Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 259 of 295
Found at i:89224735 original size:128 final size:128
Alignment explanation
Indices: 89224277--89224722 Score: 452
Period size: 128 Copynumber: 3.5 Consensus size: 128
89224267 GTCTAGGTTA
* * * * * * *
89224277 CCGATGGTGCCTGAGGCTCCCGCATGACCAAGGGCCTAGTTTGCTGATGGTGTCCTAGGCTCCCG
1 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCG
* * * * * *
89224342 CACATCCAGGCACCAAGGTGCTGATACTGCTCGAGGCTCCCACACATCCGAGGCAACAAGGTG
66 CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATTCGAGGCACCAAGGTG
* * * * * * * *
89224405 CCGATGGTTCCCGAGGCTCTTGTACGACTAAGGGCCTTGGTTGCTGATAGTGCCTGAGGCTCCCG
1 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCG
* * * * * * *
89224470 CACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACT-AAGG-GCCTAGTTTG
66 CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCAC-ATTCGAGGCACCAAG-GTG
* * * ** * * * *
89224533 CCAATGGTGTCCGAGGCTC-CTGTAC-ATCCAAGCACCAAAGG-TACCGATGCTGCTCGAGGCTC
1 CCGATGGTGCCCGAGGCTCTC-GCACGA-CCAAGGGCC-TAGGTTGCCGATGGTGCCCGAGGCTC
* *
89224595 CCGTATATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATTCGAGGCACCAAGGT
63 CCGCACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATTCGAGGCACCAAGGT
89224660 G
128 G
*
89224661 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTTCCCGAGGCTC
1 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
89224723 TCGTACGACC
Statistics
Matches: 248, Mismatches: 60, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
127 9 0.04
128 230 0.93
129 9 0.04
ACGTcount: A:0.20, C:0.32, G:0.29, T:0.19
Consensus pattern (128 bp):
CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCG
CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATTCGAGGCACCAAGGTG
Found at i:89234596 original size:42 final size:43
Alignment explanation
Indices: 89234548--89234652 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 43
89234538 TCGGTGGTGT
* *
89234548 GAGAGCCTCGAGCAGCATCGACACCTTGGT-GCTCGGATGTGC
1 GAGAGCCTCGAGCACCATCGACACCTTGGTACCTCGGATGTGC
89234590 GAGAGCCTCGAGCACCATCGACACCTTGGTACCTCGGATGTGC
1 GAGAGCCTCGAGCACCATCGACACCTTGGTACCTCGGATGTGC
*
89234633 GGGAGCCTC-AGACACCATCG
1 GAGAGCCTCGAG-CACCATCG
89234653 GTAAACTAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
42 31 0.53
43 27 0.47
ACGTcount: A:0.21, C:0.31, G:0.30, T:0.17
Consensus pattern (43 bp):
GAGAGCCTCGAGCACCATCGACACCTTGGTACCTCGGATGTGC
Found at i:89234821 original size:43 final size:43
Alignment explanation
Indices: 89234719--89235620 Score: 869
Period size: 43 Copynumber: 21.2 Consensus size: 43
89234709 AGTCTCAGGA
* ** *
89234719 ACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAGCCTC-GGC
1 ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGC
* * * *
89234760 GCCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTTGAGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * * *
89234803 ACCATCGACAACCTAGGCCCCTGGTCGTGTGGGAGCCACGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
** * * * *
89234846 ACCATCGATAATCTAGGCCCCTGGTCGTGCGAGAGCCTCAGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * *
89234889 ACCATCGGCAACCTAGACCCTTTGTCGTGCGAGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* *
89234932 ACTATCGGC-ACCTAGGCCCTTGGTCGTGCTGGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* ** * * *
89234974 ACCATCGGC-ACCTTGGTGCTTGAAT-GTGCGAGAACCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTG-GTCGTGCGGGAGCCTCGGGC
* * * *
89235016 ACCATCGGCAACTTAGGCCCTCGGTTGTGCGGGAGCCTCGGAC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
** * * ** *
89235059 ACCATATGTAACCTAGGGCCC-TGGTCATGTAGGAGCCTCAGGC
1 ACCATCGGCAACCTA-GGCCCTTGGTCGTGCGGGAGCCTCGGGC
** * * *
89235102 ACCATCAACAACCTAGGCCCCTGATCCTGCGGGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * * *
89235145 ATCATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* ** *
89235188 ACCATCGGTAACCTAGGCCCTTATTCGTGCGAGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * * * *
89235231 ACCATCGGTAACCTAGGCCCCTGGTCGTACGAGAGCCTCAGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * * *
89235274 ACCATTGGTAACCTAGGCCCTTGGTTGTGCGAGAGCCTCGGG-
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
89235316 ACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * ** ** *
89235358 ACCATCGG-TACCTTGGTGCTTGGAT-GTGCGGGAGCCTTAGAC
1 ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGC
*
89235400 ACCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * * ** *
89235443 ACCATCGACAACTTAGGCCCCTGGTCGTGTAGGATCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * * *
89235486 ACCATCGGTAACCTAGG-CCTTGATCGTGTGAGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
* * ** **
89235528 ACCATCAGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAAC
1 ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGC
* *
89235570 ACCATCGGCAACCTAGTCCCTTGGTCATGCGGGAGCCTCGGGC
1 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
89235613 ACCATCGG
1 ACCATCGG
89235621 TACCTTGGTG
Statistics
Matches: 702, Mismatches: 142, Indels: 32
0.80 0.16 0.04
Matches are distributed among these distances:
41 44 0.06
42 200 0.28
43 453 0.65
44 5 0.01
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.20
Consensus pattern (43 bp):
ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
Found at i:89235492 original size:170 final size:170
Alignment explanation
Indices: 89234686--89235620 Score: 874
Period size: 170 Copynumber: 5.5 Consensus size: 170
89234676 CAGCATCAGC
** * * * **
89234686 ACCTTGGTGCTTGGATGTGTGGGAGTCTCAGGA-ACCATCGGC-ACCTTGGTGCTTGGAT-GTGC
1 ACCTTGGCCCTTGGATGTGCGGGAGCCTCA-GACACCATCGGCAACCTAGGCCCTTGG-TCGTGC
* * * * *
89234748 GAGAGCCTC-GGCGCCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTTGAGCACCATCGAC
64 GAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
* * * *
89234812 AACCTAGGCCCCTGGTCGTGTGGGAGCCACGGGCACCATCGAT
129 -ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGT
* * * * * * *
89234855 AATCTAGGCCCCTGG-TCGTGCGAGAGCCTCAGGCACCATCGGCAACCTAGACCCTTTGTCGTGC
1 -ACCTTGGCCCTTGGAT-GTGCGGGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGC
* *
89234919 GAGAGCCTCGGGCACTATCGGC-ACCTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATCGGC
64 GAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
* ** * * * *
89234983 ACCTTGGTGCTTGAAT-GTGCGAGAACCTCGGGCACCATCGGC
129 ACCTAGGCCCTTG-GTCGTGCGGGAGCCTCGGGCACCATCGGT
* * * * ** * *
89235025 AACTTAGGCCCTCGGTTGTGCGGGAGCCTCGGACACCATATGTAACCTAGGGCCC-TGGTCATG-
1 ACCTT-GGCCCTTGGATGTGCGGGAGCCTCAGACACCATCGGCAACCTA-GGCCCTTGGTCGTGC
* * ** * * * *
89235088 TAGGAGCCTCAGGCACCATCAACAACCTAGGCCCCTGATCCTGCGGGAGCCTCGGGCATCATCGG
64 GA-GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
* * *
89235153 TAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGGCACCATCGGT
128 -CACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGT
* * * * * * *
89235197 AACCTAGGCCCTT--ATTCGTGCGAGAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGGTCGTA
1 -ACCTTGGCCCTTGGA-T-GTGCGGGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * * *
89235260 CGAGAGCCTCAGGCACCATTGGTAACCTAGGCCCTTGGTTGTGCGAGAGCCTCGGG-ACCATCGG
63 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
89235324 CACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGT
128 CACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGT
** *
89235367 ACCTTGGTGCTTGGATGTGCGGGAGCCTTAGACACCATCGGCAACCTAGGCCCTTGGTCGTGC-A
1 ACCTTGGCCCTTGGATGTGCGGGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGA
* * * ** * *
89235431 GGAGCCTCGGGCACCATCGACAACTTAGGCCCCTGGTCGTGTAGGATCCTCGGGCACCATCGGTA
66 -GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-C
* * * * *
89235496 ACCTAGG-CCTTGATCGTGTGAGAGCCTCGGGCACCATCAGC
129 ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGT
** * *
89235537 ACCTTGGTGCTTGGATGTGCGGGAGCCTC-GAACACCATCGGCAACCTAGTCCCTTGGTCATGCG
1 ACCTTGGCCCTTGGATGTGCGGGAGCCTCAG-ACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
89235601 GGAGCCTCGGGCACCATCGG
65 AGAGCCTCGGGCACCATCGG
89235621 TACCTTGGTG
Statistics
Matches: 619, Mismatches: 121, Indels: 50
0.78 0.15 0.06
Matches are distributed among these distances:
168 1 0.00
169 98 0.16
170 268 0.43
171 124 0.20
172 124 0.20
173 4 0.01
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (170 bp):
ACCTTGGCCCTTGGATGTGCGGGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGA
GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAC
CTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGT
Found at i:89235669 original size:43 final size:42
Alignment explanation
Indices: 89234671--89235773 Score: 315
Period size: 43 Copynumber: 25.9 Consensus size: 42
89234661 GGCCATTGGT
* * * *
89234671 TCGAGCAGCATCAGCACCTTGGTGCTTGGATGTGTGGGAGTC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
* *
89234713 TC-AGGAACCATCGGCACCTTGGTGCTTGGATGTGCGAGAGCC
1 TCGA-GCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
* * * **
89234755 TCG-GCGCCATCGGTAACCTAGGCCCTTGG-TCGTGCGGGAGCC
1 TCGAGCACCATCGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * * ** * *
89234797 TTGAGCACCATCGACAACCTAGGCCCCTGG-TCGTGTGGGAGCC
1 TCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * ** * * ** * *
89234840 ACGGGCACCATCGATAATCTAGGCCCCTGG-TCGTGCGAGAGCC
1 TCGAGCACCATCG-GCACCTTGGTGCTTGGAT-GTGCGGGAGCC
* *** * *
89234883 TC-AGGCACCATCGGCAACCTAGACCCTTTG-TCGTGCGAGAGCC
1 TCGA-GCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * * ** *
89234926 TCGGGCACTATCGGCACCTAGGCCCTTGG-TCGTGCTGGAGCC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * * *
89234968 TCGGGCACCATCGGCACCTTGGTGCTTGAATGTGCGAGAACC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
* * ** * *
89235010 TCGGGCACCATCGGCAACTTAGGCCCTCGGTTGTGCGGGAGCC
1 TCGAGCACCATCGGCACCTT-GGTGCTTGGATGTGCGGGAGCC
* ** * * *
89235053 TCG-GACACCATATGTAACCTAGG-GCCCTGGTCATGT--AGGAGCC
1 TCGAG-CACCAT-CGGCACCTTGGTG-CTTGG--ATGTGCGGGAGCC
** * ** * *
89235096 TC-AGGCACCATCAACAACCTAGGCCCCT-GATCCTGCGGGAGCC
1 TCGA-GCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * * * ** *
89235139 TCGGGCATCATCGGTAACCTAGGCCCCTGG-TCGTGCGGGAGCC
1 TCGAGCACCATCGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * ** *
89235182 TC-AGGCACCATCGGTAACCTAGGCCCTT--ATTCGTGCGAGAGCC
1 TCGA-GCACCATCGG-CACCTTGGTGCTTGGA-T-GTGCGGGAGCC
* * * ** * * *
89235225 TCGGGCACCATCGGTAACCTAGGCCCCTGG-TCGTACGAGAGCC
1 TCGAGCACCATCGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * * ** * *
89235268 TC-AGGCACCATTGGTAACCTAGGCCCTTGGTTGTGCGAGAGCC
1 TCGA-GCACCATCGG-CACCTTGGTGCTTGGATGTGCGGGAGCC
* * **
89235311 TCG-GGACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCC
* *
89235352 TCGGGCACCATCGGTACCTTGGTGCTTGGATGTGCGGGAGCC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
* * ** *
89235394 T-TAGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCAGGAGCC
1 TCGAG-CACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCC
* * * ** * ** *
89235437 TCGGGCACCATCGACAACTTAGGCCCCTGG-TCGTGTAGGATCC
1 TCGAGCACCATCGGCACCTT-GGTGCTTGGAT-GTGCGGGAGCC
* * * * * *
89235480 TCGGGCACCATCGGTAACCTAGG-CCTT-GATCGTGTGAGAGCC
1 TCGAGCACCATCGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCC
* *
89235522 TCGGGCACCATCAGCACCTTGGTGCTTGGATGTGCGGGAGCC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
* * * *
89235564 TCGAACACCATCGGCAACC-TAGTCCCTTGG-TCATGCGGGAGCC
1 TCGAGCACCATCGGC-ACCTTGGT-GCTTGGAT-GTGCGGGAGCC
* * *
89235607 TCGGGCACCATCGGTACCTTGGTGCCTCGGATGTGCGGGAGCC
1 TCGAGCACCATCGGCACCTTGGTG-CTTGGATGTGCGGGAGCC
** * *
89235650 TCGAGCAGTATTGGCACCTTTGTGCTTGGATGTGCGGGAGCC
1 TCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
* * * * *
89235692 TCTGA-CACCATAGGCAACCTAGGATG-TTGGATGTGCTGGTGCT
1 TC-GAGCACCATCGGC-ACCTTGG-TGCTTGGATGTGCGGGAGCC
* ** ** *
89235735 TCGAGCAGCAGGGGCACCCAGGTGCCTCGGATGTGCGGG
1 TCGAGCACCATCGGCACCTTGGTG-CTTGGATGTGCGGG
89235774 TTAAAGAAAA
Statistics
Matches: 838, Mismatches: 163, Indels: 119
0.75 0.15 0.11
Matches are distributed among these distances:
40 3 0.00
41 48 0.06
42 279 0.33
43 491 0.59
44 14 0.02
45 3 0.00
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.20
Consensus pattern (42 bp):
TCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC
Found at i:89235693 original size:170 final size:170
Alignment explanation
Indices: 89234679--89235727 Score: 700
Period size: 170 Copynumber: 6.2 Consensus size: 170
89234669 GTTCGAGCAG
* * * * * **
89234679 CATCAGCACCTTGGTGCTTGGATGTGTGGGAGTCTCAGGA-ACCATCGGC-ACCTTGGTGCTTGG
1 CATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTC-GAACACCATCGGCAACCTAGGCCCTTGG
* * * * * * * *
89234742 AT-GTGCGAGAGCCTC-GGCGCCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTTGAGCAC
65 -TCGTGCGGGAGCCTCGGGCACCATCGG-CACCTTGGGCCTCGGTCGTGCGGGAGCCTCGGGCAC
* * * * * *
89234805 CATCGACAACCTAGGCCCCTGG-TCGTGTGGGAGCCACGGGCAC
128 CATCGGC-ACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
** * * ** * * * *
89234848 CATCGATAATCTAGGCCCCTGG-TCGTGCGAGAGCCTC-AGGCACCATCGGCAACCTAGACCCTT
1 CATCG-GCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGA-ACACCATCGGCAACCTAGGCCCTT
* * * * * * *
89234911 TGTCGTGCGAGAGCCTCGGGCACTATCGGCACCTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCAC
63 GGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGGCCTCGGTCGTGCGGGAGCCTCGGGCAC
* * * *
89234976 CATCGGCACCTTGGTGCTTGAAT-GTGCGAGAACCTCGGGCAC
128 CATCGGCACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
* ** * * * ** *
89235018 CATCGGCAACTTAGGCCCTCGGTTGTGCGGGAGCCTCGGACACCATATGTAACCTAGGGCCC-TG
1 CATCGGCACCTT-GGTGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTA-GGCCCTTG
* ** * ** * * * *
89235082 GTCATGTAGGAGCCTCAGGCACCATCAACAACC-TAGGCCCCTGATCCTGCGGGAGCCTCGGGCA
64 GTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGGCCTC-GGTCGTGCGGGAGCCTCGGGCA
* * * * * *
89235146 TCATCGGTAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCAGGCAC
127 CCATCGG-CACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
* * ** * ** * *
89235190 CATCGGTAACCTAGGCCCTT--ATTCGTGCGAGAGCCTCGGGCACCATCGGTAACCTAGGCCCCT
1 CATCGG-CACCTTGGTGCTTGGA-T-GTGCGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTT
* * * * * * * * * *
89235253 GGTCGTACGAGAGCCTCAGGCACCATTGGTAACCTAGGCCCTTGGTTGTGCGAGAGCCTCGGG-A
63 GGTCGTGCGGGAGCCTCGGGCACCATCGG-CACCTTGGGCCTCGGTCGTGCGGGAGCCTCGGGCA
* *
89235317 CCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCAC
127 CCATCGGCACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
* *
89235360 CATCGGTACCTTGGTGCTTGGATGTGCGGGAGCCT-TAGACACCATCGGCAACCTAGGCCCTTGG
1 CATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGA-ACACCATCGGCAACCTAGGCCCTTGG
* * * * * ** *
89235424 TCGTGCAGGAGCCTCGGGCACCATCGACAACTTAGGCCCCTGGTCGTGTAGGATCCTCGGGCACC
65 TCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGGCCTC-GGTCGTGCGGGAGCCTCGGGCACC
* * * *
89235489 ATCGGTAACCTAGGC-CTT-GATCGTGTGAGAGCCTCGGGCAC
129 ATCGG-CACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
* *
89235530 CATCAGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTAGTCCCTTGGT
1 CATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGT
* * * **
89235595 CATGCGGGAGCCTCGGGCACCATCGGTACCTTGGTGCCTCGGAT-GTGCGGGAGCCTCGAGCAGT
66 CGTGCGGGAGCCTCGGGCACCATCGGCACCTTGG-GCCTCGG-TCGTGCGGGAGCCTCGGGCACC
* * * * *
89235659 ATTGGCACCTTTGTGCTTGGAT-GTGCGGGAGCCTCTGACAC
129 ATCGGCACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
* *
89235700 CATAGGCAACCTAGGATG-TTGGATGTGC
1 CATCGGC-ACCTTGG-TGCTTGGATGTGC
89235728 TGGTGCTTCG
Statistics
Matches: 679, Mismatches: 165, Indels: 70
0.74 0.18 0.08
Matches are distributed among these distances:
168 6 0.01
169 93 0.14
170 315 0.46
171 142 0.21
172 117 0.17
173 6 0.01
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (170 bp):
CATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGT
CGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGGCCTCGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCACCTTGGCGCTTGGATCGTGCGGGAGCCTCGGGCAC
Found at i:89247713 original size:43 final size:43
Alignment explanation
Indices: 89247665--89247796 Score: 110
Period size: 42 Copynumber: 3.1 Consensus size: 43
89247655 CCTTGGACGC
89247665 CATCGGCAACCTAGGACG-TC-GATGGTATGAGAGCCTCGAGCAG
1 CATCGGCAACCTAGG-CGCTCAGAT-GTATGAGAGCCTCGAGCAG
* * * *
89247708 CATCGGC-ACCTTGGTGCTCAGATGTGTGGGAGCCTCGAGCAG
1 CATCGGCAACCTAGGCGCTCAGATGTATGAGAGCCTCGAGCAG
* * * * * * *
89247750 CATCGCCAA-CTTGGTGCCTCGGATGTACGGGAGCCTCAAGCAG
1 CATCGGCAACCTAGGCG-CTCAGATGTATGAGAGCCTCGAGCAG
89247793 CATC
1 CATC
89247797 AGTACCTTGG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 38 0.50
43 37 0.49
ACGTcount: A:0.21, C:0.28, G:0.32, T:0.19
Consensus pattern (43 bp):
CATCGGCAACCTAGGCGCTCAGATGTATGAGAGCCTCGAGCAG
Found at i:89247744 original size:42 final size:43
Alignment explanation
Indices: 89247695--89247829 Score: 191
Period size: 43 Copynumber: 3.2 Consensus size: 43
89247685 GATGGTATGA
*
89247695 GAGCCTCGAGCAGCATCGGCACCTTGGTG-CTCAGATGTGTGG
1 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCAGATGTGCGG
* * * *
89247737 GAGCCTCGAGCAGCATCGCCAACTTGGTGCCTCGGATGTACGG
1 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCAGATGTGCGG
* * *
89247780 GAGCCTCAAGCAGCATCAGTACCTTGGTGCCTCAGATGTGCGG
1 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCAGATGTGCGG
89247823 GAGCCTC
1 GAGCCTC
89247830 AAACACTATC
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 27 0.34
43 53 0.66
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.20
Consensus pattern (43 bp):
GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCAGATGTGCGG
Found at i:89248009 original size:43 final size:43
Alignment explanation
Indices: 89247938--89248943 Score: 1011
Period size: 43 Copynumber: 23.7 Consensus size: 43
89247928 GGATGTCCGA
* *
89247938 GAGCCTC-GGCGCCATCGGTAACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * * *
89247980 GACCCTCGAGCACCATTGACAACCTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
89248023 GAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
89248066 GAGCCTC-GG-ACCATCGGTAACCTAGGCCCTGGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
89248107 GAGCCTCAGGCACTACCGGC-ACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * ** *
89248149 GAGCCTCGGGCACCTTTGGC-ACCTTGGTGCTTGGAT-GTGTGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGG
* * * **
89248191 GAGCCTCGGGCACAATCGGTAACCTAGGCCCGTGGTCGTGTAG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
89248234 GAACCTCGGGCACCATTGGCAACCTAGGCCCCTGGTCTTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
89248277 GAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
89248320 GAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
89248363 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGTTCGTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
89248406 GACCCTCGGGCACCATCGGC-TCCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
89248448 GAGCCTCGGGCACCATCGGTAACCTAGGCCTTTGGTCATGCAG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * * *
89248491 GAGCCTCGGGCACCGTCGACAACCTAGGCCCCTGGTAGTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
89248534 GAGCCTCTGGCGCCATCGGCAACCTAGGCCCTTGGTCGTACGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * **
89248577 GAGCCTCGGG-ACCATCGG-TACCTTGGTGCTTGGAT-GTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGG
* * *
89248618 GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGTGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
89248661 GAGCCTCGGGCACCATTGGCAACCTAGGCCCCTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * **
89248704 GAGCCTTGGGCACCATCGGCAACCTAGG-CCTTGATCATGCTA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * ** * *
89248746 GAGCCTCGGGAACCATCGGC-ACCTTGGTGCTTAGAT-GTGGGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCGG
* * * * *
89248788 GAGCCTAGGACACCATCGGCAACCTAAGCCCTTGGTCATGCAG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
89248831 GAGCCTTGGGCACCATCGGC-ACCTTGGTGCCTCGGAT-GTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTGCGG
* * * * * * ** *
89248874 AAGCCTCGAGCAGCATTGG-TACCTTGGTGCTTGGAT-GTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGG
* *
89248916 GAGCCTCGGACACCATAGGCAACCTAGG
1 GAGCCTCGGGCACCATCGGCAACCTAGG
89248944 AAGTAAGATG
Statistics
Matches: 792, Mismatches: 153, Indels: 37
0.81 0.16 0.04
Matches are distributed among these distances:
41 66 0.08
42 214 0.27
43 511 0.65
44 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.19
Consensus pattern (43 bp):
GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
Found at i:89248686 original size:170 final size:171
Alignment explanation
Indices: 89247890--89248851 Score: 1022
Period size: 170 Copynumber: 5.7 Consensus size: 171
89247880 GTGCTTGGAT
* ** * * * * *
89247890 GTACGGGAGCCTCGAGG-ACCATCGACACCTTGGTGCTTGGAT-GTCCGAGAGCCTCGGCGCCAT
1 GTACGAGAGCCTCG-GGCACCATCGGTACCTAGGTCCTTGGATCGTGCGGGAGCCTCGGCACCAT
* * * * *
89247953 CGGTAACCTAGGCCCTTGGTCGTGCGGGACCCTCGAGCACCATTGACAACCTAGGCCCCTGGTCG
65 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCG
*
89248018 TGCGGGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTC
130 TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
89248060 GTGCGAGAGCCTC-GG-ACCATCGGTAACCTAGG-CCCTGGGTCGTGCGGGAGCCTCAGGCACTA
1 GTACGAGAGCCTCGGGCACCATCGGT-ACCTAGGTCCTTGGATCGTGCGGGAGCCTC-GGCACCA
* * * * ** *
89248122 CCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCTTTGGC-ACCTTGGTGCTTGGAT
64 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGG-T
* * * *
89248185 -GTGTGGGAGCCTCGGGCACAATCGGTAACCTAGGCCCGTGGTC
128 CGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
89248228 GT--GTAGGAACCTCGGGCACCATTGGCAACCTAGGCCCCTGG-TCTTGCGGGAGCCTCGGGCAC
1 GTACG-A-GAGCCTCGGGCACCATCGG-TACCTAGGTCCTTGGATCGTGCGGGAGCCTC-GGCAC
* * *
89248290 CATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGG
62 CATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGG
* *
89248355 TCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGTTC
127 TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
89248400 GTACGGGACCCTCGGGCACCATCGGCT-CCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
1 GTACGAGAGCCTCGGGCACCATCGG-TACCTAGGTCCTTGGATCGTGCGGGAGCCTC-GGCACCA
* * * * * * *
89248463 TCGGTAACCTAGGCCTTTGGTCATGCAGGAGCCTCGGGCACCGTCGACAACCTAGGCCCCTGGTA
64 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTC
* * *
89248528 GTACGGGAGCCTCTGGCGCCATCGGCAACCTAGGCCCTTGGTC
129 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
89248571 GTACGAGAGCCTCGGG-ACCATCGGTACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCAT
1 GTACGAGAGCCTCGGGCACCATCGGTACCTAGGTCCTTGGATCGTGCGGGAGCCTCGG-CACCAT
* * *
89248634 CGGCAACCTAGGCCCTTGGACGTGTGGGAGCCTCGGGCACCATTGGCAACCTAGGCCCCTGGTCG
65 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCG
* * *
89248699 TGCGAGAGCCTTGGGCACCATCGGCAACCTAGG-CCTTGATC
130 TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * * * * * *
89248740 ATGCTAGAGCCTCGGGAACCATCGGCACCTTGGTGCTTAGAT-GTGGGGGAGCCTAGGACACCAT
1 GTACGAGAGCCTCGGGCACCATCGGTACCTAGGTCCTTGGATCGTGCGGGAGCCTCGG-CACCAT
* * * *
89248804 CGGCAACCTAAGCCCTTGGTCATGCAGGAGCCTTGGGCACCATCGGCA
65 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
89248852 CCTTGGTGCC
Statistics
Matches: 670, Mismatches: 103, Indels: 38
0.83 0.13 0.05
Matches are distributed among these distances:
166 1 0.00
167 1 0.00
168 70 0.10
169 81 0.12
170 260 0.39
171 189 0.28
172 67 0.10
174 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.19
Consensus pattern (171 bp):
GTACGAGAGCCTCGGGCACCATCGGTACCTAGGTCCTTGGATCGTGCGGGAGCCTCGGCACCATC
GGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGT
GCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
Found at i:89254409 original size:22 final size:23
Alignment explanation
Indices: 89254367--89254409 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
89254357 CTCCAACCCG
*
89254367 AGGTATTTTTAATAATGACATAA
1 AGGTATTTTTAATAATAACATAA
89254390 AGGTATTTTTAATAA-AACAT
1 AGGTATTTTTAATAATAACAT
89254410 GCAAATCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (23 bp):
AGGTATTTTTAATAATAACATAA
Found at i:89256074 original size:5 final size:5
Alignment explanation
Indices: 89256064--89256089 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
89256054 TTTTCTGCTG
89256064 TGCCA TGCCA TGCCA TGCCA TGCCA T
1 TGCCA TGCCA TGCCA TGCCA TGCCA T
89256090 ACTTCATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.23
Consensus pattern (5 bp):
TGCCA
Found at i:89256181 original size:192 final size:191
Alignment explanation
Indices: 89255854--89256321 Score: 675
Period size: 192 Copynumber: 2.5 Consensus size: 191
89255844 TCGTAATTTG
* *
89255854 TTGTTCAATTTTCTACCGTGCCGTGCCATGCCATGCCAAGCCATACTTCATTCAGA-TTCTTGTA
1 TTGTTCAATTTTCT-CTGTGCCGTGCCATGCCATGCCATGCCATACTTCATTC-GACTTCTTGTA
* * *
89255918 TATGTTTTGGGCCAACAAAAAAAATTTCTAAGTTAAACACTTGGCCGTGCCGCCCCTTTGGGAAA
64 TTTGTTTTGGGCCAACAGAAAAAATTTCTAAGTTAAACACTTGGCCGTGCCGCCCCTCTGGGAAA
* *
89255983 CATGGCACAACGGGGGCCGTGGTGGTGCAGG-TGCGAGCTCCCAACTGTTGGCGGTCTGGGCAC
129 CATGGCACAACGGGGGCCGTAGTGGTGC-GGTTGCGAGCTCCCAACTGTTGGCGGTCCGGGCAC
*
89256046 TTGTTCAATTTTCTGCTGTGCCATGCCATGCCATGCCATGCCATACTTCATTCGACTTCTTGTAT
1 TTGTTCAATTTTCT-CTGTGCCGTGCCATGCCATGCCATGCCATACTTCATTCGACTTCTTGTAT
*
89256111 TTGTTTTGGGCCAACAGAAAAAATTTCTAAGTTAAACACTTGGCCGTGTCGCCCCCTCT-GGAAA
65 TTGTTTTGGGCCAACAGAAAAAATTTCTAAGTTAAACACTTGGCCGTGCCG-CCCCTCTGGGAAA
*
89256175 CATGGCACAACGGGGGCCGTAGTGGTGCGGTTGCGAGCTCCTAACTGTTGGCGGTCCGGGCAC
129 CATGGCACAACGGGGGCCGTAGTGGTGCGGTTGCGAGCTCCCAACTGTTGGCGGTCCGGGCAC
* * * * *
89256238 TTGTTCAA-TTT-T-T-TGCCGTGCCGTGCCAT--CATGCTATATTTCATTCGGCTTCTTGAATT
1 TTGTTCAATTTTCTCTGTGCCGTGCCATGCCATGCCATGCCATACTTCATTCGACTTCTTGTATT
* *
89256297 TCTTTTGGGCCAAAAGAAAAAATTT
66 TGTTTTGGGCCAACAGAAAAAATTT
89256322 TCAGTGAAAA
Statistics
Matches: 254, Mismatches: 19, Indels: 13
0.89 0.07 0.05
Matches are distributed among these distances:
185 49 0.19
187 14 0.06
188 1 0.00
190 1 0.00
191 7 0.03
192 176 0.69
193 6 0.02
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (191 bp):
TTGTTCAATTTTCTCTGTGCCGTGCCATGCCATGCCATGCCATACTTCATTCGACTTCTTGTATT
TGTTTTGGGCCAACAGAAAAAATTTCTAAGTTAAACACTTGGCCGTGCCGCCCCTCTGGGAAACA
TGGCACAACGGGGGCCGTAGTGGTGCGGTTGCGAGCTCCCAACTGTTGGCGGTCCGGGCAC
Found at i:89257270 original size:24 final size:25
Alignment explanation
Indices: 89257216--89257277 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
89257206 ACCGGTTAGG
89257216 TTCCCGGCGGTGCTCCGGCGATCCA
1 TTCCCGGCGGTGCTCCGGCGATCCA
* * *
89257241 TT-CCGGCGGTGCTCTGGCGA-GCT
1 TTCCCGGCGGTGCTCCGGCGATCCA
*
89257264 TTCCCGGTGGTGCT
1 TTCCCGGCGGTGCT
89257278 TAGGACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.09
24 27 0.84
25 2 0.06
ACGTcount: A:0.05, C:0.34, G:0.35, T:0.26
Consensus pattern (25 bp):
TTCCCGGCGGTGCTCCGGCGATCCA
Found at i:89261271 original size:43 final size:42
Alignment explanation
Indices: 89261165--89261284 Score: 100
Period size: 43 Copynumber: 2.8 Consensus size: 42
89261155 TTCTATTTTA
* * * *
89261165 CATGTAAGACCATGTTTGGGACA-TCGACATCGTATCTGATTT
1 CATGTAAGACCATGTCTGGGACAGT-GGCATCGTATCTGAGTG
* * * * * *
89261207 CGTGTACGACCCTGCCTGGGACAGTGGCATCGATGTTTGAGTG
1 CATGTAAGACCATGTCTGGGACAGTGGCATCG-TATCTGAGTG
*
89261250 CATGTAAGACCATGTCTGGGAC-GTTGGCATTGTAT
1 CATGTAAGACCATGTCTGGGACAG-TGGCATCGTAT
89261285 GTGCTTCCCG
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGTATCTGAGTG
Found at i:89268278 original size:8 final size:8
Alignment explanation
Indices: 89268265--89268289 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89268255 CTAAAGTGTC
89268265 AAAATGTG
1 AAAATGTG
89268273 AAAATGTG
1 AAAATGTG
89268281 AAAATGTG
1 AAAATGTG
89268289 A
1 A
89268290 GGGCTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:89268763 original size:42 final size:43
Alignment explanation
Indices: 89268661--89268778 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 43
89268651 ATATGTTTTT
* * * * *
89268661 GTGTAAGACCACGTCTGGGACATTTGGCATTG-ACTTCTGTTTTAC
1 GTGTAAGACCATGTCTAGGACA-GTGGCATCGTA--TCTGATTTAC
89268706 GTGTAAGACCATGTCTAGGACA-TCGGCATCGTATCTGATTT-C
1 GTGTAAGACCATGTCTAGGACAGT-GGCATCGTATCTGATTTAC
*
89268748 GTGTAAGACCCTGTCTAGGACAGTGGCATCG
1 GTGTAAGACCATGTCTAGGACAGTGGCATCG
89268779 ATGTTTGATT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
42 29 0.45
43 9 0.14
44 6 0.09
45 21 0.32
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTGGCATCGTATCTGATTTAC
Found at i:89278227 original size:56 final size:56
Alignment explanation
Indices: 89278137--89278276 Score: 210
Period size: 56 Copynumber: 2.5 Consensus size: 56
89278127 GACATAGGAT
* * *
89278137 TCCGATATGTGATGTGAGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGAC
1 TCCGATATAT-ATGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAC
* *
89278194 TCTGATATATGTGTGCT-AGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAC
1 TCCGATATATATGTG-TGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAC
89278250 TCCGATATATATGTGTGAGTAAGACCA
1 TCCGATATATATGTGTGAGTAAGACCA
89278277 TGTCTAGGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
55 1 0.01
56 65 0.88
57 8 0.11
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
TCCGATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAC
Found at i:89278293 original size:56 final size:55
Alignment explanation
Indices: 89278137--89278304 Score: 169
Period size: 56 Copynumber: 3.0 Consensus size: 55
89278127 GACATAGGAT
* ** * * *
89278137 TCCGATATGTGATGTGAGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGAC
1 TCCGATATAT-ATGTGCTAGTAAGACCACGTCTAATAC-ATGGCATCGATATGTGAC
* * * *
89278194 TCTGATATATGTGTGCTAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAC
1 TCCGATATATATGTGCTAGTAAGACCACGTCTAATAC-ATGGCATCGATATGTGAC
*
89278250 TCCGATATATATGTG-TGAGTAAGACCATGTCTAGGATA-ATGGCATCGATATGTGA
1 TCCGATATATATGTGCT-AGTAAGACCACGTCTA--ATACATGGCATCGATATGTGA
89278305 TTACAGTAAG
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
55 1 0.01
56 85 0.88
57 8 0.08
58 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (55 bp):
TCCGATATATATGTGCTAGTAAGACCACGTCTAATACATGGCATCGATATGTGAC
Found at i:89297549 original size:22 final size:22
Alignment explanation
Indices: 89297521--89297642 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
89297511 TTCCACATCC
89297521 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
89297543 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
89297567 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
89297590 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
89297614 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89297637 ATCACA
1 ATCACA
89297643 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89297556 original size:47 final size:47
Alignment explanation
Indices: 89297493--89298040 Score: 823
Period size: 47 Copynumber: 11.6 Consensus size: 47
89297483 CCCTTCGGGA
* * * * *
89297493 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89297540 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
89297587 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
89297634 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* *
89297681 CTTATCACACATACACA-TGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* *
89297728 CTTATCACATATATATACACGTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89297777 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89297824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89297871 CTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89297920 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89297967 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89298014 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
89298041 TATTCAAATA
Statistics
Matches: 475, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 386 0.81
49 88 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89297817 original size:143 final size:141
Alignment explanation
Indices: 89297493--89298040 Score: 830
Period size: 143 Copynumber: 3.9 Consensus size: 141
89297483 CCCTTCGGGA
* * * * *
89297493 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * * * * *
89297558 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACGTTCACATTCATTACATC
*
89297623 GGCCATTCGGC
131 GGCCATTAGGC
* * * * * *
89297634 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
89297698 -TGTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACGTTCACATTCATTA
65 CT-TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACGTTCACATTCATTA
89297762 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
89297777 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
89297842 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATTACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACGTTCACATTCATTACA
89297907 TCGGCCATTAGGC
129 TCGGCCATTAGGC
89297920 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
89297985 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACGTTCACATT
89298041 TATTCAAATA
Statistics
Matches: 378, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
140 2 0.01
141 107 0.28
143 267 0.71
144 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACGTTCACATTCATTACATC
GGCCATTAGGC
Found at i:89299561 original size:56 final size:56
Alignment explanation
Indices: 89299494--89299613 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
89299484 TATTAGTTTA
89299494 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
89299550 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
89299606 TTGCCCAT
1 TTGCCCAT
89299614 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:89302208 original size:28 final size:28
Alignment explanation
Indices: 89302137--89302210 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
89302127 ATAATAAGCC
* *
89302137 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
89302165 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
89302193 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
89302211 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:89310159 original size:29 final size:29
Alignment explanation
Indices: 89310102--89310176 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
89310092 ATAATAAGCC
* *
89310102 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTATAATAATCAAACT
89310130 CGCACACTTAGTGCTATAATAATCAAACT
1 CGCACACTTAGTGCTATAATAATCAAACT
89310159 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
89310177 CAATTTGAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 15 0.34
29 29 0.66
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAATAATCAAACT
Found at i:89312110 original size:40 final size:40
Alignment explanation
Indices: 89312053--89312249 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
89312043 CGAATACACG
* * * * * *
89312053 TCACCAGCATGATTGCTCTTCGGGACCTAGACCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *** * *
89312093 ACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
89312133 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
89312173 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
89312213 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGAT
89312250 TTAGTAACTC
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:89312274 original size:40 final size:41
Alignment explanation
Indices: 89312052--89312367 Score: 258
Period size: 40 Copynumber: 7.9 Consensus size: 41
89312042 CCGAATACAC
* * * * * *
89312052 GTCACCAGCATGATTGCTCTTCGGGACCTAGACCGGATATA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * *** *
89312093 -ACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATATA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
*
89312133 -TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
89312173 -TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
89312213 -TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATTTA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * *
89312253 GTAACTCGCACCAATGC-CTTCGG-GCTTAGCCCGGA-ATTA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-TA
* * * ** *
89312292 GTAACTCA-CACAAATGC-CTTCGGATCTTAGTTCGGATATG
1 GTCACT-AGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
89312332 GTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 GTCAC-TAGCACGAATGCTCTTCGGAACTTAGCCCGGA
89312368 CATCATTCGA
Statistics
Matches: 232, Mismatches: 36, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.14
40 182 0.78
41 17 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:89312274 original size:120 final size:119
Alignment explanation
Indices: 89312053--89312287 Score: 292
Period size: 120 Copynumber: 2.0 Consensus size: 119
89312043 CGAATACACG
* * * **
89312053 TCACCAGCATGATTGCTCTTCGGGACCTAGACCGGATATAACACCAGCATGAATGCTCTTCGGGG
1 TCACCAGCATGAATGCTCTTCGGAACCTAGACCGGATACAACACCAGCATGAATGCTCTTCGGAA
* * *
89312118 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGG-ACTTAGCCCGGATACA
* * * * *
89312173 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGAACCTAGACCGGATACAACACCAGCATGAATGCTCTTCGGAA
* * * *
89312238 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGCTTAGCCCGGA
66 CTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGACTTAGCCCGGA
89312288 ATTAGTAACT
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
119 11 0.11
120 73 0.75
121 13 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
TCACCAGCATGAATGCTCTTCGGAACCTAGACCGGATACAACACCAGCATGAATGCTCTTCGGAA
CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGACTTAGCCCGGATACA
Found at i:89312293 original size:39 final size:40
Alignment explanation
Indices: 89312224--89312367 Score: 141
Period size: 39 Copynumber: 3.6 Consensus size: 40
89312214 CACTAGCATG
* * *
89312224 AATGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACC
1 AATGC-CTTCGGAACTTAGCCCGGAATTAGTAACTCACACA
*
89312265 AATGCCTTCGG-GCTTAGCCCGGAATTAGTAACTCACACA
1 AATGCCTTCGGAACTTAGCCCGGAATTAGTAACTCACACA
* ** * * *
89312304 AATGCCTTCGGATCTTAGTTCGG-ATATGGTCACTTAGCACA
1 AATGCCTTCGGAACTTAGCCCGGAAT-TAGTAACTCA-CACA
*
89312345 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGAACTTAGCCCGGA
89312368 CATCATTCGA
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
39 37 0.44
40 37 0.44
41 11 0.13
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGAACTTAGCCCGGAATTAGTAACTCACACA
Found at i:89314703 original size:22 final size:22
Alignment explanation
Indices: 89314675--89314796 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
89314665 TTCCACATCC
89314675 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
89314697 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
89314721 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
89314744 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
89314768 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89314791 ATCACA
1 ATCACA
89314797 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89314710 original size:47 final size:47
Alignment explanation
Indices: 89314647--89315195 Score: 861
Period size: 47 Copynumber: 11.6 Consensus size: 47
89314637 CCCTTCGGGA
* * * * *
89314647 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89314694 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
89314741 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * *
89314788 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
89314835 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89314884 CTTATCACATATATATACACTTTCACATTCATGACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89314933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89314980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89315027 CTTATCACATATATATACACTTTCACATTCAT-ACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89315075 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89315122 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89315169 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
89315196 TATTCAAATA
Statistics
Matches: 477, Mismatches: 16, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
46 23 0.05
47 320 0.67
48 24 0.05
49 108 0.23
50 1 0.00
51 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89314983 original size:192 final size:189
Alignment explanation
Indices: 89314647--89315195 Score: 890
Period size: 192 Copynumber: 2.9 Consensus size: 189
89314637 CCCTTCGGGA
* * * *
89314647 CTTATCACATT-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACA
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* * * *
89314711 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACA
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACA
* * * *
89314775 TTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTAGGC
130 TTGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
89314835 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
89314900 ACACTTTCACATTCATGACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
89314965 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 CATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89315027 CTTATCACATATATATACACTTTCACATTCAT-ACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
89315091 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
89315156 TTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
130 TTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
89315196 TATTCAAATA
Statistics
Matches: 338, Mismatches: 17, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
188 10 0.03
189 112 0.33
190 40 0.12
191 24 0.07
192 150 0.44
193 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (189 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
TGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89316710 original size:56 final size:56
Alignment explanation
Indices: 89316643--89316762 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
89316633 TATTAGTTTA
89316643 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
89316699 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
89316755 TTGCCCAT
1 TTGCCCAT
89316763 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:89317251 original size:28 final size:28
Alignment explanation
Indices: 89317219--89317274 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
89317209 AATATAGCTT
89317219 TCATGTACTTAGCAAATAAACACTCATA
1 TCATGTACTTAGCAAATAAACACTCATA
*
89317247 TCATGTACTTAGCAAATAAACATTCATA
1 TCATGTACTTAGCAAATAAACACTCATA
89317275 CTTTCATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (28 bp):
TCATGTACTTAGCAAATAAACACTCATA
Found at i:89324010 original size:68 final size:65
Alignment explanation
Indices: 89323797--89324011 Score: 224
Period size: 64 Copynumber: 3.3 Consensus size: 65
89323787 CATAATTTTG
* * * *
89323797 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTCGT
89323859 A
65 A
* * * * *
89323860 GCTCTCTTGT-CTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATA-TCC
1 GCTCTCTTGTAC-ACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCT
89323923 CGTA
62 CGTA
* *
89323927 GCTCTCTTGTCCACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
89323992 GTA
63 GTA
89323995 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
89324012 ATGTGCACTC
Statistics
Matches: 126, Mismatches: 15, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.14
64 29 0.23
65 2 0.02
66 24 0.19
67 27 0.21
68 25 0.20
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:89324040 original size:68 final size:64
Alignment explanation
Indices: 89323797--89324049 Score: 181
Period size: 68 Copynumber: 3.9 Consensus size: 64
89323787 CATAATTTTG
* * * * * * * *
89323797 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTA
1 GCTCTCTTGTACACATGATGTACACATAGCACCACACATGCGACCTAGCTACA-TATATCCCGTA
* * * * *
89323860 GCTCTCTTGT-CTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCC
1 GCTCTCTTGTAC-ACATGATG---TACACATAGCACCACACATGCGACCTAGCTACATATATCCC
89323924 GTA
62 GTA
* * * * * *
89323927 GCTCTCTTGTCCACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTACACATGATGTACACATAGCACCACACATGCGACCTAGCTACAT-AT-A--TCCC
89323992 GTA
62 GTA
* * * *
89323995 GCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTGCATA
1 GCTCTCTTGTACACATGATGTACACAT-AGCACCACACATGCGACCTAGCTACATA
89324050 CCATCTGTAT
Statistics
Matches: 155, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 29 0.19
65 2 0.01
66 24 0.15
67 29 0.19
68 52 0.34
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTACACATGATGTACACATAGCACCACACATGCGACCTAGCTACATATATCCCGTA
Found at i:89329346 original size:47 final size:47
Alignment explanation
Indices: 89329016--89329321 Score: 450
Period size: 47 Copynumber: 6.4 Consensus size: 47
89329006 TTAGGATTTT
** ** * * *
89329016 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
89329063 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
89329114 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
89329161 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
89329208 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCCAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
89329255 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
89329302 ATGTGATGAATGTGAACATG
1 ATGTGATGAATGTGAACATG
89329322 TATATATGTC
Statistics
Matches: 238, Mismatches: 17, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
47 198 0.83
50 1 0.00
51 39 0.16
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:89329385 original size:141 final size:140
Alignment explanation
Indices: 89329016--89329360 Score: 433
Period size: 141 Copynumber: 2.4 Consensus size: 140
89329006 TTAGGATTTT
*** * * * *
89329016 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACACGCATATATGTGATAAGGCCGAATGGCCAATGCGA-GAATGTGAA-C
** * * *
89329081 TGTATATATATGCGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
64 ---ATGCATATGTGTGATAAGGCCCAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
89329146 AAGGCCGAATGGCCA
126 AAGGCCGAATGGCCA
* * *
89329161 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACACGCATATATGTGATAAGGCCGAATGGCCAATGCGA-GAATGTGAACA
*
89329226 TGCGTATGTGTGATAAGGCCCAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
65 TGCATATGTGTGATAAGGCCCAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
89329291 CCGAATGGCCA
130 CCGAATGGCCA
* * * *
89329302 ATGTGATGAATGTGAACATGTATATATGTCG-TAAGGCTGAATGGCTAATGCGA-AATGTG
1 ATGTGATGAATGTGAACACGCATATATGT-GATAAGGCCGAATGGCCAATGCGAGAATGTG
89329361 TATGAGATAG
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
139 6 0.03
141 115 0.65
142 1 0.01
144 1 0.01
145 55 0.31
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (140 bp):
ATGTGATGAATGTGAACACGCATATATGTGATAAGGCCGAATGGCCAATGCGAGAATGTGAACAT
GCATATGTGTGATAAGGCCCAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGC
CGAATGGCCA
Found at i:89329393 original size:46 final size:46
Alignment explanation
Indices: 89329334--89329460 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
89329324 TATATGTCGT
89329334 AAGGCTGAATGGCTAATGCGAAATGTGTATGAGATAGATATAAGGTA
1 AAGGC-GAATGGCTAATGCGAAATGTGTATGAGATAGATATAAGGTA
* * * **
89329381 AAGGCGAATGGCTAATGCGAAACGTGTATGCGATGGATATGTGGTA
1 AAGGCGAATGGCTAATGCGAAATGTGTATGAGATAGATATAAGGTA
* * * * *
89329427 AAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 AAGGCGAATGGCTAATGCGAAATGTGTATGAGAT
89329461 GTGTATATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 63 0.93
47 5 0.07
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
AAGGCGAATGGCTAATGCGAAATGTGTATGAGATAGATATAAGGTA
Found at i:89329672 original size:37 final size:37
Alignment explanation
Indices: 89329642--89329752 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
89329632 GTGGTGACTA
89329642 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
*
89329679 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* * *
89329716 TGTCCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
89329753 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:89330972 original size:14 final size:14
Alignment explanation
Indices: 89330953--89330979 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89330943 AGGGAATAGA
89330953 AACATTGCCAGATG
1 AACATTGCCAGATG
89330967 AACATTGCCAGAT
1 AACATTGCCAGAT
89330980 TGGAGCCGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
AACATTGCCAGATG
Found at i:89349141 original size:31 final size:31
Alignment explanation
Indices: 89349100--89349163 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
89349090 CCTTTTCATA
*
89349100 TTTCATATTTCATAACACTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
** * *
89349131 TTTCAAATTTCATATTATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
89349162 TT
1 TT
89349164 ACTGTAACCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:89349405 original size:24 final size:24
Alignment explanation
Indices: 89349371--89349594 Score: 276
Period size: 23 Copynumber: 9.4 Consensus size: 24
89349361 CTGGAGGCCT
* *
89349371 AGCCTCTTTTAATAACTCGGGCAAA
1 AGCC-CTTTTAATAACTAGGGCATA
*
89349396 ATCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
89349420 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
89349443 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
* **
89349466 AG-TCTTTTAATAACTAGGGTGTA
1 AGCCCTTTTAATAACTAGGGCATA
* *
89349489 AGCCCTTTTGATAATTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
89349513 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
* *
89349536 AGCCCTTTTGATAACTAGGGCGTA
1 AGCCCTTTTAATAACTAGGGCATA
*
89349560 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTAGGGCATA
89349585 AGCCCTTTTA
1 AGCCCTTTTA
89349595 CACTTCCTCC
Statistics
Matches: 172, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
22 1 0.01
23 79 0.46
24 68 0.40
25 24 0.14
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:89349431 original size:47 final size:47
Alignment explanation
Indices: 89349378--89349594 Score: 292
Period size: 47 Copynumber: 4.6 Consensus size: 47
89349368 CCTAGCCTCT
* * *
89349378 TTTAATAACTCGGGCAAAATCCCTTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
* * *
89349425 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGTCT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
* ** * *
89349471 TTTAATAACTAGGGTGTAAGCCCTTTTGATAATTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
* *
89349518 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
89349565 TTTTTAATAACTGGGGCATAAGCCCTTTTA
1 --TTTAATAACTGGGGCATAAGCCCTTTTA
89349595 CACTTCCTCC
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
46 40 0.27
47 80 0.54
49 27 0.18
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
Found at i:89349668 original size:20 final size:20
Alignment explanation
Indices: 89349643--89349709 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
89349633 TTATGAATAC
89349643 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89349663 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
89349683 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
89349703 ACCATGT
1 ATCATGT
89349710 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:89349674 original size:11 final size:11
Alignment explanation
Indices: 89349643--89349698 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
89349633 TTATGAATAC
89349643 ATCATGTGCAT
1 ATCATGTGCAT
*
89349654 ATCA--TACAT
1 ATCATGTGCAT
89349663 ATCATGTGCAT
1 ATCATGTGCAT
*
89349674 ATCA--TACAT
1 ATCATGTGCAT
*
89349683 GTCATGTGCAT
1 ATCATGTGCAT
89349694 ATCAT
1 ATCAT
89349699 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:89349785 original size:25 final size:25
Alignment explanation
Indices: 89349746--89349793 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
89349736 ATATTTAAAC
* *
89349746 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
89349771 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
89349794 CATTTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:89350997 original size:26 final size:25
Alignment explanation
Indices: 89350956--89351048 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 25
89350946 GGGCATATTC
* *
89350956 GTCATTTTACCATACAGGGGTATTATG
1 GTCACTTTACC-TACAGGGGT-TTACG
* *
89350983 GTCACTTTACCTACAAGGGCTTTGCG
1 GTCACTTTACCTAC-AGGGGTTTACG
89351009 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGG-TTTACG
**
89351036 GTCTTTTTACCTA
1 GTCACTTTACCTA
89351049 ATAGGGGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
26 23 0.42
27 32 0.58
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (25 bp):
GTCACTTTACCTACAGGGGTTTACG
Found at i:89351130 original size:27 final size:27
Alignment explanation
Indices: 89351100--89351151 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
89351090 GTAAATCTAC
89351100 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
89351127 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
89351152 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:89351213 original size:27 final size:27
Alignment explanation
Indices: 89351183--89351300 Score: 96
Period size: 27 Copynumber: 4.3 Consensus size: 27
89351173 GTAACTTTGT
89351183 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * * *
89351210 AAAT-TGAGGGTATTTCGATAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
89351237 CAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * * *
89351264 AAA-CTAAGGGTATATTAGTAATTTTGC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
89351291 AAATCGAGGG
1 AAATC-AGGG
89351301 TGAAACAGTA
Statistics
Matches: 68, Mismatches: 19, Indels: 7
0.72 0.20 0.07
Matches are distributed among these distances:
26 2 0.03
27 61 0.90
28 5 0.07
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.36
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:89351310 original size:27 final size:27
Alignment explanation
Indices: 89351280--89351464 Score: 237
Period size: 27 Copynumber: 6.9 Consensus size: 27
89351270 AGGGTATATT
* * *
89351280 AGTAATTTTGCAAATCGAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89351307 AGTAATTCTGTAAATCAAGGATAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
89351334 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
89351361 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
89351388 GGTAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89351415 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
89351442 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
89351465 CTTTGGTAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 137 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:89351339 original size:81 final size:81
Alignment explanation
Indices: 89351254--89351464 Score: 192
Period size: 81 Copynumber: 2.6 Consensus size: 81
89351244 TGGTATTTTG
* * ** * * *
89351254 GTAATTTTACAAA-CTAAGGGTATATTAGTAATTTTGCAAATCGAGGGTGAAACAGTAATTCTGT
1 GTAATTCTACAAATC-AAGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAACAGTAATTCTAT
89351318 AAATCAAGGATAAAACA
65 AAATCAAGGATAAAACA
* * * *
89351335 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTACAAATCAAGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAACAGTAATTCTATA
* * *
89351400 AGTCGAGGGTAAAAC-
66 AATCAAGGATAAAACA
* ** ** * * *
89351415 GATAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
1 G-TAATTCTACAAATCAAGGGTAAAACAGTAATTCTGCAAATCGAGGGTA
89351465 CTTTGGTAAT
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 107 0.98
82 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTCTACAAATCAAGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGATAAAACA
Found at i:89351502 original size:81 final size:81
Alignment explanation
Indices: 89351280--89351491 Score: 217
Period size: 81 Copynumber: 2.6 Consensus size: 81
89351270 AGGGTATATT
* * * * ** * * * * * *
89351280 AGTAATTTTGCAAATCGAGGGTGAAACAGTAATTCTGTAAATCAAGGATAAAACAGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTAAAACAATAATTATGT
89351345 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* *
89351361 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATGT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTAAAACAATAATTATGT
*
89351426 AAATCGGGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * **** * *
89351442 GGTAATTCTGTAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTA
89351492 TTTCAATAAT
Statistics
Matches: 109, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTAAAACAATAATTATGT
AAATCGAGGGTAAAAC
Found at i:89354995 original size:14 final size:13
Alignment explanation
Indices: 89354975--89355006 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
89354965 AATATTTAAC
89354975 TTGTTCTTAATTA
1 TTGTTCTTAATTA
89354988 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
89355002 TTGTT
1 TTGTT
89355007 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:89393115 original size:17 final size:17
Alignment explanation
Indices: 89393089--89393122 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89393079 CCTAAAAGAA
89393089 AAAAAATGGATTTAGAT
1 AAAAAATGGATTTAGAT
*
89393106 AAAAATTGGATTTAGAT
1 AAAAAATGGATTTAGAT
89393123 CGGGGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
AAAAAATGGATTTAGAT
Found at i:89394305 original size:22 final size:20
Alignment explanation
Indices: 89394280--89394328 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
89394270 TGAATGTAAG
89394280 TTTGATGATTTTGGCATATAGA
1 TTTGATG-TTTTGGC-TATAGA
*
89394302 TTTGGTATGTTTTGGCTATGGA
1 TTT-G-ATGTTTTGGCTATAGA
89394324 TTTGA
1 TTTGA
89394329 GTAGTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.46
23 8 0.33
24 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (20 bp):
TTTGATGTTTTGGCTATAGA
Found at i:89396598 original size:40 final size:40
Alignment explanation
Indices: 89396541--89396754 Score: 261
Period size: 40 Copynumber: 5.3 Consensus size: 40
89396531 CTAACGGGGT
* * * * *
89396541 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
89396581 TGAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
89396621 AAAGCCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
89396661 TAAGCCCCAAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * *
89396701 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
*
89396741 TAAGACCCGAAGGC
1 TAAGTCCCGAAGGC
89396755 CTTGTACGAG
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 153 0.99
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:89399883 original size:20 final size:20
Alignment explanation
Indices: 89399855--89399913 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
89399845 CATCATTTAA
*
89399855 AAATGATTTTAACTTGATTG
1 AAATCATTTTAACTTGATTG
* * *
89399875 AAATCATTTTGACTTGGTTT
1 AAATCATTTTAACTTGATTG
**
89399895 AAATCATTTGCACTTGATT
1 AAATCATTTTAACTTGATT
89399914 TTTAAATTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.46
Consensus pattern (20 bp):
AAATCATTTTAACTTGATTG
Found at i:89408358 original size:27 final size:27
Alignment explanation
Indices: 89408328--89408581 Score: 294
Period size: 27 Copynumber: 9.4 Consensus size: 27
89408318 ATTACTTAAA
* * *
89408328 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * * *
89408355 TACCCTCAATTCATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
89408382 CACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
89408409 TATCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
89408436 CATCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
89408463 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
89408490 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
89408517 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
89408544 TACCCTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTATAAAATTACCGTTT
89408571 TACCCTCGATT
1 TACCCTCGATT
89408582 GTGAAATTAC
Statistics
Matches: 198, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 196 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:89408654 original size:54 final size:54
Alignment explanation
Indices: 89408580--89408735 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
89408570 TTACCCTCGA
* * *
89408580 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** **
89408634 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
89408688 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
89408736 CCTGATTTAC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:89408750 original size:81 final size:81
Alignment explanation
Indices: 89408613--89408762 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
89408603 TGTAGGATAG
* **
89408613 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-GAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-TAGAA
89408677 ATACCACTAGTTTGTGA
65 ATACCACTAGTTTGTGA
*
89408694 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTATAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTATAGA
89408757 AATACC
64 AATACC
89408763 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 6 0.10
81 56 0.90
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATAGAAA
TACCACTAGTTTGTGA
Found at i:89408751 original size:54 final size:54
Alignment explanation
Indices: 89408613--89408818 Score: 166
Period size: 54 Copynumber: 3.8 Consensus size: 54
89408603 TGTAGGATAG
* ** * *
89408613 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACCGAAATACCCTC-AATTTGTAA
** ***
89408667 AATTACTGAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACCGAAATACCCTCAATTTGTAA
* ** * * *
89408721 AATTACCAAAATACCCCT-GATTTACAAAATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTAG-TTTACAAAATTACCGAAATACCC-TCAATTTGT-AA
* * * *
89408777 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 AATTACCA-AAATACCACTAGTTTACAAAATTACCGAAATACC
89408819 ATTAGTTTGT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 79 0.64
55 8 0.06
56 35 0.28
57 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCACTAGTTTACAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:89408752 original size:27 final size:27
Alignment explanation
Indices: 89408613--89408738 Score: 182
Period size: 27 Copynumber: 4.7 Consensus size: 27
89408603 TGTAGGATAG
89408613 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
89408640 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
89408667 AATTACTGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
89408694 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
89408721 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
89408739 GATTTACAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.03
27 81 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:89408759 original size:27 final size:27
Alignment explanation
Indices: 89408729--89408818 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
89408719 AAAATTACCA
*
89408729 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
89408756 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
89408785 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
89408812 AAATACC
1 AAATACC
89408819 ATTAGTTTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
27 27 0.49
28 7 0.13
29 21 0.38
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:89408939 original size:27 final size:27
Alignment explanation
Indices: 89408878--89408944 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
89408868 ATACCCCTAA
*
89408878 TAGG-TAAAAAGACCGTAAAGCCCCTG
1 TAGGATAAAATGACCGTAAAGCCCCTG
* *
89408904 TAGGATAAAGTGACCGTAATA-CCCTTG
1 TAGGATAAAATGACCGTAA-AGCCCCTG
89408931 TATGG-TAAAATGAC
1 TA-GGATAAAATGAC
89408945 GAATATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.12
27 27 0.79
28 3 0.09
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGGATAAAATGACCGTAAAGCCCCTG
Found at i:89409784 original size:26 final size:26
Alignment explanation
Indices: 89409755--89409878 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
89409745 GAGGAAGTGC
* **
89409755 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
89409781 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
89409807 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
89409833 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
89409859 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
89409879 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 9 0.10
26 80 0.90
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:89409833 original size:52 final size:52
Alignment explanation
Indices: 89409755--89409878 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
89409745 GAGGAAGTGC
*
89409755 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
89409807 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
89409859 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
89409879 ATTAAAGAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 10 0.14
52 60 0.86
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:89410082 original size:42 final size:42
Alignment explanation
Indices: 89410023--89410114 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
89410013 TAGTCTCCCC
** *
89410023 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
89410065 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
89410107 AAATGGGC
1 AAATGGGC
89410115 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:89410247 original size:31 final size:31
Alignment explanation
Indices: 89410138--89410245 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
89410128 CATTTACAGT
89410138 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
89410169 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
** *
89410200 AAAACCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
89410231 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
89410246 GTAACCGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:89411306 original size:16 final size:15
Alignment explanation
Indices: 89411250--89411299 Score: 75
Period size: 16 Copynumber: 3.3 Consensus size: 15
89411240 TAATTACTGA
89411250 TATATAAATAT-AATT
1 TATAT-AATATGAATT
89411265 TATATAATATGAATT
1 TATATAATATGAATT
89411280 TATGATAATATGAATT
1 TAT-ATAATATGAATT
89411296 TATA
1 TATA
89411300 ATGATATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.15
15 13 0.39
16 15 0.45
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
TATATAATATGAATT
Found at i:89411813 original size:25 final size:25
Alignment explanation
Indices: 89411765--89411811 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89411755 TAAAATAAAT
* *
89411765 AAATAAAAGTAAATAGAATAAAAGG
1 AAATAAAAGGAAATAGAAAAAAAGG
89411790 AAATAAAAGGAAA-AGAAAAAAA
1 AAATAAAAGGAAATAGAAAAAAA
89411812 AGCCAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (25 bp):
AAATAAAAGGAAATAGAAAAAAAGG
Found at i:89417805 original size:16 final size:15
Alignment explanation
Indices: 89417750--89417798 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
89417740 AATTAATGAC
89417750 ATATAAATAT-AATTT
1 ATAT-AATATGAATTT
89417765 ATATAATATGAATTT
1 ATATAATATGAATTT
*
89417780 ATGATTATATGAATTT
1 AT-ATAATATGAATTT
89417796 ATA
1 ATA
89417799 ATGATATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 5 0.16
15 12 0.39
16 14 0.45
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATATAATATGAATTT
Found at i:89421953 original size:17 final size:17
Alignment explanation
Indices: 89421931--89421963 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
89421921 AAAAGAAGGG
89421931 CTGATTCCTTTAATGTC
1 CTGATTCCTTTAATGTC
89421948 CTGATTCCTTTAATGT
1 CTGATTCCTTTAATGT
89421964 TAGAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.48
Consensus pattern (17 bp):
CTGATTCCTTTAATGTC
Found at i:89424970 original size:49 final size:49
Alignment explanation
Indices: 89424897--89425084 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
89424887 TAGCCGAAGC
*
89424897 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAAT
* * *
89424946 AATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCA-A-T
* * ** * * *
89424997 TTTCGGGTATGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAAT
* *
89425046 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
89425085 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 76 0.66
50 2 0.02
51 38 0.33
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAAT
Found at i:89425021 original size:100 final size:100
Alignment explanation
Indices: 89424902--89425089 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
89424892 GAAGCTATCT
* * * *
89424902 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAATAATCTGGTACACATAGTAGCC
1 GGTACGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATAATCCGGTACACATAGTAGCC
89424967 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
89425002 GGTATGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATAATCCGGTACACATAGTAGCC
89425067 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
89425090 CCTCACAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATAATCCGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:89427601 original size:15 final size:15
Alignment explanation
Indices: 89427543--89427607 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
89427533 GAATAATAAT
*
89427543 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
89427557 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
89427572 GAA-AAA-CCTAGAATA
1 -AAGAAATCC-AGAATA
89427587 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
89427602 AAGAAA
1 AAGAAA
89427608 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
14 13 0.30
15 25 0.58
16 5 0.12
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89430687 original size:49 final size:49
Alignment explanation
Indices: 89430614--89430801 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
89430604 TAGCCGAAGC
* *
89430614 TATCTGGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
89430663 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * ** *
89430714 TTTCGGGTATGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
89430763 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
89430802 CGTGACCTCA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 74 0.65
50 2 0.02
51 38 0.33
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:89430737 original size:100 final size:100
Alignment explanation
Indices: 89430619--89430806 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
89430609 GAAGCTATCT
** *
89430619 GGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
89430684 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
89430719 GGTATGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
89430784 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
89430807 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:89435125 original size:62 final size:62
Alignment explanation
Indices: 89435026--89435148 Score: 201
Period size: 62 Copynumber: 2.0 Consensus size: 62
89435016 TGCACCTCTC
* * *
89435026 GCAGTATAGATTGCCTCAAATCAGAATTCTTCGGTACACAAACTCTCCTACGGAAATAGAGG
1 GCAGTACAGATTGCCTCAAATCAGAATTCTTCAGTACACAAACTCTCCCACGGAAATAGAGG
* *
89435088 GCAGTACAGATTGCCTCAAATCAGTATTCTTCAGTACACAAATTCTCCCACGGAAATAGAG
1 GCAGTACAGATTGCCTCAAATCAGAATTCTTCAGTACACAAACTCTCCCACGGAAATAGAG
89435149 CACCCTTTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (62 bp):
GCAGTACAGATTGCCTCAAATCAGAATTCTTCAGTACACAAACTCTCCCACGGAAATAGAGG
Found at i:89439630 original size:43 final size:43
Alignment explanation
Indices: 89439577--89439663 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
89439567 ATGCTTTGAT
89439577 TCTCTAATTCCTTAAAGTCTAACAATCAATGCATAAATGCCTA
1 TCTCTAATTCCTTAAAGTCTAACAATCAATGCATAAATGCCTA
89439620 TCTCTAATTCCTTAAAGTCTAACAATCAATGCATAAATGCCTA
1 TCTCTAATTCCTTAAAGTCTAACAATCAATGCATAAATGCCTA
89439663 T
1 T
89439664 GTTTTAATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (43 bp):
TCTCTAATTCCTTAAAGTCTAACAATCAATGCATAAATGCCTA
Found at i:89446478 original size:13 final size:13
Alignment explanation
Indices: 89446460--89446485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89446450 GCTTGACAGG
89446460 GACACGCCCGTGT
1 GACACGCCCGTGT
89446473 GACACGCCCGTGT
1 GACACGCCCGTGT
89446486 TTGATTGCTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:89446620 original size:21 final size:20
Alignment explanation
Indices: 89446583--89446621 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
89446573 CCCATGTTGA
* *
89446583 CCCGTTTTCTCTGTTTTTGG
1 CCCGTTTTCGCTCTTTTTGG
89446603 CCCGTTTTTCGCTCTTTTT
1 CCCG-TTTTCGCTCTTTTT
89446622 ACTCTCCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.00, C:0.28, G:0.15, T:0.56
Consensus pattern (20 bp):
CCCGTTTTCGCTCTTTTTGG
Found at i:89449449 original size:27 final size:26
Alignment explanation
Indices: 89449432--89449778 Score: 279
Period size: 27 Copynumber: 12.8 Consensus size: 26
89449422 TTACACTACA
89449432 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAA-CG
* * *
89449459 GGGGTATTT-TATTAAGTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAA-CG
* * *
89449486 AGGGTATTTTGGTAATTTTACAATTCG
1 AGGGTATTTCGATAATTTTACAA-ACG
* *
89449513 AGAGTATTTCGCTAATTTTACAAACTG
1 AGGGTATTTCGATAATTTTACAAAC-G
*
89449540 -GAGGTATTTC-AGTAATTCTACAAAACTG
1 AG-GGTATTTCGA-TAATTTTAC-AAAC-G
* * *
89449568 AAGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAA-CG
** * *
89449595 AGGGTATTTTAATAATTTTACAATTCA
1 AGGGTATTTCGATAATTTTACAA-ACG
*
89449622 AGGGTATTTCGATAATTTTACAAATTTG
1 AGGGTATTTCGATAATTTTACAAA--CG
* *
89449650 -GGGTATTTCGACAATTCTACAAATCG
1 AGGGTATTTCGATAATTTTACAAA-CG
* * *
89449676 GGGGTATTTCGGTAATTTTACAATTCG
1 AGGGTATTTCGATAATTTTACAA-ACG
*
89449703 AGGGTATTTCGATAATTTTACAATTCG
1 AGGGTATTTCGATAATTTTACAA-ACG
*
89449730 AGGGTATTTCGATAATTTTACAAACT
1 AGGGTATTTCGATAATTTTACAAACG
* *
89449756 AGGGGTATTTTGATAATTCTACA
1 A-GGGTATTTCGATAATTTTACA
89449779 TACCGGGGTC
Statistics
Matches: 260, Mismatches: 44, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.03
27 231 0.89
28 22 0.08
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (26 bp):
AGGGTATTTCGATAATTTTACAAACG
Found at i:89449465 original size:54 final size:53
Alignment explanation
Indices: 89449407--89449778 Score: 327
Period size: 54 Copynumber: 6.9 Consensus size: 53
89449397 ACCCTTTAGA
* * * * *
89449407 GGTATTTTGGTCATTTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGG
1 GGTATTTCGGTAATTTTACA-AACGAGGGTATTTCGATAATTTTACAAATCGAG
*** * * * *
89449461 GGTATTTTATTAAGTTTACAAATCGAGGGTATTTTGGTAATTTTACAATTCGAG
1 GGTATTTCGGTAATTTTACAAA-CGAGGGTATTTCGATAATTTTACAAATCGAG
* * * * *
89449515 AGTATTTCGCTAATTTTACAAACTG-GAGGTATTTC-AGTAATTCTACAAAACTGAA
1 GGTATTTCGGTAATTTTACAAAC-GAG-GGTATTTCGA-TAATTTTACAAATC-GAG
* ** * *
89449570 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAATAATTTTACAATTCAAG
1 GGTATTTCGGTAATTTTACAAA-CGAGGGTATTTCGATAATTTTACAAATCGAG
* * * * *
89449624 GGTATTTCGATAATTTTACAAATTTG-GGGTATTTCGACAATTCTACAAATCGGG
1 GGTATTTCGGTAATTTTACAAA--CGAGGGTATTTCGATAATTTTACAAATCGAG
* *
89449678 GGTATTTCGGTAATTTTACAATTCGAGGGTATTTCGATAATTTTACAATTCGAG
1 GGTATTTCGGTAATTTTACAA-ACGAGGGTATTTCGATAATTTTACAAATCGAG
* * * *
89449732 GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGATAATTCTACA
1 GGTATTTCGGTAATTTTACAAACGA-GGGTATTTCGATAATTTTACA
89449779 TACCGGGGTC
Statistics
Matches: 256, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
53 6 0.02
54 204 0.80
55 44 0.17
56 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (53 bp):
GGTATTTCGGTAATTTTACAAACGAGGGTATTTCGATAATTTTACAAATCGAG
Found at i:89449529 original size:81 final size:81
Alignment explanation
Indices: 89449407--89449778 Score: 342
Period size: 81 Copynumber: 4.6 Consensus size: 81
89449397 ACCCTTTAGA
* * * * * * *
89449407 GGTATTTTGGTCATTTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTATTT-TAT
1 GGTATTTCGGTAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA-
*
89449471 TAAGTTTACAAATCGAG
65 TAATTTTACAAATCGAG
* * * *
89449488 GGTATTTTGGTAATTTTACAATTCGAGAGTATTTCGCTAATTTTACAAACTGGA-GGTATTTC-A
1 GGTATTTCGGTAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAA-TCGAGGGTATTTCGA
* * *
89449551 GTAATTCTACAAAACTGAA
65 -TAATTTTACAAATC-GAG
** * *
89449570 GGTATTTCGGTAATTTTACAAATT-GAGGGTATTTTAATAATTTTACAATTCAAGGGTATTTCGA
1 GGTATTTCGGTAATTTTAC-AATTCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
*
89449634 TAATTTTACAAATTTG-G
65 TAATTTTACAAA-TCGAG
** * * * * *
89449651 GGTATTTCGACAATTCTACAAATCGGGGGTATTTCGGTAATTTTACAATTCGAGGGTATTTCGAT
1 GGTATTTCGGTAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGAT
*
89449716 AATTTTACAATTCGAG
66 AATTTTACAAATCGAG
* * * * *
89449732 GGTATTTCGATAATTTTACAA-ACTAGGGGTATTTTGATAATTCTACA
1 GGTATTTCGGTAATTTTACAATTCGA-GGGTATTTCGATAATTTTACA
89449779 TACCGGGGTC
Statistics
Matches: 237, Mismatches: 44, Indels: 20
0.79 0.15 0.07
Matches are distributed among these distances:
80 6 0.03
81 164 0.69
82 62 0.26
83 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGAT
AATTTTACAAATCGAG
Found at i:89452889 original size:13 final size:13
Alignment explanation
Indices: 89452871--89452897 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89452861 AGAATAATCA
89452871 CACATGGGCGTGT
1 CACATGGGCGTGT
89452884 CACATGGGCGTGT
1 CACATGGGCGTGT
89452897 C
1 C
89452898 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:89461788 original size:29 final size:28
Alignment explanation
Indices: 89461752--89461829 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
89461742 TCATGAGATT
*
89461752 GGCACTAAGTGTGCGGGTTTAAATTGTGCA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
89461782 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
89461809 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
89461830 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
29 35 0.83
30 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:89462047 original size:144 final size:145
Alignment explanation
Indices: 89461807--89462079 Score: 476
Period size: 144 Copynumber: 1.9 Consensus size: 145
89461797 GTTTAAAGTA
* *
89461807 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGTGTGCGAACCCAATATATATTTTCT
* *
89461872 ATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
89461937 TGCAAACTTGAAATG
131 TGCAAACTTGAAATG
* * *
89461952 CATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATGTGTGC-AACCCAGTATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGTGTGCGAACCCAATATATATTTTCT
89462016 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
89462080 ACCTTGAGTT
Statistics
Matches: 121, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
144 80 0.66
145 41 0.34
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCAAACTTGAAATG
Found at i:89471426 original size:26 final size:27
Alignment explanation
Indices: 89471397--89471589 Score: 96
Period size: 27 Copynumber: 7.1 Consensus size: 27
89471387 CGCACGCTCA
89471397 AGTGCTATATAATCAACTCGCACA-TT
1 AGTGCTATATAATCAACTCGCACACTT
89471423 AGTGCCCTA-ATCATATCAACTCGCACACTT
1 AGTG--CTATAT-A-ATCAACTCGCACACTT
*
89471453 AGTGC-ATAATAGTC-ACTCGCACACTT
1 AGTGCTAT-ATAATCAACTCGCACACTT
* * ** *
89471479 AGTGGCCACATGGTCAATTCGCACACTT
1 AGT-GCTATATAATCAACTCGCACACTT
* **
89471507 AGTGC-ATCAT-TTCTATTTCGCACACTT
1 AGTGCTAT-ATAATC-AACTCGCACACTT
* * *
89471534 AGTGC-A-ACAGGTCAAATCGCACACTTT
1 AGTGCTATATA-ATCAACTCGCACAC-TT
* ** *
89471561 AGTGCTACATAGCCAAATCGCACACTT
1 AGTGCTATATAATCAACTCGCACACTT
89471588 AG
1 AG
89471590 GCTGTAATTT
Statistics
Matches: 137, Mismatches: 13, Indels: 33
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.01
26 31 0.23
27 47 0.34
28 35 0.26
29 17 0.12
30 6 0.04
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
AGTGCTATATAATCAACTCGCACACTT
Found at i:89471462 original size:29 final size:28
Alignment explanation
Indices: 89471397--89471511 Score: 105
Period size: 26 Copynumber: 4.2 Consensus size: 28
89471387 CGCACGCTCA
*
89471397 AGTGCTAT-ATAATCAACTCGCACA-TT
1 AGTGCCATAATAATCAACTCGCACACTT
*
89471423 AGTGCCCTAATCATATCAACTCGCACACTT
1 AGTGCCATAAT-A-ATCAACTCGCACACTT
*
89471453 AGTG-CATAATAGTC-ACTCGCACACTT
1 AGTGCCATAATAATCAACTCGCACACTT
* ** *
89471479 AGTGGCCA-CATGGTCAATTCGCACACTT
1 AGT-GCCATAATAATCAACTCGCACACTT
89471507 AGTGC
1 AGTGC
89471512 ATCATTTCTA
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
26 21 0.28
27 12 0.16
28 18 0.24
29 18 0.24
30 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
AGTGCCATAATAATCAACTCGCACACTT
Found at i:89471507 original size:54 final size:53
Alignment explanation
Indices: 89471438--89471589 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 53
89471428 CCTAATCATA
* * *
89471438 TCAACTCGCACACTTAGTGCATAATAGTC-ACTCGCACACTTAGTGGCCACATGG
1 TCAAATCGCACACTTAGTGCATAATAGTCAAATCGCACACTTAGT-GCAACA-GG
* * * **
89471492 TCAATTCGCACACTTAGTGCATCAT-TTCTATTTCGCACACTTAGTGCAACAGG
1 TCAAATCGCACACTTAGTGCATAATAGTC-AAATCGCACACTTAGTGCAACAGG
*
89471545 TCAAATCGCACACTTTAGTGC-TACATAGCCAAATCGCACACTTAG
1 TCAAATCGCACAC-TTAGTGCATA-ATAGTCAAATCGCACACTTAG
89471590 GCTGTAATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
53 17 0.21
54 50 0.62
55 14 0.17
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCAAATCGCACACTTAGTGCATAATAGTCAAATCGCACACTTAGTGCAACAGG
Found at i:89471562 original size:27 final size:27
Alignment explanation
Indices: 89471438--89471589 Score: 132
Period size: 27 Copynumber: 5.6 Consensus size: 27
89471428 CCTAATCATA
* *
89471438 TCAACTCGCACACTTAGTGCATA-ATAG
1 TCAAATCGCACACTTAGTGCA-ACATGG
* *
89471465 TC-ACTCGCACACTTAGTGGCCACATGG
1 TCAAATCGCACACTTAGT-GCAACATGG
* * *
89471492 TCAATTCGCACACTTAGTGCATCAT-T
1 TCAAATCGCACACTTAGTGCAACATGG
**
89471518 TCTATTTCGCACACTTAGTGCAACA-GG
1 TC-AAATCGCACACTTAGTGCAACATGG
* *
89471545 TCAAATCGCACACTTTAGTGCTACATAG
1 TCAAATCGCACAC-TTAGTGCAACATGG
*
89471573 CCAAATCGCACACTTAG
1 TCAAATCGCACACTTAG
89471590 GCTGTAATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
26 27 0.26
27 50 0.48
28 27 0.26
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCAACATGG
Found at i:89483418 original size:28 final size:28
Alignment explanation
Indices: 89483381--89483456 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 28
89483371 CATGAAGATT
89483381 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
89483411 -GCA-TAAGTGTGC-GGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
89483436 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
89483457 GATTATTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
25 5 0.12
27 11 0.27
28 18 0.44
29 3 0.07
30 4 0.10
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:89485364 original size:27 final size:27
Alignment explanation
Indices: 89485334--89485539 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
89485324 ATATTAAGTC
* *
89485334 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
89485361 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
89485389 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
89485416 CGCACACTTAGTGCGCGCATGGTCAATT
1 CGCACACTTAGTGC-TACATAATCAACT
** **
89485444 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
89485471 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
89485498 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
89485525 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89485540 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.68
28 49 0.32
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89485418 original size:55 final size:54
Alignment explanation
Indices: 89485334--89485538 Score: 250
Period size: 55 Copynumber: 3.8 Consensus size: 54
89485324 ATATTAAGTC
* * * **
89485334 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
89485389 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCGCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC-CACATGGTCAAAT
** ** *
89485444 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
89485498 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
89485539 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
54 45 0.35
55 75 0.59
56 8 0.06
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:89485474 original size:82 final size:81
Alignment explanation
Indices: 89485388--89485538 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 81
89485378 ATAATCAAAC
* * * * * *
89485388 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCGCGCATGGTCAATTCGCACACTT
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC-CACATAGCCAAATCGCACACTT
89485453 AGTGCATCATTTTCATT
65 AGTGCATCATTTTCATT
* *
89485470 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
89485535 GTGC
66 GTGC
89485539 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
81 22 0.36
82 39 0.64
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:89493510 original size:27 final size:27
Alignment explanation
Indices: 89493480--89493684 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
89493470 ATATTAAGTC
* *
89493480 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
89493507 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
89493535 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
89493562 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
89493589 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
89493616 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
89493643 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
89493670 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89493685 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89493619 original size:54 final size:54
Alignment explanation
Indices: 89493480--89493683 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
89493470 ATATTAAGTC
* * * **
89493480 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
89493535 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
89493589 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
89493643 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
89493684 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:89493649 original size:81 final size:81
Alignment explanation
Indices: 89493534--89493683 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
89493524 ATAATCAAAC
* * * * * *
89493534 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
89493599 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
89493615 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
89493680 GTGC
66 GTGC
89493684 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:89497765 original size:24 final size:24
Alignment explanation
Indices: 89497733--89497824 Score: 148
Period size: 24 Copynumber: 3.8 Consensus size: 24
89497723 GTCAGAAGAA
89497733 GATTTAGGAGCTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
89497757 GATTTAGGAGCTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
* * *
89497781 GATTTAGGAGCTGGTAAAGGAGAA
1 GATTTAGGAGCTGATAAGGGAGAG
89497805 GATTTAGGAGCTGATCAAGG
1 GATTTAGGAGCTGAT-AAGG
89497825 AACAGGAGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 59 0.95
25 3 0.05
ACGTcount: A:0.34, C:0.05, G:0.39, T:0.22
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAGAG
Found at i:89499796 original size:35 final size:35
Alignment explanation
Indices: 89499753--89499822 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
89499743 CTAGGATCAT
*
89499753 ATATCTTTGAAGATCACCTTCCATATTTTCCAAGC
1 ATATCTTTGAAGATCACCTTCCATATTTACCAAGC
* * *
89499788 ATATCTTTGAAGATTACTTTCCTTATTTACCAAGC
1 ATATCTTTGAAGATCACCTTCCATATTTACCAAGC
89499823 TCCAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (35 bp):
ATATCTTTGAAGATCACCTTCCATATTTACCAAGC
Found at i:89501265 original size:40 final size:40
Alignment explanation
Indices: 89501221--89501314 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
89501211 ACTATGTTTG
* *
89501221 GCACTTAGTATGCGTTTCAAAGTAGCTTCGGCTAGAAATA
1 GCACTTAGTATGCATTTCAAAATAGCTTCGGCTAGAAATA
* *
89501261 GCACTTAGTGTGCATTTCAAAATAGCTTCGGCTATAAATA
1 GCACTTAGTATGCATTTCAAAATAGCTTCGGCTAGAAATA
*
89501301 GCACTTAGTGTGCA
1 GCACTTAGTATGCA
89501315 AATTGGAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (40 bp):
GCACTTAGTATGCATTTCAAAATAGCTTCGGCTAGAAATA
Found at i:89501451 original size:44 final size:43
Alignment explanation
Indices: 89501337--89501438 Score: 158
Period size: 39 Copynumber: 2.4 Consensus size: 43
89501327 TTCAGCTATA
89501337 TGAGGCACTAAGTGTGCGATATCGAGATAGCTAAGATTTAATG
1 TGAGGCACTAAGTGTGCGATATCGAGATAGCTAAGATTTAATG
*
89501380 TGA--CA--AAGTGTACGATATCGAGATAGCTAAGATTTAATG
1 TGAGGCACTAAGTGTGCGATATCGAGATAGCTAAGATTTAATG
89501419 TGATGGCACTAAGTGTGCGA
1 TGA-GGCACTAAGTGTGCGA
89501439 GATCATTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
39 36 0.69
41 2 0.04
42 2 0.04
43 3 0.06
44 9 0.17
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (43 bp):
TGAGGCACTAAGTGTGCGATATCGAGATAGCTAAGATTTAATG
Found at i:89503291 original size:20 final size:22
Alignment explanation
Indices: 89503257--89503297 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
89503247 AACTATATGA
89503257 ATTTTAGCAAAAATTA-AACAC
1 ATTTTAGCAAAAATTATAACAC
*
89503278 ATTTT-GCAACAATTATAACA
1 ATTTTAGCAAAAATTATAACA
89503298 TAAATAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (22 bp):
ATTTTAGCAAAAATTATAACAC
Found at i:89515308 original size:27 final size:27
Alignment explanation
Indices: 89515278--89515444 Score: 174
Period size: 27 Copynumber: 6.2 Consensus size: 27
89515268 AAAGTACTCC
**
89515278 CGATTTACAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
89515305 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
89515332 TGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
89515359 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
89515386 C-AGTTTAAAAAATTATCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
89515413 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
89515440 CGATT
1 CGATT
89515445 GTGAAATTAC
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 112 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:89515337 original size:54 final size:54
Alignment explanation
Indices: 89515279--89515444 Score: 208
Period size: 54 Copynumber: 3.1 Consensus size: 54
89515269 AAGTACTCCC
* * *
89515279 GATTTACAGAATTATTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
1 GATTTAAAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
** * *
89515333 GATTTGTAAAATTATCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCC-T
1 GATTTAAAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
* * * * *
89515386 CAGTTTAAAAAATTATCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC
1 GA-TTTAAAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
89515441 GATT
1 GATT
89515445 GTGAAATTAC
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.02
54 91 0.97
55 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (54 bp):
GATTTAAAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTT
Found at i:89515369 original size:81 final size:81
Alignment explanation
Indices: 89515278--89515444 Score: 212
Period size: 81 Copynumber: 2.1 Consensus size: 81
89515268 AAAGTACTCC
* * * * * * *
89515278 CGATTTACAGAATTATTGTTTTACCCTC-GATTTACAGAATTA-CTGTTTTACCCTTGATTTGTA
1 CGATTTACAGAATTACTGGTTTACCCTCAG-TTTAAAAAATTATC-ATTTTACCCTCGATTTATA
*
89515341 AAATTATCGTTTTACCCT
64 AAATTACCGTTTTACCCT
* *
89515359 TGATTTACAGAATTACTGGTTTACCCTCAGTTTAAAAAATTATCATTTTACCCTCGATTTATAGA
1 CGATTTACAGAATTACTGGTTTACCCTCAGTTTAAAAAATTATCATTTTACCCTCGATTTATAAA
89515424 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
89515440 CGATT
1 CGATT
89515445 GTGAAATTAC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 71 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (81 bp):
CGATTTACAGAATTACTGGTTTACCCTCAGTTTAAAAAATTATCATTTTACCCTCGATTTATAAA
ATTACCGTTTTACCCT
Found at i:89515568 original size:81 final size:80
Alignment explanation
Indices: 89515456--89515607 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 80
89515446 TGAAATTACT
* * *
89515456 GAAATACCCCTATAGGGAAGAATTACTAAAATACCCTTATAGGATAGAATTACCGAAATACCCTT
1 GAAATACCCCTATAGGGAAGAAATACCAAAATACCCATATAGGATAGAATTACCGAAATACCCTT
89515521 GTAGGGTAGAATTATC
66 GT-GGGTAGAATTATC
* * * * * * *
89515537 GAAATACCCTTGTAGGGTATAAATACCAAAATACCCATGTAGGGTAGAATTACCGAGATACCCTT
1 GAAATACCCCTATAGGGAAGAAATACCAAAATACCCATATAGGATAGAATTACCGAAATACCCTT
89515602 GTGGGT
66 GTGGGT
89515608 TAAATTTACC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 4 0.07
81 57 0.93
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (80 bp):
GAAATACCCCTATAGGGAAGAAATACCAAAATACCCATATAGGATAGAATTACCGAAATACCCTT
GTGGGTAGAATTATC
Found at i:89515617 original size:27 final size:27
Alignment explanation
Indices: 89515449--89515607 Score: 185
Period size: 27 Copynumber: 5.9 Consensus size: 27
89515439 TCGATTGTGA
* * * *
89515449 AATTACTGAAATACCCCTATAGGGAAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
89515476 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
89515503 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
89515530 AATTATCGAAATACCCTTGTAGGGTAT
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
89515557 AAATACCAAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
89515584 AATTACCGAGATACCCTTGT-GGGT
1 AATTACCGAAATACCCTTGTAGGGT
89515608 TAAATTTACC
Statistics
Matches: 113, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.04
27 109 0.96
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:89515854 original size:27 final size:26
Alignment explanation
Indices: 89515816--89515898 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
89515806 CGGAGGAAGC
*
89515816 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
89515843 GTTCTGGTGGCTCTGCCACAATATTT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
89515869 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
89515896 GTT
1 GTT
89515899 GATCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:89516018 original size:22 final size:22
Alignment explanation
Indices: 89515986--89516044 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
89515976 CCCGTTATTA
*
89515986 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
89516008 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
89516030 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
89516045 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:89516249 original size:27 final size:27
Alignment explanation
Indices: 89516209--89516282 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
89516199 TAGGTGGGTT
* *
89516209 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTGATTCTGGTGACTC
*
89516236 TGCCACAATGTCTG-TATCTGGTGACTC
1 TGCCACAATATCTGAT-TCTGGTGACTC
* *
89516263 TGTCACGATATCT-ATTCTGG
1 TGCCACAATATCTGATTCTGG
89516283 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGATTCTGGTGACTC
Found at i:89516411 original size:6 final size:6
Alignment explanation
Indices: 89516400--89516499 Score: 64
Period size: 6 Copynumber: 16.5 Consensus size: 6
89516390 TTGCATTCAC
* * * * *
89516400 TCTGAT TCTGAT TCTG-T CACCTAAT TTTGAT TCTGGT TTTGAT TCTG-T
1 TCTGAT TCTGAT TCTGAT --TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
* *
89516448 TACTAAT AT-TGAT TCTGAT TCTGAT TCTG-T TACTAAT TCTGAT TCTGAT
1 T-CTGAT -TCTGAT TCTGAT TCTGAT TCTGAT T-CTGAT TCTGAT TCTGAT
89516497 TCT
1 TCT
89516500 CATTTTGGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
5 6 0.08
6 58 0.82
7 5 0.07
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
TCTGAT
Found at i:89516460 original size:30 final size:29
Alignment explanation
Indices: 89516400--89516499 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 29
89516390 TTGCATTCAC
*
89516400 TCTGATTCTGATTCTGTCACCTAATTTTGAT
1 TCTGATTCTGATTCTGTTA-CTAA-TTTGAT
* *
89516431 TCTGGTTTTGATTCTGTTACTAATATTGAT
1 TCTGATTCTGATTCTGTTACTAAT-TTGAT
89516461 TCTGATTCTGATTCTGTTACTAATTCTGAT
1 TCTGATTCTGATTCTGTTACTAATT-TGAT
89516491 TCTGATTCT
1 TCTGATTCT
89516500 CATTTTGGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.03
30 44 0.71
31 16 0.26
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (29 bp):
TCTGATTCTGATTCTGTTACTAATTTGAT
Found at i:89524092 original size:50 final size:50
Alignment explanation
Indices: 89524012--89524113 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
89524002 TATGTCTGCA
* *
89524012 AAATTGTATTCACAATTTATACAATATTAAAGCATTTAAAACATAAATAT
1 AAATCGTATTCACAATTTATACAATATTAAAACATTTAAAACATAAATAT
*
89524062 AAATCGTATTCACAATTTATGCAATATTAAAACATTTAAAACATAAATAT
1 AAATCGTATTCACAATTTATACAATATTAAAACATTTAAAACATAAATAT
89524112 AA
1 AA
89524114 CAATGCTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (50 bp):
AAATCGTATTCACAATTTATACAATATTAAAACATTTAAAACATAAATAT
Found at i:89534216 original size:17 final size:17
Alignment explanation
Indices: 89534194--89534241 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
89534184 AATAAAAGGG
89534194 ATTGTTTTAATTAACTA
1 ATTGTTTTAATTAACTA
* * *
89534211 ATTGTTTAAACTAATTA
1 ATTGTTTTAATTAACTA
* *
89534228 ACTGATTTAATTAA
1 ATTGTTTTAATTAA
89534242 AGCAAAGAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTGTTTTAATTAACTA
Found at i:89536556 original size:58 final size:57
Alignment explanation
Indices: 89536466--89536581 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 57
89536456 ATTTGGGTTT
*
89536466 TTGATGTCATTCCTGTATACTTAAGATTTCAAGATAATACCTCAATTTAGAAATATAA
1 TTGATGTCATTCCTGTATACTTAAGATTTCAAGATAATACCTCAATTTA-AAAAATAA
89536524 TTGATGTCATTCCTGTATACTTAAGATTTCAAGATAATACCTCAATTTAAAAAATAA
1 TTGATGTCATTCCTGTATACTTAAGATTTCAAGATAATACCTCAATTTAAAAAATAA
89536581 T
1 T
89536582 CTAAAAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 8 0.14
58 49 0.86
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (57 bp):
TTGATGTCATTCCTGTATACTTAAGATTTCAAGATAATACCTCAATTTAAAAAATAA
Found at i:89537226 original size:6 final size:6
Alignment explanation
Indices: 89537217--89537265 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
89537207 GAAATGAAAT
*
89537217 TAAAAA TAAAAA TAAAAA T--AAA -AAAAA TAAAAA TAAAAA TAAGAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
89537262 TAAA
1 TAAA
89537266 TAACAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 3 0.08
5 3 0.08
6 32 0.84
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:89537244 original size:15 final size:15
Alignment explanation
Indices: 89537224--89537277 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
89537214 AATTAAAAAT
89537224 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
89537239 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
* *
89537254 AATAAGAATAAATAACA
1 AAAAATAA-AAATAA-A
89537271 AAAAATA
1 AAAAATA
89537278 GGATGAGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 21 0.64
16 6 0.18
17 6 0.18
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAATAAA
Found at i:89537244 original size:21 final size:22
Alignment explanation
Indices: 89537218--89537268 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
89537208 AAATGAAATT
89537218 AAAAATAAAAATAAAAATAA-A
1 AAAAATAAAAATAAAAATAAGA
89537239 AAAAATAAAAATAAAAATAAGA
1 AAAAATAAAAATAAAAATAAGA
*
89537261 ATAAATAA
1 AAAAATAA
89537269 CAAAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAATAAAAATAAGA
Done.