):
TACAAGTTGGTGGCAACCTTCTCTAACGCCCA
Found at i:1016826 original size:20 final size:20
Alignment explanation
Indices: 1016801--1016840 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1016791 TTTTTACCTA
1016801 GATGTATCGATACATTTTTC
1 GATGTATCGATACATTTTTC
1016821 GATGTATCGATACATTTTTC
1 GATGTATCGATACATTTTTC
1016841 ATACATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
GATGTATCGATACATTTTTC
Found at i:1016888 original size:20 final size:20
Alignment explanation
Indices: 1016863--1016940 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
1016853 TTTTTACCCA
* *
1016863 AATGTATCGATATATTTTTC
1 AATGTATCGATACATTCTTC
* *** *
1016883 AATGTATTGATACATGGATG
1 AATGTATCGATACATTCTTC
1016903 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
1016923 AATGTATCAATACATTCT
1 AATGTATCGATACATTCT
1016941 ACCCAGATGT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:1021128 original size:20 final size:20
Alignment explanation
Indices: 1021103--1021143 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1021093 TGTTCAAGGG
1021103 AAAAATATACATCATAGTAC
1 AAAAATATACATCATAGTAC
1021123 AAAAATATACATCATAGTAC
1 AAAAATATACATCATAGTAC
1021143 A
1 A
1021144 GTTGGTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAATATACATCATAGTAC
Found at i:1021359 original size:14 final size:14
Alignment explanation
Indices: 1021331--1021378 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
1021321 AGTTAAGTAT
*
1021331 ATAAATA-CTTTAA
1 ATAAATATCGTTAA
*
1021344 ATTAATATCGTTAA
1 ATAAATATCGTTAA
1021358 ATAAATATCGTTAA
1 ATAAATATCGTTAA
1021372 ATAAATA
1 ATAAATA
1021379 CTAATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
13 6 0.19
14 25 0.81
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (14 bp):
ATAAATATCGTTAA
Found at i:1022544 original size:29 final size:30
Alignment explanation
Indices: 1022483--1022545 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
1022473 TTATTACAAT
* *
1022483 ATTTT-TTTTTCTTTTTCAAAATGCCTATC
1 ATTTTATTTTTATTTGTCAAAATGCCTATC
*
1022512 -TTTTATTTTTATTTGTCAAAAT-CCTCTC
1 ATTTTATTTTTATTTGTCAAAATGCCTATC
1022540 ATTTTA
1 ATTTTA
1022546 GGTTTTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.22, C:0.16, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTTTATTTTTATTTGTCAAAATGCCTATC
Found at i:1023263 original size:19 final size:20
Alignment explanation
Indices: 1023236--1023286 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1023226 ACATTATACT
*
1023236 TTGTGTCGATACATACTC-A
1 TTGTATCGATACATACTCAA
*
1023255 TTGTATCGATACATATTCAA
1 TTGTATCGATACATACTCAA
1023275 TTGTATCGATAC
1 TTGTATCGATAC
1023287 TTGAAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATACTCAA
Found at i:1023905 original size:20 final size:20
Alignment explanation
Indices: 1023861--1023918 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1023851 ATTTCAACGA
***
1023861 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
1023881 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
1023901 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
1023919 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:1024118 original size:52 final size:52
Alignment explanation
Indices: 1023990--1024110 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
1023980 CACCGATCTT
*
1023990 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCAATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCAATACACTATAAAA
* * *
1024042 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCAATACACTATAAAA
1024094 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1024111 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCAATACACTATAAAA
Found at i:1027437 original size:23 final size:23
Alignment explanation
Indices: 1027405--1027448 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1027395 GCATTCAACC
*
1027405 TTGGGTTATAATCTCTT-AAGAAT
1 TTGGGGTATAAT-TCTTGAAGAAT
1027428 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTATAATTCTTGAAGA
1027449 GATTATAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGGGGTATAATTCTTGAAGAAT
Found at i:1031672 original size:18 final size:18
Alignment explanation
Indices: 1031649--1031703 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
1031639 TCCTCTATTT
1031649 CCATATCATGTTTGATGA
1 CCATATCATGTTTGATGA
*
1031667 CCATATTC-T-ATT--T--
1 CCATA-TCATGTTTGATGA
1031680 CCATATCATGTTTGATGA
1 CCATATCATGTTTGATGA
1031698 CCATAT
1 CCATAT
1031704 ATGCTCAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 2 0.07
13 6 0.21
14 2 0.07
15 1 0.04
16 1 0.04
17 2 0.07
18 12 0.43
19 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (18 bp):
CCATATCATGTTTGATGA
Found at i:1031677 original size:31 final size:31
Alignment explanation
Indices: 1031642--1031703 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1031632 TTGAAAATCC
1031642 TCTATTTCCATATCATGTTTGATGACCATAT
1 TCTATTTCCATATCATGTTTGATGACCATAT
1031673 TCTATTTCCATATCATGTTTGATGACCATAT
1 TCTATTTCCATATCATGTTTGATGACCATAT
1031704 ATGCTCAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (31 bp):
TCTATTTCCATATCATGTTTGATGACCATAT
Found at i:1032388 original size:46 final size:47
Alignment explanation
Indices: 1032338--1032432 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
1032328 TCACTCCTAG
*
1032338 ATAGA-TTTGGTGGTTTAGGTTCTACAAATAACATCTTCATTTCAAA
1 ATAGATTTTGGTGGTTTAGGTTCTACAAAAAACATCTTCATTTCAAA
* *
1032384 ATAGATTTTGGTGGTTTAGGTTTTACAAAAAACATCTTTATTTCAAA
1 ATAGATTTTGGTGGTTTAGGTTCTACAAAAAACATCTTCATTTCAAA
1032431 AT
1 AT
1032433 CTAAGCCTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 5 0.11
47 40 0.89
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
ATAGATTTTGGTGGTTTAGGTTCTACAAAAAACATCTTCATTTCAAA
Found at i:1034651 original size:19 final size:20
Alignment explanation
Indices: 1034627--1034681 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
1034617 ATATCGATAC
1034627 ATTGTATCGATACATGC-TT
1 ATTGTATCGATACATGCTTT
*
1034646 ATTGTATCGATACATACTTT
1 ATTGTATCGATACATGCTTT
1034666 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1034682 AAGCTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTGTATCGATACATGCTTT
Found at i:1034744 original size:13 final size:13
Alignment explanation
Indices: 1034726--1034751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1034716 GATACATAGG
1034726 ACATTGTATCGAT
1 ACATTGTATCGAT
1034739 ACATTGTATCGAT
1 ACATTGTATCGAT
1034752 GCATGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1034769 original size:33 final size:33
Alignment explanation
Indices: 1034710--1034772 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1034700 CTAAGTGAAA
* *
1034710 TGTATCGATACATAGGACATTGTATCGATACAT
1 TGTATCGATACATAAGACATTATATCGATACAT
*
1034743 TGTATCGATGCATGAAGA-ATTATATCGATA
1 TGTATCGATACAT-AAGACATTATATCGATA
1034773 AATTATGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATAAGACATTATATCGATACAT
Found at i:1039417 original size:2 final size:2
Alignment explanation
Indices: 1039410--1039455 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
1039400 AATGGTTTTC
* * *
1039410 AT AT AT AT AT AT AT AT AT AT AT AA AG AT AT TT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1039451 AT AT A
1 AT AT A
1039456 AAGATATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1039453 original size:23 final size:24
Alignment explanation
Indices: 1039412--1039464 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
1039402 TGGTTTTCAT
*
1039412 ATATATATATATATATATATAAAG
1 ATATTTATATATATATATATAAAG
1039436 ATATTTATAT-TATATATATAAAG
1 ATATTTATATATATATATATAAAG
1039459 ATATTT
1 ATATTT
1039465 TCTAACACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATATTTATATATATATATATAAAG
Found at i:1040493 original size:13 final size:13
Alignment explanation
Indices: 1040475--1040499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1040465 CAATTCATCA
1040475 TGTATCGATACAT
1 TGTATCGATACAT
1040488 TGTATCGATACA
1 TGTATCGATACA
1040500 AAGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1040599 original size:19 final size:19
Alignment explanation
Indices: 1040549--1040604 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1040539 CTGCCAGTTT
*
1040549 CATGTATCGATACAATTGTA
1 CATGTATCGATACAA-TGAA
*
1040569 CATGCATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1040588 CATGTATTGATACAATG
1 CATGTATCGATACAATG
1040605 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1041254 original size:38 final size:38
Alignment explanation
Indices: 1041190--1041281 Score: 141
Period size: 37 Copynumber: 2.4 Consensus size: 38
1041180 GCTCTCGTTT
* *
1041190 AAAAAATTTTCTCCCCCTTGATAAAAAATTTATTTTC-A
1 AAAAAAATTT-TCCCCCTTGATAAAAAATTTATTCTCAA
1041228 AAAAAAATTTTCCCCCTTGATAAAAAATTTATTCTCAA
1 AAAAAAATTTTCCCCCTTGATAAAAAATTTATTCTCAA
1041266 AAAAAAATTCTTCCCC
1 AAAAAAATT-TTCCCC
1041282 TTTTTGTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
37 25 0.50
38 19 0.38
39 6 0.12
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (38 bp):
AAAAAAATTTTCCCCCTTGATAAAAAATTTATTCTCAA
Found at i:1047643 original size:3 final size:3
Alignment explanation
Indices: 1047635--1047668 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1047625 TCCGAGTCAA
* *
1047635 CAT CAT CAT CAT CAT TAT CAT CAT TAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1047669 TTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:1049282 original size:20 final size:20
Alignment explanation
Indices: 1049257--1049322 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
1049247 ATTGAAAGCA
1049257 ATGTATCGCTACAATTCATC
1 ATGTATCGCTACAATTCATC
*
1049277 ATGTATCG-----ATACAT-
1 ATGTATCGCTACAATTCATC
1049291 -TGTATCGCTACAATTCATC
1 ATGTATCGCTACAATTCATC
*
1049310 ATGTATCGATACA
1 ATGTATCGCTACA
1049323 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 7 0.19
15 5 0.14
18 5 0.14
20 19 0.53
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGTATCGCTACAATTCATC
Found at i:1049296 original size:13 final size:12
Alignment explanation
Indices: 1049276--1049335 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 12
1049266 TACAATTCAT
1049276 CATGTATCGATA
1 CATGTATCGATA
*
1049288 CATTGTATCGCTA
1 CA-TGTATCGATA
*
1049301 CA-AT-TC-AT-
1 CATGTATCGATA
1049309 CATGTATCGATA
1 CATGTATCGATA
1049321 CATTGTATCGATA
1 CA-TGTATCGATA
1049334 CA
1 CA
1049336 AAATGCCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
8 2 0.05
9 2 0.05
10 4 0.11
11 3 0.08
12 4 0.11
13 23 0.61
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:1049300 original size:33 final size:33
Alignment explanation
Indices: 1049258--1049336 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
1049248 TTGAAAGCAA
1049258 TGTATCGCTACAATTCATCATGTATCGATACAT
1 TGTATCGCTACAATTCATCATGTATCGATACAT
1049291 TGTATCGCTACAATTCATCATGTATCGATACAT
1 TGTATCGCTACAATTCATCATGTATCGATACAT
*
1049324 TGTATCGATACAA
1 TGTATCGCTACAA
1049337 AATGCCATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (33 bp):
TGTATCGCTACAATTCATCATGTATCGATACAT
Found at i:1049350 original size:33 final size:32
Alignment explanation
Indices: 1049258--1049355 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 32
1049248 TTGAAAGCAA
* *
1049258 TGTATCGCTACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATGCA-CATGTATCGATACAT
* *
1049291 TGTATCGCTACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATGCA-CATGTATCGATACAT
*
1049324 TGTATCGATACAAAATGC-CATTTATCGATACA
1 TGTATCGATAC--AATGCACATGTATCGATACA
1049356 AACAATGGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
33 56 0.93
35 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATGCACATGTATCGATACAT
Found at i:1049412 original size:20 final size:20
Alignment explanation
Indices: 1049387--1049439 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1049377 ACCAGTTTCT
* **
1049387 TGTATCGATACAATTGTGCA
1 TGTATCAATACAATTGAACA
1049407 TGTATCAATACAA-TGAACA
1 TGTATCAATACAATTGAACA
1049426 TGTATCAATACAAT
1 TGTATCAATACAAT
1049440 GTATCGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (20 bp):
TGTATCAATACAATTGAACA
Found at i:1055876 original size:19 final size:20
Alignment explanation
Indices: 1055825--1055876 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
1055815 AATTTTAATT
*
1055825 TATTTTT-TATTATTTATTA
1 TATTTTTATATTATGTATTA
1055844 TATTTGAGTTATATT-TGTATTA
1 TATTT---TTATATTATGTATTA
1055866 TATTTTTATAT
1 TATTTTTATAT
1055877 AAAAATTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 11 0.39
22 13 0.46
23 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (20 bp):
TATTTTTATATTATGTATTA
Found at i:1057165 original size:19 final size:17
Alignment explanation
Indices: 1057141--1057189 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 17
1057131 TATATAATGA
1057141 ATTAAATTTATCTATTTTT
1 ATTAAATTTA--TATTTTT
1057160 ATTAAATTTATATTTTT
1 ATTAAATTTATATTTTT
1057177 A-T--ATTTATATTTT
1 ATTAAATTTATATTTT
1057190 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.37
16 1 0.03
17 8 0.27
19 10 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTAAATTTATATTTTT
Found at i:1057634 original size:24 final size:25
Alignment explanation
Indices: 1057598--1057644 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1057588 ATTACGTGTA
1057598 AAAAAAATATTATTTTAAATATTTT
1 AAAAAAATATTATTTTAAATATTTT
*
1057623 AAAAAAAT-TTATTTTTAATATT
1 AAAAAAATATTATTTTAAATATT
1057645 AATCACGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAAAAATATTATTTTAAATATTTT
Found at i:1057638 original size:25 final size:24
Alignment explanation
Indices: 1057598--1057644 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
1057588 ATTACGTGTA
1057598 AAAAAAATATTATTTTAAATATTTT
1 AAAAAAATATTATTTT-AATATTTT
1057623 AAAAAAAT-TTATTTTTAATATT
1 AAAAAAATATTA-TTTTAATATT
1057645 AATCACGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAAAAAATATTATTTTAATATTTT
Found at i:1057856 original size:11 final size:10
Alignment explanation
Indices: 1057838--1057901 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
1057828 TTAACTTATT
1057838 TATATATTTA
1 TATATATTTA
*
1057848 TATTATATTGA
1 TA-TATATTTA
*
1057859 TATAT-TTAA
1 TATATATTTA
1057868 TATATA-TTA
1 TATATATTTA
*
1057877 TATAAATTT-
1 TATATATTTA
1057886 TAATATATTTA
1 T-ATATATTTA
1057897 TATAT
1 TATAT
1057902 TTTTGTGATC
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 16 0.36
10 18 0.41
11 10 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
TATATATTTA
Found at i:1057861 original size:19 final size:19
Alignment explanation
Indices: 1057834--1057903 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
1057824 AAATTTAACT
1057834 TATTTATATATTTATATTA
1 TATTTATATATTTATATTA
*
1057853 TATTGATATATTTA-ATATA
1 TATTTATATATTTATAT-TA
* *
1057872 TATTATATAAATTT-TAATA
1 TATT-TATATATTTATATTA
1057891 TATTTATATATTT
1 TATTTATATATTT
1057904 TTGTGATCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 10 0.23
19 25 0.58
20 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TATTTATATATTTATATTA
Found at i:1057874 original size:30 final size:29
Alignment explanation
Indices: 1057834--1057901 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
1057824 AAATTTAACT
* *
1057834 TATTTATATAT-TTATAT-TATATTGATA
1 TATTTATATATATTATATAAATATTAATA
*
1057861 TATTTAATATATATTATATAAATTTTAATA
1 TATTT-ATATATATTATATAAATATTAATA
1057891 TATTTATATAT
1 TATTTATATAT
1057902 TTTTGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.14
28 6 0.17
29 12 0.34
30 12 0.34
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
TATTTATATATATTATATAAATATTAATA
Found at i:1061892 original size:22 final size:23
Alignment explanation
Indices: 1061840--1061897 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
1061830 CTCTAATTAA
**
1061840 TTAATTTAATTATTTTTAAAAAT
1 TTAATTTAATTAAATTTAAAAAT
* *
1061863 TAATATTTAA-TAAATTTAAAATT
1 TTA-ATTTAATTAAATTTAAAAAT
1061886 TTAATTTTAATT
1 TTAA-TTTAATT
1061898 TTCATAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
22 1 0.04
23 19 0.70
24 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAATTTAATTAAATTTAAAAAT
Found at i:1061943 original size:2 final size:2
Alignment explanation
Indices: 1061927--1061965 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
1061917 AGTTACAATA
*
1061927 AT AT -T AT AA AT AT AT AT AT AT AT AT AT AT AT GAT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT A
1061966 GACACACACA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1062174 original size:32 final size:32
Alignment explanation
Indices: 1062091--1062180 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
1062081 AAATGACTTA
* * *
1062091 TTAAATTAATTTAAATTTAAAATT-TTTTTAAT
1 TTAAATTATTTTAAATTT-AAATTATTATAAAT
** * **
1062123 TCGAATAATTTTATTTTTAAATTATTATAAAT
1 TTAAATTATTTTAAATTTAAATTATTATAAAT
*
1062155 TTAAATTATTTTAAATTTAAAATATT
1 TTAAATTATTTTAAATTTAAATTATT
1062181 TTAATTTCAG
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
31 5 0.12
32 38 0.88
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (32 bp):
TTAAATTATTTTAAATTTAAATTATTATAAAT
Found at i:1062182 original size:48 final size:48
Alignment explanation
Indices: 1062091--1062183 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
1062081 AAATGACTTA
* **
1062091 TTAAATTAATTTAAATTTAAAATTTTTTTAATTCGAATAATTTTATTT
1 TTAAATTAATTTAAATTTAAAATTTTTTAAATTAAAATAATTTTATTT
1062139 TTAAATT-ATTATAAATTT-AAATTATTTTAAATTTAAAAT-ATTTTA
1 TTAAATTAATT-TAAATTTAAAATT-TTTTAAA-TTAAAATAATTTTA
1062184 ATTTCAGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
47 8 0.21
48 26 0.67
49 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (48 bp):
TTAAATTAATTTAAATTTAAAATTTTTTAAATTAAAATAATTTTATTT
Done.