Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 67 of 195
Found at i:13221557 original size:45 final size:45
Alignment explanation
Indices: 13221508--13221618 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
13221498 GTACAGGCAC
* * *
13221508 TTGCCTCGATCACCATCGACACAAGCTAGCCCTTGGTGAGGGTGG
1 TTGCCTCGATCACCATCGACAAAAGATAGCCCTTGGTGAGGGCGG
* * * *
13221553 TTGCCTCGATGAGCATCGGCAAAAGATGGCCCTTGGTGAGGGCGG
1 TTGCCTCGATCACCATCGACAAAAGATAGCCCTTGGTGAGGGCGG
*
13221598 TTGCCTCGAGCACCATCGACA
1 TTGCCTCGATCACCATCGACA
13221619 TGTGTTGGGC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (45 bp):
TTGCCTCGATCACCATCGACAAAAGATAGCCCTTGGTGAGGGCGG
Found at i:13224224 original size:22 final size:22
Alignment explanation
Indices: 13224199--13224248 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
13224189 TTAGGTCATC
13224199 CGGTCTGCCTCATAGTGAGCAT
1 CGGTCTGCCTCATAGTGAGCAT
13224221 CGGTCTGCCTCATAGTGAGCAT
1 CGGTCTGCCTCATAGTGAGCAT
13224243 CGGTCT
1 CGGTCT
13224249 ACTCATCGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (22 bp):
CGGTCTGCCTCATAGTGAGCAT
Found at i:13231558 original size:45 final size:45
Alignment explanation
Indices: 13231498--13231596 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
13231488 ACATCGATAG
* ** *
13231498 AAGATGGTCCC-TGGTGTGTACGGTTGCCTCGAGCACCATCGGCAC
1 AAGATGG-CCCTTGGTGTGGACACTTGCCTCGACCACCATCGGCAC
* * * *
13231543 AAGCTGGCCCTTGGTGTGGGCACTTGCCTTGACCACCATCGGCAG
1 AAGATGGCCCTTGGTGTGGACACTTGCCTCGACCACCATCGGCAC
13231588 AAGATGGCC
1 AAGATGGCC
13231597 TCCGATGCGG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 3 0.07
45 41 0.93
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.21
Consensus pattern (45 bp):
AAGATGGCCCTTGGTGTGGACACTTGCCTCGACCACCATCGGCAC
Found at i:13238946 original size:26 final size:26
Alignment explanation
Indices: 13238910--13238963 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
13238900 TAAGGGCCCA
13238910 TGGCCCCCTAGGGCACGTGTCGTAGG
1 TGGCCCCCTAGGGCACGTGTCGTAGG
*
13238936 TGGCCCCCTAGGGCATGTGTCGTAGG
1 TGGCCCCCTAGGGCACGTGTCGTAGG
13238962 TG
1 TG
13238964 TAGACTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.28, G:0.39, T:0.22
Consensus pattern (26 bp):
TGGCCCCCTAGGGCACGTGTCGTAGG
Found at i:13239072 original size:6 final size:6
Alignment explanation
Indices: 13239056--13239089 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13239046 TTTGATTCGT
*
13239056 CCCTCCC CCCTCC CCCTCC CCCTCC CCTTCC CCC
1 CCCT-CC CCCTCC CCCTCC CCCTCC CCCTCC CCC
13239090 GTCGACCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (6 bp):
CCCTCC
Found at i:13240097 original size:45 final size:45
Alignment explanation
Indices: 13240014--13240099 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
13240004 TGTGACATAT
* *
13240014 GCACATGCCTTAACCACCATCGAGACATGTTAGCCCTTGGTCTCA
1 GCACATGCCTTAACCACCATCGAGACATGCTAGACCTTGGTCTCA
* * *
13240059 GCACATGCTTTGACCACCATC-AGTGCATGCTAGACCTTGGT
1 GCACATGCCTTAACCACCATCGAG-ACATGCTAGACCTTGGT
13240100 GCAGGTAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 33 0.94
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
GCACATGCCTTAACCACCATCGAGACATGCTAGACCTTGGTCTCA
Found at i:13241463 original size:45 final size:45
Alignment explanation
Indices: 13241414--13241507 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
13241404 AGATGGTCTC
* * * * *
13241414 TGGTGCATGCGGTTGCCTCAAACACCATCGGTACATGCTGGGCCT
1 TGGTGCAGGCGGTTACCTCAAACACCATCGGCACAAGCTGGCCCT
* * *
13241459 TGGTGCGGGCGGTTACCTCAAGCATCATCGGCACAAGCTGGCCCT
1 TGGTGCAGGCGGTTACCTCAAACACCATCGGCACAAGCTGGCCCT
13241504 TGGT
1 TGGT
13241508 ATGGGCATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (45 bp):
TGGTGCAGGCGGTTACCTCAAACACCATCGGCACAAGCTGGCCCT
Found at i:13241648 original size:90 final size:90
Alignment explanation
Indices: 13241484--13241648 Score: 195
Period size: 90 Copynumber: 1.8 Consensus size: 90
13241474 CCTCAAGCAT
* * ** * * *
13241484 CATCGGCACAAGCTGGCCCTTGGTATGGGCATTTGCCTTGACCACCATTTGCAGAAGATAGCCCC
1 CATCGGCACAAGCTGGCCCTTGGTACGAGCACATGCCTCGACCACCATTGGCACAAGATAGCCCC
*
13241549 TAGTGTGGGCGGTTGTGTGGAACAC
66 TAGTATGGGCGGTTGTGTGGAACAC
* * * * * *
13241574 CATCGGCACATGCTGGGCCTTGGTGCGAGCACATGCCTCGACCACCATTGGCACAATATGGCCCT
1 CATCGGCACAAGCTGGCCCTTGGTACGAGCACATGCCTCGACCACCATTGGCACAAGATAGCCCC
*
13241639 TGGTATGGGC
66 TAGTATGGGC
13241649 ACTTGACTCG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
90 60 1.00
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (90 bp):
CATCGGCACAAGCTGGCCCTTGGTACGAGCACATGCCTCGACCACCATTGGCACAAGATAGCCCC
TAGTATGGGCGGTTGTGTGGAACAC
Found at i:13241846 original size:44 final size:42
Alignment explanation
Indices: 13241783--13241866 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 42
13241773 TCGACCACCT
*
13241783 TCGATGCATGCATGCCTCAATCAGCAT-GCGCACAAGATGGAA
1 TCGATGCAAGCATGCCTCAATCAGCATAG-GCACAAGATGGAA
*
13241825 TCGATGCAAGCACTTGCCTCAATCAGCATAGGCAGAAGATGG
1 TCGATGCAAGCA--TGCCTCAATCAGCATAGGCACAAGATGG
13241867 CCCTTGGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 11 0.30
44 25 0.68
45 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (42 bp):
TCGATGCAAGCATGCCTCAATCAGCATAGGCACAAGATGGAA
Found at i:13246001 original size:23 final size:23
Alignment explanation
Indices: 13245971--13246026 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
13245961 TCAACCATCA
13245971 ACGGCACATGATGGTGCATGGTG
1 ACGGCACATGATGGTGCATGGTG
13245994 ACGGCACATGATGGTGCATGGTG
1 ACGGCACATGATGGTGCATGGTG
*
13246017 ATGGCACATG
1 ACGGCACATG
13246027 CATCGACCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (23 bp):
ACGGCACATGATGGTGCATGGTG
Found at i:13246441 original size:45 final size:46
Alignment explanation
Indices: 13246392--13246588 Score: 141
Period size: 45 Copynumber: 4.4 Consensus size: 46
13246382 GTGTGGGCGG
*
13246392 TTGCCTCGAGCACCATCGACACAAG-TCAGCCTTTGGTGCAGGCAC
1 TTGCCTCGACCACCATCGACACAAGATCAGCCTTTGGTGCAGGCAC
* * * * * * * ***
13246437 TTGCCTTGACCACCATCGATAGAAGAT-GGCCTCTAGTGCGGGTGG
1 TTGCCTCGACCACCATCGACACAAGATCAGCCTTTGGTGCAGGCAC
* * * * * * ** *
13246482 TTGCATCGAACACTATCGGCACATGTTGGGCC-TTGGTGCGGGCAC
1 TTGCCTCGACCACCATCGACACAAGATCAGCCTTTGGTGCAGGCAC
* * * *
13246527 ATGCCTCGACCACCATTGGCACAAG-TCAGCCCTTGGTGCAGGCAC
1 TTGCCTCGACCACCATCGACACAAGATCAGCCTTTGGTGCAGGCAC
*
13246572 TTGCCTCGATCACCATC
1 TTGCCTCGACCACCATC
13246589 AGCACGTGCC
Statistics
Matches: 112, Mismatches: 37, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
44 4 0.04
45 103 0.92
46 5 0.04
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.22
Consensus pattern (46 bp):
TTGCCTCGACCACCATCGACACAAGATCAGCCTTTGGTGCAGGCAC
Found at i:13246598 original size:22 final size:21
Alignment explanation
Indices: 13246568--13246620 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
13246558 CTTGGTGCAG
*
13246568 GCACTTGCCTCGATCACCATC
1 GCACGTGCCTCGATCACCATC
*
13246589 AGCACGTGCCTTGATCACCATC
1 -GCACGTGCCTCGATCACCATC
13246611 GACACGTGCC
1 G-CACGTGCC
13246621 ATGCCTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (21 bp):
GCACGTGCCTCGATCACCATC
Found at i:13252915 original size:149 final size:150
Alignment explanation
Indices: 13252626--13252933 Score: 422
Period size: 149 Copynumber: 2.1 Consensus size: 150
13252616 AATGGTCCAC
* * * *
13252626 GAATTCATATGAGCACTCCTCAACGCCCGCACACCACGCACAGGTGTCCTGAGCCCGGGCCGAGC
1 GAATTCATATGAGCACTCCCCAACACCCACACACCACACACAGGTGTCCTGAGCCCGGGCCGAGC
* * * *
13252691 ACCAATGAGCGCCACGACTGGGTGGTAGGTGGGTTTAGGCACATCTTTATATTTCTATCATGCCA
66 ACCAATGAGCGCCACGACTGGGTGGTAGGTGGGTTTAGGCACATCCTCAAATTTCTATAATGCCA
13252756 ATGCCATTTTTATGGCCTGT
131 ATGCCATTTTTATGGCCTGT
* * * *
13252776 GAATTCATATGAGCACTCCCCAGCACCCACACACCACACGCTGGTGTCCTGAGCCTGGGCCGAGC
1 GAATTCATATGAGCACTCCCCAACACCCACACACCACACACAGGTGTCCTGAGCCCGGGCCGAGC
* * * * *
13252841 AGC-ATGCGTGCCACGA-TAGGGTGGTAGGTGGGTTTAGGCACATCCTCAAATTTTTGTAATGCC
66 ACCAATGAGCGCCACGACT-GGGTGGTAGGTGGGTTTAGGCACATCCTCAAATTTCTATAATGCC
*
13252904 AATGCCATTTTTATGGCTTGT
130 AATGCCATTTTTATGGCCTGT
*
13252925 AAATTCATA
1 GAATTCATA
13252934 CAATGGTCCC
Statistics
Matches: 138, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
148 1 0.01
149 78 0.57
150 59 0.43
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (150 bp):
GAATTCATATGAGCACTCCCCAACACCCACACACCACACACAGGTGTCCTGAGCCCGGGCCGAGC
ACCAATGAGCGCCACGACTGGGTGGTAGGTGGGTTTAGGCACATCCTCAAATTTCTATAATGCCA
ATGCCATTTTTATGGCCTGT
Found at i:13253981 original size:45 final size:44
Alignment explanation
Indices: 13253927--13254075 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 44
13253917 GGTACTTACC
* *
13253927 TCAACCACCATTGGTAGAAAATGGCCCTTGGTGTGGGTGGTTGCA
1 TCAAACACCATCGGTAGAAAATGGCCCTTGGTGT-GGTGGTTGCA
* * * * * * *
13253972 TCAAACACCATCAGTACATACTGGGCCTTGGTGTAGGTGATTGCT
1 TCAAACACCATCGGTAGAAAATGGCCCTTGGTGT-GGTGGTTGCA
* * * * * *
13254017 TCGATCACCATCGGTAGAAGATGGCCCTCGATGATGGTGGTTGCC
1 TCAAACACCATCGGTAGAAAATGGCCCTTGGTG-TGGTGGTTGCA
*
13254062 TCGAACACCATCGG
1 TCAAACACCATCGG
13254076 CACATGCTGG
Statistics
Matches: 80, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
45 79 0.99
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (44 bp):
TCAAACACCATCGGTAGAAAATGGCCCTTGGTGTGGTGGTTGCA
Found at i:13254107 original size:45 final size:45
Alignment explanation
Indices: 13254058--13254143 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
13254048 TGATGGTGGT
* * *
13254058 TGCCTCGAAC-ACCATCGGCACATGCTGGGCCTTGGTATGGGCACA
1 TGCCT-GAACTACCATCGGCACAAGCCGGCCCTTGGTATGGGCACA
* *
13254103 TGCCTTAACTACCATCGGCACAAGCCGGCCCTTGGTGTGGG
1 TGCCTGAACTACCATCGGCACAAGCCGGCCCTTGGTATGGG
13254144 TACTTACCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.09
45 32 0.91
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (45 bp):
TGCCTGAACTACCATCGGCACAAGCCGGCCCTTGGTATGGGCACA
Found at i:13268846 original size:13 final size:13
Alignment explanation
Indices: 13268828--13268852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13268818 CAACGGCACA
13268828 TGATGGCACATGG
1 TGATGGCACATGG
13268841 TGATGGCACATG
1 TGATGGCACATG
13268853 CATCAACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13283706 original size:148 final size:148
Alignment explanation
Indices: 13283492--13283839 Score: 348
Period size: 148 Copynumber: 2.3 Consensus size: 148
13283482 AGCAGTAAGT
* * * *
13283492 GGTTTCAGGGATATCTTCATGTTTCTA-CAGTGTCAAAGCCATTTTTGTGGTCCATGAATACATA
1 GGTTT-AGGGATATCTTCATATTTCTACCA-TGCCAATGCCATTTTTATGG-CCATGAATACATA
* * *
13283556 TGAGTGCTTCCC-AACGCCCGCGCACCATA-CGC-GGTGTCCTAAGCCCGGGTCGAGCACCAATG
63 TGAGTAC-TCCCTAACGCCCGCACACCA-AGCGCAGGTGTCCTAAGCCAGGGTCGAGCACC-ATG
13283618 -AGCACCACGACCAGGTGGCAGGTG
125 CA-CACCACGACCAGGTGGCAGGTG
* *
13283642 GGTTTAGGGATATCTTCATATTTCTACCATG-CAATGCCATTTTTATGGCCTGTGAATTCATATG
1 GGTTTAGGGATATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGCC-ATGAATACATATG
** * * * * * *
13283706 AGTACTCCCTAGTGCCCGCACACCAAGTGCAGGTGTCTTGAGCTAGGGTTGAGCACCATGCACGC
65 AGTACTCCCTAACGCCCGCACACCAAGCGCAGGTGTCCTAAGCCAGGGTCGAGCACCATGCACAC
* * *
13283771 CACGATCGGGTGGTAGGTG
130 CACGACCAGGTGGCAGGTG
* * * * * *
13283790 GGTTTAGGCACATCTTTATATTTATGCCATGCCAATGCCATTTTCATGGC
1 GGTTTAGGGATATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGC
13283840 TTTTAAATTC
Statistics
Matches: 166, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
147 7 0.04
148 91 0.55
149 61 0.37
150 7 0.04
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (148 bp):
GGTTTAGGGATATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGCCATGAATACATATGA
GTACTCCCTAACGCCCGCACACCAAGCGCAGGTGTCCTAAGCCAGGGTCGAGCACCATGCACACC
ACGACCAGGTGGCAGGTG
Found at i:13289510 original size:21 final size:21
Alignment explanation
Indices: 13289495--13289535 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13289485 CTCCATCTGT
13289495 TGGCGCATGGCCTCCATGCCA
1 TGGCGCATGGCCTCCATGCCA
13289516 TGGCGCATGGCCTCCATGCC
1 TGGCGCATGGCCTCCATGCC
13289536 GTCACGCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.39, G:0.29, T:0.20
Consensus pattern (21 bp):
TGGCGCATGGCCTCCATGCCA
Found at i:13289543 original size:21 final size:21
Alignment explanation
Indices: 13289498--13289543 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13289488 CATCTGTTGG
**
13289498 CGCATGGCCTCCATGCCATGG
1 CGCATGGCCTCCATGCCATCA
*
13289519 CGCATGGCCTCCATGCCGTCA
1 CGCATGGCCTCCATGCCATCA
13289540 CGCA
1 CGCA
13289544 AGGTCAGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.41, G:0.26, T:0.17
Consensus pattern (21 bp):
CGCATGGCCTCCATGCCATCA
Found at i:13290747 original size:90 final size:89
Alignment explanation
Indices: 13290594--13290854 Score: 287
Period size: 90 Copynumber: 2.9 Consensus size: 89
13290584 ACATGTGCCA
* * * **
13290594 TGCCTCGATCAGCATCGGTAGAAGATGGTCCCTGGTGCGTGCGGTTACCTTGAACACCATCAGCA
1 TGCCTCGATCACCATCGGTAGAAGATGG-CCCTAGTGAG-GCTATTACCTTGAACACCATCAGCA
*
13290659 CATGCTGGGCCTTGGTGT-GGGCAGT
64 CATGCTGGGCCTTGGTGTCGAGCAGT
* * *
13290684 TGCCTCGACCACCATCGGTAAAAGATGGCCCCTAGTGTAGGCTATTACGTTGAACACCATCAGCA
1 TGCCTCGATCACCATCGGTAGAAGATGG-CCCTAGTG-AGGCTATTACCTTGAACACCATCAGCA
*
13290749 CATGCTGGGCTTTGGT-TCGAGCAGT
64 CATGCTGGGCCTTGGTGTCGAGCAGT
* * * * * *
13290774 TGCATCGATCACCATCGGTAGAAGATTGCCATTGTTGCAGG-TGATTGCCTTGAACACCATCGGC
1 TGCCTCGATCACCATCGGTAGAAGATGGCCCTAG-TG-AGGCT-ATTACCTTGAACACCATCAGC
13290838 ACAT-CTGGGCCTTGGTG
63 ACATGCTGGGCCTTGGTG
13290855 CCAGCACATG
Statistics
Matches: 144, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
89 17 0.12
90 126 0.88
91 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (89 bp):
TGCCTCGATCACCATCGGTAGAAGATGGCCCTAGTGAGGCTATTACCTTGAACACCATCAGCACA
TGCTGGGCCTTGGTGTCGAGCAGT
Found at i:13290884 original size:23 final size:23
Alignment explanation
Indices: 13290834--13290888 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
13290824 TGAACACCAT
13290834 CGGCACAT-CTGGGCCTTGGTGC
1 CGGCACATGCTGGGCCTTGGTGC
* *
13290856 CAGCACATGCTGGGCCTTGGTGT
1 CGGCACATGCTGGGCCTTGGTGC
*
13290879 GGGCACATGC
1 CGGCACATGC
13290889 CTCAACCACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.13, C:0.29, G:0.36, T:0.22
Consensus pattern (23 bp):
CGGCACATGCTGGGCCTTGGTGC
Found at i:13299728 original size:149 final size:150
Alignment explanation
Indices: 13299478--13299753 Score: 401
Period size: 149 Copynumber: 1.8 Consensus size: 150
13299468 AACACCCGTG
*
13299478 CACCACGCGCGGGTGTCCTGAGCCCAGGCCAAGCACCAATGATCGCCACGACCGGGTGGTAGGTG
1 CACCACGCGCGGGTGTCCTGAGCCCAGGCCAAGCACCAATGAGCGCCACGACCGGGTGGTAGGTG
* * * * *
13299543 GGTTCATGCACATCTTCATATTTTTGCCATGCCAATGCCATTTTTATGGCCTGTGAATTCATGTG
66 GGTTCAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTCATGGCCTGTAAATTCATGTG
13299608 AGCACTCTTCAGTGCCCATA
131 AGCACTCTTCAGTGCCCATA
* * * * * * *
13299628 CACCACGCGCGGGTGTCTTGAGCCCGGGTCGAGCACC-ATGCGCGCCATGATCGGGTGGTAGGTG
1 CACCACGCGCGGGTGTCCTGAGCCCAGGCCAAGCACCAATGAGCGCCACGACCGGGTGGTAGGTG
* * *
13299692 GGTTTAGGTACATCTTCATATTTCTACCATGCCAATGCCATTTTCATGGCTTGTAAATTCAT
66 GGTTCAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTCATGGCCTGTAAATTCAT
13299754 ACAATGGTCC
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
149 77 0.70
150 33 0.30
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.27
Consensus pattern (150 bp):
CACCACGCGCGGGTGTCCTGAGCCCAGGCCAAGCACCAATGAGCGCCACGACCGGGTGGTAGGTG
GGTTCAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTCATGGCCTGTAAATTCATGTG
AGCACTCTTCAGTGCCCATA
Found at i:13300314 original size:13 final size:13
Alignment explanation
Indices: 13300296--13300320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13300286 CAACGGCACA
13300296 TGATGGCACATGG
1 TGATGGCACATGG
13300309 TGATGGCACATG
1 TGATGGCACATG
13300321 CATCGACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13300728 original size:45 final size:45
Alignment explanation
Indices: 13300641--13300919 Score: 213
Period size: 45 Copynumber: 6.2 Consensus size: 45
13300631 GTATGTGGAG
* * * *
13300641 TTGCCTCGAACACTATCGACACATGCTGGGCCTTGGTACGGGCGA-
1 TTGCCTCGAACACCATCGGCACATGCTGGCCCTTGGTGCGGGC-AC
* * *
13300686 TTGCCTCGAGCACTATCGGCACAAGCTGGCCCTTGGTGCGGGCAC
1 TTGCCTCGAACACCATCGGCACATGCTGGCCCTTGGTGCGGGCAC
* * * * * * * ** **
13300731 TTCCCTC-AACCACCATTGGTAGAGGATGGCCCCTGGTGTAGGCGG
1 TTGCCTCGAA-CACCATCGGCACATGCTGGCCCTTGGTGCGGGCAC
* * * * * **
13300776 TTGCATCGAACACCATCAGCACATGCTGGGCCTTGGTGAGTGCGG
1 TTGCCTCGAACACCATCGGCACATGCTGGCCCTTGGTGCGGGCAC
* *
13300821 TTGCCTCGAACACCATCGGCACATGCTGG-GCTTAGGTGCAGGCAC
1 TTGCCTCGAACACCATCGGCACATGCTGGCCCTT-GGTGCGGGCAC
* * * ** *
13300866 ATGCCTCGACCACCATCGGCACAAGCAAGCCCTTGGTGTGGGCAC
1 TTGCCTCGAACACCATCGGCACATGCTGGCCCTTGGTGCGGGCAC
13300911 TTGCCTCGA
1 TTGCCTCGA
13300920 TCTTCGTCAG
Statistics
Matches: 181, Mismatches: 48, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
44 5 0.03
45 171 0.94
46 5 0.03
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (45 bp):
TTGCCTCGAACACCATCGGCACATGCTGGCCCTTGGTGCGGGCAC
Found at i:13300903 original size:135 final size:135
Alignment explanation
Indices: 13300640--13300904 Score: 304
Period size: 135 Copynumber: 2.0 Consensus size: 135
13300630 GGTATGTGGA
* * * *
13300640 GTTGCCTCGAACACTATCGACACATGCTGGGCCTTGGTACGGGCGATTGCCTCGAGCACTATCGG
1 GTTGCATCGAACACCATCGACACATGCTGGGCCTTGGTACGGGCGATTGCCTCGAACACCATCGG
* * * * * * *
13300705 CACAAGCTGGCCCTTGGTGCGGGCACTTCCCTCAACCACCATTGGTAGAGGATGGCCCCTGGTGT
66 CACAAGCTGGCCCTTGGTGCAGGCACATCCCTCAACCACCATCGGCAAAGCATAGCCCCTGGTGT
13300770 AGGCG
131 AGGCG
* *
13300775 GTTGCATCGAACACCATC-AGCACATGCTGGGCCTTGGTGA-GTGCGGTTGCCTCGAACACCATC
1 GTTGCATCGAACACCATCGA-CACATGCTGGGCCTTGGT-ACGGGCGATTGCCTCGAACACCATC
* * * * *
13300838 GGCACATGCTGG-GCTTAGGTGCAGGCACATGCCTCGACCACCATCGGCACAAGCA-AGCCCTTG
64 GGCACAAGCTGGCCCTT-GGTGCAGGCACATCCCTCAACCACCATCGGCA-AAGCATAGCCCCTG
13300901 GTGT
127 GTGT
13300905 GGGCACTTGC
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
134 4 0.04
135 100 0.93
136 4 0.04
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (135 bp):
GTTGCATCGAACACCATCGACACATGCTGGGCCTTGGTACGGGCGATTGCCTCGAACACCATCGG
CACAAGCTGGCCCTTGGTGCAGGCACATCCCTCAACCACCATCGGCAAAGCATAGCCCCTGGTGT
AGGCG
Found at i:13305947 original size:150 final size:147
Alignment explanation
Indices: 13305688--13306043 Score: 374
Period size: 150 Copynumber: 2.4 Consensus size: 147
13305678 CGATTGGAGA
* * * * *
13305688 GTAGGTGGGTTCAAGG-ATATCTTCATGTTTCTGCAGTGCCAAAGCCATTTTTGTGGTCCATAAA
1 GTAGGTGGGTTC-AGGCACATCTTCATATTTCTCCA-TGCCAATGCCATTTTTATGG-CCATAAA
* * * * * ** * *
13305752 TTCATATGAGCACTCCCCAATGCCCGCCCACCACACGTGGGTGTCCTGAGCTCGGGCCGAGCGCC
63 TTCATATAAGCACTCCCCAACGCCCACACACCACACGCGACTGTCCTGAGCCCGGGCCGAGCACC
*
13305817 AATG-ATCACCACGAACGGGTG
128 -ATGCAT-ACCACGAACAGGTG
* *
13305838 GTAGGTGGGTTCAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGCCTGTGAAT
1 GTAGGTGGGTTCAGGCACATCTTCATATTTCT-CCATGCCAATGCCATTTTTATGGCC-ATAAAT
* * * * *
13305903 TCATATAAGCACTTCCTAGCGCCCACACACCACGCGCGACTGTCCTGAGCCCGGGTCGAGCACCA
64 TCATATAAGCACTCCCCAACGCCCACACACCACACGCGACTGTCCTGAGCCCGGGCCGAGCACCA
* * * *
13305968 TGCGTGCCATGATCAGGTG
129 TGCATACCACGAACAGGTG
* *
13305987 GTAGGTGAGTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGC
1 GTAGGTGGGTTCAGGCACATCTTCATATTTCT-CCATGCCAATGCCATTTTTATGGC
13306044 TTGTTCATAC
Statistics
Matches: 173, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
149 72 0.42
150 99 0.57
151 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (147 bp):
GTAGGTGGGTTCAGGCACATCTTCATATTTCTCCATGCCAATGCCATTTTTATGGCCATAAATTC
ATATAAGCACTCCCCAACGCCCACACACCACACGCGACTGTCCTGAGCCCGGGCCGAGCACCATG
CATACCACGAACAGGTG
Found at i:13313016 original size:45 final size:45
Alignment explanation
Indices: 13312967--13313068 Score: 114
Period size: 45 Copynumber: 2.3 Consensus size: 45
13312957 TTGTGTTGAA
* * * * *
13312967 CACCATCGGCATATGCTGGGCCTTGGTACGTGCACATGCCTCGAT
1 CACCATCGGCACAAGCTGGCCCTTGGTACGGGCACATACCTCGAT
* * * * *
13313012 CACCATCAGTACAAGTTGGCCCTTGGTGCGGGCACTTACCTCGAT
1 CACCATCGGCACAAGCTGGCCCTTGGTACGGGCACATACCTCGAT
13313057 CACCATCGGCAC
1 CACCATCGGCAC
13313069 GTGCCATGCC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (45 bp):
CACCATCGGCACAAGCTGGCCCTTGGTACGGGCACATACCTCGAT
Found at i:13321079 original size:24 final size:24
Alignment explanation
Indices: 13321047--13321107 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
13321037 CGATCATCAG
13321047 TGCCCACACATCGGTCTGACTACA
1 TGCCCACACATCGGTCTGACTACA
* * *
13321071 TGCCCACACGTCGGTCTGACTGCG
1 TGCCCACACATCGGTCTGACTACA
13321095 TGCCCACACATCG
1 TGCCCACACATCG
13321108 CTCACCAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.20, C:0.39, G:0.21, T:0.20
Consensus pattern (24 bp):
TGCCCACACATCGGTCTGACTACA
Found at i:13321860 original size:149 final size:150
Alignment explanation
Indices: 13321552--13321874 Score: 400
Period size: 149 Copynumber: 2.2 Consensus size: 150
13321542 TAGTGCTAAA
* * * * * * **
13321552 GCCATTTTTGTGGTCC-ATGAATTCATATGAGCGCTCCCCAACGCCTGTGCACCACGCGCGGGTG
1 GCCATTTTTATGG-CCTGTGAATTCATATAAGCACTCCCCAACACCCGCACACCACGCGCGGGTG
* * * *
13321616 TCCTGAGCCTAGGTCGAGCACCAATGATCGCCACGACCGGGTGGTAGGTGGGTTCAGGCACATCT
65 TCCTGAGCCTAGGTCGAGCACCAATGAGCACCACGACCGGATGGTAGGTGAGTTCAGGCACATCT
* *
13321681 TCATATTTTTATCATGCCAAT
130 TCATATTTCTACCATGCCAAT
* * *
13321702 GCCATTTTTATGGCCTGTGAATTCATATAAGCACTCCCCAGCACCCGCACACCATGCGTGGGTGT
1 GCCATTTTTATGGCCTGTGAATTCATATAAGCACTCCCCAACACCCGCACACCACGCGCGGGTGT
* * * *
13321767 CCTGAG-CTCGGGTCGAGCACC-ATGCGCACCACGATCGGATGGTAGGTGAGTTTAGGCACATCT
66 CCTGAGCCT-AGGTCGAGCACCAATGAGCACCACGACCGGATGGTAGGTGAGTTCAGGCACATCT
13321830 TCATATTTCTACCATGCCAAT
130 TCATATTTCTACCATGCCAAT
* *
13321851 GCCATTTTTATGGCTTGTAAATTC
1 GCCATTTTTATGGCCTGTGAATTC
13321875 TTACAATGGT
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
149 80 0.54
150 68 0.46
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (150 bp):
GCCATTTTTATGGCCTGTGAATTCATATAAGCACTCCCCAACACCCGCACACCACGCGCGGGTGT
CCTGAGCCTAGGTCGAGCACCAATGAGCACCACGACCGGATGGTAGGTGAGTTCAGGCACATCTT
CATATTTCTACCATGCCAAT
Found at i:13322439 original size:13 final size:13
Alignment explanation
Indices: 13322421--13322445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13322411 CAACGGCACA
13322421 TGATGGCACATGG
1 TGATGGCACATGG
13322434 TGATGGCACATG
1 TGATGGCACATG
13322446 TATCGACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13331937 original size:45 final size:45
Alignment explanation
Indices: 13331888--13331986 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
13331878 AAAAGATAGT
* * *
13331888 CCTTGGTGCATGCGGTTGCCTCGAACACCATCGGCACATGCTGAG-
1 CCTTGGTGCAGGCGGTTACCTCGAACACCATCGGCACAAGCT-AGC
* * * *
13331933 CCTTGGTCCGGGCGGTTACCTCGAGCACCATTGGCACAAGCTAGC
1 CCTTGGTGCAGGCGGTTACCTCGAACACCATCGGCACAAGCTAGC
13331978 CCTTGGTGC
1 CCTTGGTGC
13331987 GGGTGTCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
44 2 0.04
45 43 0.96
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.22
Consensus pattern (45 bp):
CCTTGGTGCAGGCGGTTACCTCGAACACCATCGGCACAAGCTAGC
Found at i:13340521 original size:13 final size:13
Alignment explanation
Indices: 13340503--13340527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13340493 CAACGGCACT
13340503 TGATGGCACATGG
1 TGATGGCACATGG
13340516 TGATGGCACATG
1 TGATGGCACATG
13340528 CATCGACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13340909 original size:162 final size:161
Alignment explanation
Indices: 13340563--13340955 Score: 396
Period size: 162 Copynumber: 2.4 Consensus size: 161
13340553 CCCTTTGATA
* * * * * * * *
13340563 CGAGCACTTGCCTCGATCGCCATCGACACAAGTTGGCCATTGGAATAGGCACTTGCCTCAACCAC
1 CGAGCACATGCCTCAACCACCATCGACACAAGCTAGCCATTGGTATAGGCACTTGCCTCGACCAC
* * * * *
13340628 CATCGACACATGCATGCCTCAATGAGCATCGGAAGAAGATGACCCTTGGTGCGAGCGGTTGCCTC
66 CATCGACACATGCACGCCTCAATCAGCATCGCAAGAAGATGACCCTTGGTGCGAGCAGTTACCTC
* *
13340693 GAGCACCATCGGCACGTGTTGGGCCTTGGTG
131 GAACACCATCGGCACATGTTGGGCCTTGGTG
* * * *
13340724 CGGGCACATGCTTCGACCACCATC-ATCACAAGCTAGCCATTGGTATAGGCACTTGCCTGGACCA
1 CGAGCACATGCCTCAACCACCATCGA-CACAAGCTAGCCATTGGTATAGGCACTTGCCTCGACCA
* * * * ** *
13340788 CCATCGACACGTGCCACGCCTCGATCAGCTTCAGCAA-AAGGTGGTCTTTGGTGC-ATGCAGTTA
65 CCATCGACACATG-CACGCCTCAATCAGCATC-GCAAGAAGATGACCCTTGGTGCGA-GCAGTTA
*
13340851 CCTCGAACACCATCGGCACATGTTGGGCTTTGGTG
127 CCTCGAACACCATCGGCACATGTTGGGCCTTGGTG
*** * * * *** *
13340886 CGAGCGGTTGCCTCAAGCACCATCGACACAAGCCAGCCCTTGGTGCGGGCACTTGCCTTGACCAC
1 CGAGCACATGCCTCAACCACCATCGACACAAGCTAGCCATTGGTATAGGCACTTGCCTCGACCAC
13340951 CATCG
66 CATCG
13340956 GCAGAAGATG
Statistics
Matches: 189, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
160 1 0.01
161 65 0.34
162 119 0.63
163 4 0.02
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (161 bp):
CGAGCACATGCCTCAACCACCATCGACACAAGCTAGCCATTGGTATAGGCACTTGCCTCGACCAC
CATCGACACATGCACGCCTCAATCAGCATCGCAAGAAGATGACCCTTGGTGCGAGCAGTTACCTC
GAACACCATCGGCACATGTTGGGCCTTGGTG
Found at i:13350852 original size:147 final size:150
Alignment explanation
Indices: 13350551--13350855 Score: 404
Period size: 147 Copynumber: 2.1 Consensus size: 150
13350541 GTGGTCCATG
* * * * * *
13350551 AATTCATATGAGCACTCCCCAACGCCTGCGCACCACGCGTGGATGTCTTTTTGCCCGGTCGAGCA
1 AATTCATATGAGCACTCCACAACGCCTGCACACCACGCGCGGATGTCTCTTAGCCCGGTAGAGCA
* * * * *
13350616 CCAATGATCATCACGATCGAGTGGTAGGTGGGTTCAGGCACATCTTCATATTTTTGCCATGCCAA
66 CCAATGATCACCACGATCGAGTGGTAGATGGGTTCAGGCACATCTTCATATTTCTACCATACCAA
*
13350681 TGCCATTTTTATGGCCTGTG
131 TGCCATTTTTATGGCCTGTA
* *
13350701 AATTCA-ATGAGCACTCCACAACGCCTGCACACCACGCGCGGGTGTC-CTTAGCCTGGGTAGAGC
1 AATTCATATGAGCACTCCACAACGCCTGCACACCACGCGCGGATGTCTCTTAGCC-CGGTAGAGC
* *
13350764 ACC-ATGCA-CGCCACGATCGAGTGGTAGAT-GGTTTAGGCACATCTTCATATTTCTACCATACC
65 ACCAATG-ATCACCACGATCGAGTGGTAGATGGGTTCAGGCACATCTTCATATTTCTACCATACC
*
13350826 AATGCCATTTTTATGGCTTGTA
129 AATGCCATTTTTATGGCCTGTA
13350848 AATTCATA
1 AATTCATA
13350856 CAATGGTCCC
Statistics
Matches: 135, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
147 55 0.41
148 27 0.20
149 47 0.35
150 6 0.04
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (150 bp):
AATTCATATGAGCACTCCACAACGCCTGCACACCACGCGCGGATGTCTCTTAGCCCGGTAGAGCA
CCAATGATCACCACGATCGAGTGGTAGATGGGTTCAGGCACATCTTCATATTTCTACCATACCAA
TGCCATTTTTATGGCCTGTA
Found at i:13351300 original size:15 final size:15
Alignment explanation
Indices: 13351280--13351310 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13351270 ATCAAGTTCT
*
13351280 CCGACGATGCTTCGA
1 CCGACGATGCTCCGA
13351295 CCGACGATGCTCCGA
1 CCGACGATGCTCCGA
13351310 C
1 C
13351311 GATGGTGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.39, G:0.26, T:0.16
Consensus pattern (15 bp):
CCGACGATGCTCCGA
Found at i:13351799 original size:45 final size:45
Alignment explanation
Indices: 13351750--13351851 Score: 114
Period size: 45 Copynumber: 2.3 Consensus size: 45
13351740 AGAAGATGGT
* * * * *
13351750 CCTTGGTGTGTGCGGTTGCCTTGAACACCATCGGCACATGCTGGG
1 CCTTGGTGCGGGCGGTTGCCTCGAACACCATCGGCACAAGCTGGC
* * ** *
13351795 CCTTGGTACGGGTGGTTGCCTCGAGTACCATTGGCACAAGCTGGC
1 CCTTGGTGCGGGCGGTTGCCTCGAACACCATCGGCACAAGCTGGC
13351840 CCTTGGTGCGGG
1 CCTTGGTGCGGG
13351852 TGTCACGGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.25
Consensus pattern (45 bp):
CCTTGGTGCGGGCGGTTGCCTCGAACACCATCGGCACAAGCTGGC
Found at i:13351801 original size:162 final size:161
Alignment explanation
Indices: 13351474--13351806 Score: 384
Period size: 161 Copynumber: 2.1 Consensus size: 161
13351464 AGGCTGCCCT
* * * * *
13351474 TTGGTACGGGCACTTGCCTCGATCGCCATCAGCACAAGCTGGCCCTTGGAACAGGCACTTGCCTT
1 TTGGTACGGGCACATGCCTCGACCACCATCAGCACAAGCTGGCCATTGGAACAGGCACTTGCCTG
* * *
13351539 GACCACCATCGACACATGCATGCCTTGATGAGCATCGGCCAAAGATGGCCATTGATGCGGGCGGT
66 GACCACCATCGACACATGCATGCCTCGATCAGCATCAGCCAAAGATGGCCATTGATGCGGGCGGT
*
13351604 TGCTTCAAACACCATCGACACATGTTGGGCC
131 TGCTTCAAACACCATCGACACATGCTGGGCC
* * * * * *
13351635 TTGGTGCGGGCACATGCCTCGACCACCATCATCGCAAGCTGGCCATTGGTACGGGCTCTTGCCTG
1 TTGGTACGGGCACATGCCTCGACCACCATCAGCACAAGCTGGCCATTGGAACAGGCACTTGCCTG
* ** * * * * *
13351700 GACCACCATCGGCATGTGCCATGCCTCGATCAGCTTCAG-TAGAAGATGGTCC-TTGGTGTGTGC
66 GACCACCATCGACACATG-CATGCCTCGATCAGCATCAGCCA-AAGATGG-CCATTGATGCGGGC
* *
13351763 GGTTGCCTT-GAACACCATCGGCACATGCTGGGCC
128 GGTTG-CTTCAAACACCATCGACACATGCTGGGCC
13351797 TTGGTACGGG
1 TTGGTACGGG
13351807 TGGTTGCCTC
Statistics
Matches: 142, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
161 70 0.49
162 67 0.47
163 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.23
Consensus pattern (161 bp):
TTGGTACGGGCACATGCCTCGACCACCATCAGCACAAGCTGGCCATTGGAACAGGCACTTGCCTG
GACCACCATCGACACATGCATGCCTCGATCAGCATCAGCCAAAGATGGCCATTGATGCGGGCGGT
TGCTTCAAACACCATCGACACATGCTGGGCC
Found at i:13351817 original size:162 final size:161
Alignment explanation
Indices: 13351474--13351845 Score: 390
Period size: 162 Copynumber: 2.3 Consensus size: 161
13351464 AGGCTGCCCT
* * * *
13351474 TTGGTACGGGCACTTGCCTCGATCGCCATCAGCACAAGCTGGCCCTTGGAACAGGCACTTGCCTT
1 TTGGTACGGGCACTTGCCTCGACCACCATCAGCACAAGCTGGCCATTGGAACAGGCACTTGCCTG
* * *
13351539 GACCACCATCGACACATGCATGCCTTGATGAGCATCGGCCAAAGATGGCCATTGATGCGGGCGGT
66 GACCACCATCGACACATGCATGCCTCGATCAGCATCAGCCAAAGATGGCCATTGATGCGGGCGGT
*
13351604 TGCTTCAAACACCATCGACACATGTTGGGCC
131 TGCTTCAAACACCATCGACACATGCTGGGCC
* * * * * * *
13351635 TTGGTGCGGGCACATGCCTCGACCACCATCATCGCAAGCTGGCCATTGGTACGGGCTCTTGCCTG
1 TTGGTACGGGCACTTGCCTCGACCACCATCAGCACAAGCTGGCCATTGGAACAGGCACTTGCCTG
* ** * * * * *
13351700 GACCACCATCGGCATGTGCCATGCCTCGATCAGCTTCAG-TAGAAGATGGTCC-TTGGTGTGTGC
66 GACCACCATCGACACATG-CATGCCTCGATCAGCATCAGCCA-AAGATGG-CCATTGATGCGGGC
* *
13351763 GGTTGCCTT-GAACACCATCGGCACATGCTGGGCC
128 GGTTG-CTTCAAACACCATCGACACATGCTGGGCC
*** ** ** *
13351797 TTGGTACGGGTGGTTGCCTCGAGTACCATTGGCACAAGCTGGCCCTTGG
1 TTGGTACGGGCACTTGCCTCGACCACCATCAGCACAAGCTGGCCATTGG
13351846 TGCGGGTGTC
Statistics
Matches: 170, Mismatches: 37, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
161 70 0.41
162 95 0.56
163 5 0.03
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (161 bp):
TTGGTACGGGCACTTGCCTCGACCACCATCAGCACAAGCTGGCCATTGGAACAGGCACTTGCCTG
GACCACCATCGACACATGCATGCCTCGATCAGCATCAGCCAAAGATGGCCATTGATGCGGGCGGT
TGCTTCAAACACCATCGACACATGCTGGGCC
Found at i:13357618 original size:45 final size:45
Alignment explanation
Indices: 13357577--13357662 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
13357567 CATGGTATGG
** * *
13357577 GCAGTTACGTCGAACACCATTGGCACATGCTGGGCTTTGGTACGA
1 GCAGTTACCACGAACACCATCGGCACATGCTGGGCCTTGGTACGA
** *
13357622 GTGGTTACCACGAACACCATCGGCACATGTTGGGCCTTGGT
1 GCAGTTACCACGAACACCATCGGCACATGCTGGGCCTTGGT
13357663 GCGGGCACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (45 bp):
GCAGTTACCACGAACACCATCGGCACATGCTGGGCCTTGGTACGA
Found at i:13365040 original size:12 final size:12
Alignment explanation
Indices: 13365015--13365048 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
13365005 TTTGATTCGT
13365015 CCTTCCCTCCTCC
1 CCTTCCC-CCTCC
13365028 CCTTCCCCCTCC
1 CCTTCCCCCTCC
13365040 CCTTCCCCC
1 CCTTCCCCC
13365049 GTCGACCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (12 bp):
CCTTCCCCCTCC
Found at i:13370805 original size:23 final size:23
Alignment explanation
Indices: 13370774--13370818 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13370764 TCGACCACCA
* * *
13370774 TCGAGACATGTTGGCCCTTGGTC
1 TCGACACATGCTGGACCTTGGTC
13370797 TCGACACATGCTGGACCTTGGT
1 TCGACACATGCTGGACCTTGGT
13370819 GCAGGCAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (23 bp):
TCGACACATGCTGGACCTTGGTC
Found at i:13371273 original size:149 final size:149
Alignment explanation
Indices: 13370954--13371273 Score: 401
Period size: 150 Copynumber: 2.1 Consensus size: 149
13370944 GTTTCTGGAG
* * * *
13370954 TGCCAAAGCCATTTTTGTGGTCCACGAATTCATATGAGCACTCCCCAATGCCCGCGCACCACGCG
1 TGCCAATGCCATTTTTATGG-CCACGAATTCATATGAGCACTCCCCAACGCCCGCACACCACGCG
** ** * *
13371019 TGGGTGTCCTGAGCCTGGGCCGAGCACTAATGATCGCTACAACCGGGTGGTAGGTGAGTTCAGGA
65 CAGGTGTCCTGAGCCCCGGCCGAGCACTAATGAGCGCCACAACCGGGTGGTAGGTGAGTTCAGGA
13371084 ACATCTTCATATTTCTACCA
130 ACATCTTCATATTTCTACCA
* * *
13371104 TGCCAATGCCATTTTTATGGCCTATGAATTCATATGAGCACTCCCTAACGCCCGCACACCATGCG
1 TGCCAATGCCATTTTTATGGCC-ACGAATTCATATGAGCACTCCCCAACGCCCGCACACCACGCG
* * * * * *
13371169 CAGGTGTCCTGAGCCCCGGTCGAGCAC-CAT-ACGCGCCACGATCGGGTGGTAGGTGGGTTTAGG
65 CAGGTGTCCTGAGCCCCGGCCGAGCACTAATGA-GCGCCACAACCGGGTGGTAGGTGAGTTCAGG
* * *
13371232 CACATCTTCATATTTTTGCCA
129 AACATCTTCATATTTCTACCA
13371253 TGCCAATGCCATTTTTATGGC
1 TGCCAATGCCATTTTTATGGC
13371274 TTGAAAATTT
Statistics
Matches: 146, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
148 1 0.01
149 68 0.47
150 77 0.53
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.26
Consensus pattern (149 bp):
TGCCAATGCCATTTTTATGGCCACGAATTCATATGAGCACTCCCCAACGCCCGCACACCACGCGC
AGGTGTCCTGAGCCCCGGCCGAGCACTAATGAGCGCCACAACCGGGTGGTAGGTGAGTTCAGGAA
CATCTTCATATTTCTACCA
Found at i:13372345 original size:45 final size:44
Alignment explanation
Indices: 13372189--13372347 Score: 151
Period size: 45 Copynumber: 3.5 Consensus size: 44
13372179 CATGCGATTA
* *
13372189 CCTCAAACACTATCGGCACATGCTGGGCCTTGGTGCGG-ATGGTTG
1 CCTCGAACACCATCGGCACATGCTGGGCCTTGGTGCGGCA--GTTG
* * * * ** * *
13372234 CCTCGAGCACCATCGGTACAAGCCGACCCTTGGTACGGGCACTTG
1 CCTCGAACACCATCGGCACATGCTGGGCCTTGGTGC-GGCAGTTG
* *
13372279 CCTC-AACCACCATCAGTACATGCTGGGCCTTGGTGCGAGCAGTTG
1 CCTCGAA-CACCATCGGCACATGCTGGGCCTTGGTGCG-GCAGTTG
13372324 CCTCGAACACCATCGGCACATGCT
1 CCTCGAACACCATCGGCACATGCT
13372348 AGGTGTCATG
Statistics
Matches: 89, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
44 2 0.02
45 82 0.92
46 4 0.04
47 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (44 bp):
CCTCGAACACCATCGGCACATGCTGGGCCTTGGTGCGGCAGTTG
Found at i:13375677 original size:11 final size:11
Alignment explanation
Indices: 13375663--13375689 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13375653 TCGTCCCTCC
13375663 CCCCTCCCCCT
1 CCCCTCCCCCT
13375674 CCCCTCCCCCT
1 CCCCTCCCCCT
13375685 CCCCT
1 CCCCT
13375690 TCCTTTGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (11 bp):
CCCCTCCCCCT
Found at i:13392638 original size:161 final size:161
Alignment explanation
Indices: 13392397--13392715 Score: 364
Period size: 161 Copynumber: 2.0 Consensus size: 161
13392387 TTTGGTACAG
* * * *
13392397 GCACTTGCCTTGACCGCCATCGACACAAGCTGGCCCTTGGAATAGGCACTTGGCTCGACCACCAT
1 GCACATGCCTCGACCACCATCGACACAAGCTGGCCCTTGGAACAGGCACTTGGCTCGACCACCAT
* * *
13392462 TGACACATGCATGCCTCGATGAGCATCGGCAAAAGATGG-CCCTTGGTGCGA-GCGGTTGCCTCG
66 TCACACATGCATGCCTCGATCAGCATCGACAAAAGATGGTCCC-TGGTGC-ATGCGGTTGCCTCG
* *
13392525 AGCACCATCGACA-TGTGTTGGGCCTTGGTGTGA
129 AACACCATCGACACT-TGCTGGGCCTTGGTGTGA
* * *
13392558 GCACATGCCTCGACCACCATC-ATCACAAGCTGGCCAC-TGGTACGGGCACTT-GCTTGGACCAC
1 GCACATGCCTCGACCACCATCGA-CACAAGCTGGCC-CTTGGAACAGGCACTTGGC-TCGACCAC
* * * * *
13392620 CA-TCACACGTGCCATGCCTTGATCAGCATTGATAGAAGATGGTCCCTGGTGCATGCGGTTGCCT
63 CATTCACACATG-CATGCCTCGATCAGCATCGACAAAAGATGGTCCCTGGTGCATGCGGTTGCCT
*
13392684 CGAACACCATCGGCACTTGCTGGGCCTTGGTG
127 CGAACACCATCGACACTTGCTGGGCCTTGGTG
13392716 CGGGTGGTTA
Statistics
Matches: 133, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
160 11 0.08
161 117 0.88
162 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.27, T:0.22
Consensus pattern (161 bp):
GCACATGCCTCGACCACCATCGACACAAGCTGGCCCTTGGAACAGGCACTTGGCTCGACCACCAT
TCACACATGCATGCCTCGATCAGCATCGACAAAAGATGGTCCCTGGTGCATGCGGTTGCCTCGAA
CACCATCGACACTTGCTGGGCCTTGGTGTGA
Found at i:13397686 original size:21 final size:21
Alignment explanation
Indices: 13397662--13397701 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13397652 CATCCATTGC
13397662 CGCATGGCCTCCATGCCATGG
1 CGCATGGCCTCCATGCCATGG
* *
13397683 CGCATGGTCTCTATGCCAT
1 CGCATGGCCTCCATGCCAT
13397702 CACGTAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
CGCATGGCCTCCATGCCATGG
Found at i:13402030 original size:150 final size:148
Alignment explanation
Indices: 13401759--13402128 Score: 424
Period size: 150 Copynumber: 2.5 Consensus size: 148
13401749 GCACCTTGCA
* * * * * *
13401759 CACCACGATCGGGTAGTAGGTGGTTTTAGGGATATCTTCATGTTTCTG-CAGTGCCAAAGCCATT
1 CACCACGATCGGGTAATAGGTGGATTTAGGAACATCTTCATATTTCTGCCA-TGCCAATGCCATT
* * * * *
13401823 TTTGTGGTCCATGAATTCATATGAGTACTCCTCAATGCCCGCGCACCACGCGCGGGTGTCCTTAG
65 TTTATGG-CCATGAATTCATATGAGCACTCCTCAATGCCCGCACACCACGCGAGGGTGTCCTAAG
* *
13401888 CTCGGGCCAAGCACAAATGAT
129 CCCGAGCCAAGCACAAATG-T
* * *
13401909 CACCACGATCGGATAATAGGTGGGTTTAGAAACATCTTCATATTTCTGCCATGCCAATGCCATTT
1 CACCACGATCGGGTAATAGGTGGATTTAGGAACATCTTCATATTTCTGCCATGCCAATGCCATTT
*
13401974 TTATGGCCAGTGAATTCATATGAGCACTCC-CCA-GCACCTGCACACCACGCGAGGGTGTCCTAA
66 TTATGGCCA-TGAATTCATATGAGCACTCCTCAATGC-CC-GCACACCACGCGAGGGTGTCCTAA
* **
13402037 GCCCGAGCCGAGCACATGTGT
128 GCCCGAGCCAAGCACAAATGT
* * * * * *
13402058 -GCCACGATCGGGTGATAGGTGGATTTAGGCACATCTTTATATTTCTACCATGCGAATGCCATTT
1 CACCACGATCGGGTAATAGGTGGATTTAGGAACATCTTCATATTTCTGCCATGCCAATGCCATTT
13402122 TTATGGC
66 TTATGGC
13402129 TTGTAAATTC
Statistics
Matches: 188, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
148 64 0.34
149 8 0.04
150 114 0.61
151 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (148 bp):
CACCACGATCGGGTAATAGGTGGATTTAGGAACATCTTCATATTTCTGCCATGCCAATGCCATTT
TTATGGCCATGAATTCATATGAGCACTCCTCAATGCCCGCACACCACGCGAGGGTGTCCTAAGCC
CGAGCCAAGCACAAATGT
Found at i:13403218 original size:45 final size:45
Alignment explanation
Indices: 13403131--13403235 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
13403121 GATTGCATTG
* * ** **
13403131 AACACCATCGGCACATGCTGGGCCTTGGTGTGGGCAGTTGCCTCA
1 AACACCATCGACACATGCTAGGCCTTGGTGCAGGCACATGCCTCA
* *
13403176 AACATCATCGACACATGCTAGGCCTTGGTGCAGGCACATGCCTCG
1 AACACCATCGACACATGCTAGGCCTTGGTGCAGGCACATGCCTCA
*
13403221 ACCACCATCGACACA
1 AACACCATCGACACA
13403236 AACCAACCCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (45 bp):
AACACCATCGACACATGCTAGGCCTTGGTGCAGGCACATGCCTCA
Found at i:13403576 original size:45 final size:44
Alignment explanation
Indices: 13403501--13403585 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 44
13403491 TCGCATCGAA
** * *
13403501 CACCATCGGCACGCACTGGCCCTTGGTGCGGGCACATGCCTTAAC
1 CACCATCGGCACGCACTCACCCTCGATGCGGG-ACATGCCTTAAC
*
13403546 CACCATCGGCAC-CTACTCACCCTCGATGCGGGATATGCCT
1 CACCATCGGCACGC-ACTCACCCTCGATGCGGGACATGCCT
13403586 GTTTGGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 8 0.24
45 26 0.76
ACGTcount: A:0.19, C:0.39, G:0.24, T:0.19
Consensus pattern (44 bp):
CACCATCGGCACGCACTCACCCTCGATGCGGGACATGCCTTAAC
Found at i:13412110 original size:150 final size:147
Alignment explanation
Indices: 13411844--13412198 Score: 390
Period size: 150 Copynumber: 2.4 Consensus size: 147
13411834 CGATCGGGTA
* * * * * * *
13411844 GTAGGTGGGTTCAGGGATATCTTTATGTTTCTA-CAGTGCCAAAGCCATTTTTGTGGTCCATGAA
1 GTAGATGGGTTCAGGAACATCTTCATATTTCTACCA-TGCCAATGCCATTTTTATGG-CCATGAA
* * * * * *
13411908 TTCATATGAGCGCTCCTCAATGCCCGCGCACCATACGCGGGTGTCCTTAGCCCTAGCAGAGCACA
64 TTCATATGAGCACTCCTCAATGCCCACACACCACACGCGGGTGTCCTAAGCCCGAGCAGAGCAC-
* **
13411973 AATGATCGCCATGATC-GGATG
128 -ATGAGCGCCACAATCAGGA-G
* * *
13411994 GTAGATGGGTTCAGGAACATCTTCATATTTTTGCCATGCCAATGCCATTTTTATGGCCTGTGAAT
1 GTAGATGGGTTCAGGAACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGCC-ATGAAT
* * *
13412059 TCATATGAGCACTCCTCAGTGCCCACACACCACACGCGGGTGTCCTAAGCCCGGGCCGAGCACAT
65 TCATATGAGCACTCCTCAATGCCCACACACCACACGCGGGTGTCCTAAGCCCGAGCAGAGCACAT
*
13412124 GCGCGCCACAATCAGGAG
130 GAGCGCCACAATCAGGAG
* * * * *
13412142 GTAGGTGGGTTTATGCACATCTTCATATTTCTACCATGTCAATGCCATTTTTATGGC
1 GTAGATGGGTTCAGGAACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGC
13412199 TTTTAAATTC
Statistics
Matches: 172, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
148 62 0.36
149 5 0.03
150 103 0.60
151 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (147 bp):
GTAGATGGGTTCAGGAACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGCCATGAATT
CATATGAGCACTCCTCAATGCCCACACACCACACGCGGGTGTCCTAAGCCCGAGCAGAGCACATG
AGCGCCACAATCAGGAG
Found at i:13416655 original size:150 final size:148
Alignment explanation
Indices: 13416377--13416763 Score: 406
Period size: 150 Copynumber: 2.6 Consensus size: 148
13416367 TCGTGCACCC
* * ** * * * * *
13416377 TGCACATCACGATCGGGCAGTAGGTGGGTTTAGGGATATCATCATGTTTCTAT-AGTGCCAAAGC
1 TGCACACCACGATCAGGTGGTAGGTGGGTTTAGGAACATCTTCATATTTCTATCA-TGCCAATGC
* * * *
13416441 CATTTTTATGGTCC-ATGAATTCATATGACCGCTCCCCAATGCCCGCGCACCACGTGCGGGTGTC
65 CATTTTTATGG-CCTGTGAATTCATATGACCACTCCCCAATGCCCGCACACCACGCGCGGGTGTC
**
13416505 CTTTGCCCGGACT-GAGCACAAA
129 CTGAGCCCGG-CTCGAGCAC--A
** * *
13416527 TG-ATTGCCACGA-CAGGGTGGTAGGTGGGTTCAGGAACATCTTCATATTTCTGTCATGCCAATG
1 TGCA-CACCACGATCA-GGTGGTAGGTGGGTTTAGGAACATCTTCATATTTCTATCATGCCAATG
* * *
13416590 CCATTTTTATGGCCTGTGAATTCATATGAGCACTCCCTAGTGCCCGCACACCACGCGCGGGTGTC
64 CCATTTTTATGGCCTGTGAATTCATATGACCACTCCCCAATGCCCGCACACCACGCGCGGGTGTC
* *
13416655 CTGAGCCTGGGTCGAGCACA
129 CTGAGCCCGGCTCGAGCACA
* * *
13416675 TGCACACCACGATCAGGTGGTAGGTGGGTTTAGGCACATCTTTATATTTCTACCATGCCAATGCC
1 TGCACACCACGATCAGGTGGTAGGTGGGTTTAGGAACATCTTCATATTTCTATCATGCCAATGCC
* * *
13416740 ATTTTTAGGGCTTGTAAATTCATA
66 ATTTTTATGGCCTGTGAATTCATA
13416764 CAATGGTCCC
Statistics
Matches: 196, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
148 75 0.38
149 8 0.04
150 112 0.57
151 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (148 bp):
TGCACACCACGATCAGGTGGTAGGTGGGTTTAGGAACATCTTCATATTTCTATCATGCCAATGCC
ATTTTTATGGCCTGTGAATTCATATGACCACTCCCCAATGCCCGCACACCACGCGCGGGTGTCCT
GAGCCCGGCTCGAGCACA
Found at i:13434963 original size:150 final size:148
Alignment explanation
Indices: 13434705--13435058 Score: 381
Period size: 150 Copynumber: 2.4 Consensus size: 148
13434695 CGACCGGGCA
* * * * * * *
13434705 GTAGGTGGGTTCAGGGATATCTTCATGTTTCTA-CAGTGCCAAAGCCATTTTTTTGGTCCATGGA
1 GTAGGTGGGTTTAGGCACATCTTCATATTTCTACCA-TGCCAATGCCATTTTTATGGTCCATGAA
* * * * * *
13434769 TTCATATGAACGCTCCTCAATGCTCGCGCAGCACGTGCGGGTGTCCTAAGCGC-GGGGCGAGTAC
65 TTCATATGAACACTCCTCAATGCCCGCACACCACGTGCGGGTGTCCTAAGC-CTGGGCCGAGCAC
* *
13434833 CAATGAGCGCCACGATCGGGTG
129 C-ATGAGCGCC-CAATAGGGTG
**
13434855 GTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGTCTGTGAAT
1 GTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGTCCATGAAT
* * * * *
13434920 TTATATGACCACT-CTCCAGTGCCCGCACACCATGTGCGGGTGTCCTGAGCCTGGGCCGAGCACC
66 TCATATGAACACTCCT-CAATGCCCGCACACCACGTGCGGGTGTCCTAAGCCTGGGCCGAGCACC
***
13434984 ATGCTTGCCCAATAGGGTG
130 ATGAGCGCCCAATAGGGTG
* * * *
13435003 GTAGGTGGGTTTAGGTACATCTTCATATTTTTGCCCTGCCAATGCCATTTTTATGG
1 GTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGG
13435059 CTTGTAAATT
Statistics
Matches: 172, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
148 60 0.35
149 9 0.05
150 101 0.59
151 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (148 bp):
GTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGTCCATGAAT
TCATATGAACACTCCTCAATGCCCGCACACCACGTGCGGGTGTCCTAAGCCTGGGCCGAGCACCA
TGAGCGCCCAATAGGGTG
Found at i:13440851 original size:45 final size:45
Alignment explanation
Indices: 13440802--13440919 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 45
13440792 GCATGTTGAT
* * * *
13440802 GGCACATGCATCGACCATCATCGACAC-AGACT-GCCCTTTGGTACA
1 GGCACTTGCCTCGACCACCATCGACACAAG-CTAGCCC-TTGGAACA
* * *
13440847 GGCACTTGCCTCTACCACCATCGACATAAGCTAGCCCTTGGAATA
1 GGCACTTGCCTCGACCACCATCGACACAAGCTAGCCCTTGGAACA
13440892 GGCACTTGCCTCGACCACCATCGACACA
1 GGCACTTGCCTCGACCACCATCGACACA
13440920 TGCATGCCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 56 0.90
46 6 0.10
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (45 bp):
GGCACTTGCCTCGACCACCATCGACACAAGCTAGCCCTTGGAACA
Found at i:13449195 original size:45 final size:45
Alignment explanation
Indices: 13449144--13449249 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 45
13449134 CACATGCAAT
* * * *
13449144 GACCATCATCGGCACAGGCT-ACCCTTTGGTACGGGCACTTGCCTC
1 GACCATCATCGACACAAGCTGACCC-TTGGAACAGGCACTTGCCTC
* *
13449189 GACCATCATCGACACAAGCTGGCCCTTGGAACAGGCACTTGCCTT
1 GACCATCATCGACACAAGCTGACCCTTGGAACAGGCACTTGCCTC
*
13449234 GACCACCATCGACACA
1 GACCATCATCGACACA
13449250 TGCATGCCTC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 50 0.94
46 3 0.06
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.19
Consensus pattern (45 bp):
GACCATCATCGACACAAGCTGACCCTTGGAACAGGCACTTGCCTC
Found at i:13449299 original size:71 final size:71
Alignment explanation
Indices: 13449195--13449356 Score: 252
Period size: 71 Copynumber: 2.3 Consensus size: 71
13449185 CCTCGACCAT
* * * *
13449195 CATCGACACAAGCTGGCCCTTGGAACAGGCACTTGCCTTGACCACCATCGACACATGCATGCCTC
1 CATCGACAGAAGATGGCCCTTGCAACAGGCACTTGCCTCGACCACCATCGACACATGCATGCCTC
13449260 GATGAG
66 GATGAG
* * *
13449266 CATCGACAGAGGATGGCCCTTGCAATAGGCACTTGCCTCGACCACCATCGACACATGCATGCCTT
1 CATCGACAGAAGATGGCCCTTGCAACAGGCACTTGCCTCGACCACCATCGACACATGCATGCCTC
13449331 GATGAG
66 GATGAG
*
13449337 CATCGATAGAAGATGGCCCT
1 CATCGACAGAAGATGGCCCT
13449357 CGGTGTGGGC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (71 bp):
CATCGACAGAAGATGGCCCTTGCAACAGGCACTTGCCTCGACCACCATCGACACATGCATGCCTC
GATGAG
Found at i:13455769 original size:45 final size:45
Alignment explanation
Indices: 13455661--13455836 Score: 142
Period size: 45 Copynumber: 3.9 Consensus size: 45
13455651 ACAAGGGCAC
* * * * * *
13455661 TTGCCTCGACCACCATTGGCAAAAGAT-GGCCCCTGGTACGGACGG
1 TTGCCTCGAACACCATCGGCACAAGTTAGG-CCTTGGTGCGGACGG
* * * *
13455706 TTACGTCGAACTCCATCGGCACATGTTAGGCCTTGGTGC-GAGCGG
1 TTGCCTCGAACACCATCGGCACAAGTTAGGCCTTGGTGCGGA-CGG
* * * * * *
13455751 TTGCCTCGATCACCATCGGTAGAAGAT-GGCCCTTGGTGTGGATGG
1 TTGCCTCGAACACCATCGGCACAAGTTAGG-CCTTGGTGCGGACGG
* *
13455796 TTGCCTTGAACACCATTGGCACAAGTTAGGCCTTGGTGCGG
1 TTGCCTCGAACACCATCGGCACAAGTTAGGCCTTGGTGCGG
13455837 GCACATACCT
Statistics
Matches: 99, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
44 4 0.04
45 89 0.90
46 6 0.06
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (45 bp):
TTGCCTCGAACACCATCGGCACAAGTTAGGCCTTGGTGCGGACGG
Found at i:13455824 original size:90 final size:90
Alignment explanation
Indices: 13455661--13455835 Score: 224
Period size: 90 Copynumber: 1.9 Consensus size: 90
13455651 ACAAGGGCAC
* * *
13455661 TTGCCTCGACCACCATTGGCAAAAGATGGCCCCTGGTACGGACGGTTACGTCGAACTCCATCGGC
1 TTGCCTCGACCACCATCGGCAAAAGATGGCCCCTGGTACGGACGGTTACCTCGAACACCATCGGC
*
13455726 ACATGTTAGGCCTTGGTGCGAGCGG
66 ACAAGTTAGGCCTTGGTGCGAGCGG
* * * * ** * * * *
13455751 TTGCCTCGATCACCATCGGTAGAAGATGGCCCTTGGTGTGGATGGTTGCCTTGAACACCATTGGC
1 TTGCCTCGACCACCATCGGCAAAAGATGGCCCCTGGTACGGACGGTTACCTCGAACACCATCGGC
13455816 ACAAGTTAGGCCTTGGTGCG
66 ACAAGTTAGGCCTTGGTGCG
13455836 GGCACATACC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.24
Consensus pattern (90 bp):
TTGCCTCGACCACCATCGGCAAAAGATGGCCCCTGGTACGGACGGTTACCTCGAACACCATCGGC
ACAAGTTAGGCCTTGGTGCGAGCGG
Found at i:13455855 original size:90 final size:90
Alignment explanation
Indices: 13455664--13455857 Score: 208
Period size: 90 Copynumber: 2.2 Consensus size: 90
13455654 AGGGCACTTG
* * *
13455664 CCTCGACCACCATTGGCAAAAGATGGCCCCTGGTACGGACGGTTACGTCGAACTCCATCGGCACA
1 CCTCGACCACCATCGGCAAAAGATGGCCCCTGGTACGGACGGTTACCTCGAACACCATCGGCACA
* *** *
13455729 TGTTAGGCCTTGGTGCGAGCGGTTG
66 AGTTAGGCCTTGGTGCGAGCACATA
* * * * ** * * * *
13455754 CCTCGATCACCATCGGTAGAAGATGGCCCTTGGTGTGGATGGTTGCCTTGAACACCATTGGCACA
1 CCTCGACCACCATCGGCAAAAGATGGCCCCTGGTACGGACGGTTACCTCGAACACCATCGGCACA
*
13455819 AGTTAGGCCTTGGTGCGGGCACATA
66 AGTTAGGCCTTGGTGCGAGCACATA
*
13455844 CCTTGACCACCATC
1 CCTCGACCACCATC
13455858 AGCATAAGCC
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (90 bp):
CCTCGACCACCATCGGCAAAAGATGGCCCCTGGTACGGACGGTTACCTCGAACACCATCGGCACA
AGTTAGGCCTTGGTGCGAGCACATA
Found at i:13460891 original size:149 final size:149
Alignment explanation
Indices: 13460620--13460956 Score: 396
Period size: 149 Copynumber: 2.3 Consensus size: 149
13460610 TTTCAGGGAT
* *
13460620 ATCTTCATGTTTCTAT-AGTGCCAAAGCCATTTTT-TGGTCCATGAATTCATATGAGCGCTCCCC
1 ATCTTCATATTTCTATCA-TGCCAATGCCATTTTTATGG-CCATGAATTCATATGAGCGCTCCCC
** * * * *
13460683 AATGCCCGTGCACCGCGAATAGGTGTCCTAAGCCTGGGTCGAGCACCAATGAGCACCACGATCGG
64 AATGCCCGCACACCACGAATAGGTGCCCTAAGCCTGGGCCAAGCACCAATGAGCACCACGATCGG
*
13460748 GTGGTTGGTGGGTTTAGGCAC
129 GTGGTAGGTGGGTTTAGGCAC
*
13460769 ATCTTCATATTTCTATCATGCCAATGCCATTTTTATGGCCTGTGAATTCATATGAG-GACTCCCC
1 ATCTTCATATTTCTATCATGCCAATGCCATTTTTATGGCC-ATGAATTCATATGAGCG-CTCCCC
* ** * * * * *
13460833 AGTGCCCGCACACCACGCGTGGGTGCCCTGAGCCCT-GGCCAAGCACC-GTGCGCGCCACGATCG
64 AATGCCCGCACACCACGAATAGGTGCCCTAAG-CCTGGGCCAAGCACCAATGAGCACCACGATCG
13460896 GGTGGTAGGTGGGTTTAGGCAC
128 GGTGGTAGGTGGGTTTAGGCAC
* ** *
13460918 ATCTTCATATTTATGCCATACCAATGCCATTTTTATGGC
1 ATCTTCATATTTCTATCATGCCAATGCCATTTTTATGGC
13460957 TTTTAAATTC
Statistics
Matches: 161, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
149 102 0.63
150 56 0.35
151 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.28
Consensus pattern (149 bp):
ATCTTCATATTTCTATCATGCCAATGCCATTTTTATGGCCATGAATTCATATGAGCGCTCCCCAA
TGCCCGCACACCACGAATAGGTGCCCTAAGCCTGGGCCAAGCACCAATGAGCACCACGATCGGGT
GGTAGGTGGGTTTAGGCAC
Found at i:13467757 original size:45 final size:46
Alignment explanation
Indices: 13467708--13467836 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 46
13467698 AAGATTGCCA
** * *
13467708 TTGGTGCGGGCGGTTACCTCGAACACCATCGACACATGCTGAG-CC
1 TTGGTGCGGGCACTTGCCTCGAACACCATCGACACATGCTCAGCCC
* * * *
13467753 TTGGTGCGGGCACATGCCTCGACCACCATCAACACAAG-TCAGCCC
1 TTGGTGCGGGCACTTGCCTCGAACACCATCGACACATGCTCAGCCC
* * *
13467798 TTGGTGTGGGCACTTGCCTCGATCACCATCGGCACATGC
1 TTGGTGCGGGCACTTGCCTCGAACACCATCGACACATGC
13467837 CATGCCTCGA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 3 0.04
45 65 0.96
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.20
Consensus pattern (46 bp):
TTGGTGCGGGCACTTGCCTCGAACACCATCGACACATGCTCAGCCC
Found at i:13467773 original size:90 final size:89
Alignment explanation
Indices: 13467524--13467836 Score: 236
Period size: 90 Copynumber: 3.5 Consensus size: 89
13467514 GCACATGCTG
* * * * * *
13467524 GGCC-TTGGTACGGGCAGTTGCCTCGAGCACCATCTGCACAAGC-CAGCCTTTGGTGTGGGCACT
1 GGCCATTGGTGCGGGCGGTTGCCTCGAACACCATC-GCACATGCTGAGCC-TTGGTGCGGGCACT
*
13467587 TACCTCGACCACCATCGGTAGAAGAT
64 TACCTCGACCACCATCAGTAGAAGAT
** * * * * * * * * * ***
13467613 GGCCCCTAGTGCAGGCGATTGCGTCGAACACAATCGGTACATGCTGGGCCTTGGTTCAGGTGGTT
1 GGCCATTGGTGCGGGCGGTTGCCTCGAACACCATC-GCACATGCTGAGCCTTGGTGCGGGCACTT
*
13467678 ACCTCGATCACCATCAGTAGAAGAT
65 ACCTCGACCACCATCAGTAGAAGAT
* * *
13467703 TGCCATTGGTGCGGGCGGTTACCTCGAACACCATCGACACATGCTGAGCCTTGGTGCGGGCACAT
1 GGCCATTGGTGCGGGCGGTTGCCTCGAACACCATCG-CACATGCTGAGCCTTGGTGCGGGCACTT
* ** *
13467768 GCCTCGACCACCATCAACACAAG-T
65 ACCTCGACCACCATCAGTAGAAGAT
* * * ** *
13467792 CAGCCCTTGGTGTGGGCACTTGCCTCGATCACCATCGGCACATGC
1 -GGCCATTGGTGCGGGCGGTTGCCTCGAACACCATC-GCACATGC
13467837 CATGCCTCGA
Statistics
Matches: 168, Mismatches: 51, Indels: 9
0.74 0.22 0.04
Matches are distributed among these distances:
89 6 0.04
90 158 0.94
91 4 0.02
ACGTcount: A:0.21, C:0.30, G:0.27, T:0.21
Consensus pattern (89 bp):
GGCCATTGGTGCGGGCGGTTGCCTCGAACACCATCGCACATGCTGAGCCTTGGTGCGGGCACTTA
CCTCGACCACCATCAGTAGAAGAT
Found at i:13473740 original size:45 final size:45
Alignment explanation
Indices: 13473691--13473776 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
13473681 TACATTGAAT
*
13473691 ACCATCGGCACATGTTGGGCC-TTGGTACGGGCACATGCCTCCACC
1 ACCATCGGCACAAGTT-GGCCATTGGTACGGGCACATGCCTCCACC
* * *
13473736 ACCATCGGCATAAGTTGGCCATTGGTGCGGGCACTTGCCTC
1 ACCATCGGCACAAGTTGGCCATTGGTACGGGCACATGCCTC
13473777 GATCACTGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 4 0.11
45 32 0.89
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (45 bp):
ACCATCGGCACAAGTTGGCCATTGGTACGGGCACATGCCTCCACC
Found at i:13483154 original size:13 final size:13
Alignment explanation
Indices: 13483136--13483160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13483126 CAATGACACA
13483136 TGATGGCACATGG
1 TGATGGCACATGG
13483149 TGATGGCACATG
1 TGATGGCACATG
13483161 CATTGACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13483646 original size:45 final size:45
Alignment explanation
Indices: 13483421--13483650 Score: 138
Period size: 45 Copynumber: 5.1 Consensus size: 45
13483411 AAAAGATGGT
* * * * * *
13483421 CCTTGGTGCATGCAGTTGCCTCAAACACCACCGACACATGTTGGG
1 CCTTGGTGCAGGCAGTTGCATCGAACACCATCGGCACATGCTGGG
* * * * * * * ****
13483466 CCTTGGTG-TGAGCAATTGCCTCGAGCACCATCGACATAAGCCAAC
1 CCTTGGTGCAG-GCAGTTGCATCGAACACCATCGGCACATGCTGGG
* * * * * * * * * *
13483511 CCTTGGTACGGGCACTTGCCTTGACCACCATCGGCAGAAGATGGC
1 CCTTGGTGCAGGCAGTTGCATCGAACACCATCGGCACATGCTGGG
* * *
13483556 CCATGGTGTAGGCGGTTGCATCGAACACCATCGGCACATGCTGGG
1 CCTTGGTGCAGGCAGTTGCATCGAACACCATCGGCACATGCTGGG
* * * *
13483601 CCTTGGTGCAGGCAGTTGCTTCGAACACCATTGGCATATGTTGGG
1 CCTTGGTGCAGGCAGTTGCATCGAACACCATCGGCACATGCTGGG
13483646 CCTTG
1 CCTTG
13483651 ATACGGGTGT
Statistics
Matches: 139, Mismatches: 44, Indels: 4
0.74 0.24 0.02
Matches are distributed among these distances:
45 138 0.99
46 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.23
Consensus pattern (45 bp):
CCTTGGTGCAGGCAGTTGCATCGAACACCATCGGCACATGCTGGG
Found at i:13492793 original size:45 final size:45
Alignment explanation
Indices: 13492694--13492811 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
13492684 GCATGGTGAT
* * * * * * *
13492694 GGCACATGCATCGACCATCATCGGCACAGGCTGCCCTTTGGTACG
1 GGCACTTGCCTCGACCACCATCGACACAAGCTGCCCTTTGGAACA
* *
13492739 GGCATTTGCCTCGACCGCCATCGACACAAGCTGGCCC-TTGGAACA
1 GGCACTTGCCTCGACCACCATCGACACAAGCT-GCCCTTTGGAACA
* *
13492784 GGCACTTGCCTTGACCACCATTGACACA
1 GGCACTTGCCTCGACCACCATCGACACA
13492812 TGCATGCCTT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
45 55 0.93
46 4 0.07
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.19
Consensus pattern (45 bp):
GGCACTTGCCTCGACCACCATCGACACAAGCTGCCCTTTGGAACA
Found at i:13497812 original size:21 final size:21
Alignment explanation
Indices: 13497777--13497817 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13497767 TCCATCCGCT
*
13497777 GGTGCATGACTTCCATGCCAC
1 GGTGCATGACCTCCATGCCAC
*
13497798 GGTGCATGGCCTCCATGCCA
1 GGTGCATGACCTCCATGCCA
13497818 TCGCACAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (21 bp):
GGTGCATGACCTCCATGCCAC
Found at i:13513294 original size:45 final size:45
Alignment explanation
Indices: 13513090--13513299 Score: 156
Period size: 45 Copynumber: 4.7 Consensus size: 45
13513080 GGTGCATGTT
* * *
13513090 GTTGCCTCAAACA-CATCGGCACTTGCTGGGCCTTGGTACGGGCG
1 GTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTGCGGGCG
* * * * ** * *
13513134 GTTGCCTCGAGCACCATCGACGCAAGCCT-ACCCTTGGTGTGGGCA
1 GTTGCCTCGAACACCATCGGCACATG-CTGGGCCTTGGTGCGGGCG
* * * * *** * * *
13513179 TTTGCCTC-AACCACCATCAGTAGAAAATGGCCCCTGGTGTGGGCG
1 GTTGCCTCGAA-CACCATCGGCACATGCTGGGCCTTGGTGCGGGCG
* **
13513224 GTTGCGTCGAACACCATCGATACATGCTGGGCCTTGGTGCGGGCG
1 GTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTGCGGGCG
*
13513269 GTTGCCTCGAACACCATTGGCACATGCTGGG
1 GTTGCCTCGAACACCATCGGCACATGCTGGG
13513300 TGTCATGAGC
Statistics
Matches: 123, Mismatches: 38, Indels: 9
0.72 0.22 0.05
Matches are distributed among these distances:
44 13 0.11
45 106 0.86
46 4 0.03
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.22
Consensus pattern (45 bp):
GTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTGCGGGCG
Found at i:13521920 original size:45 final size:44
Alignment explanation
Indices: 13521863--13521970 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 44
13521853 TGGACATGCA
* * * * * * *
13521863 TCGACCATCATCGGCACAGGTTGCCCTTTGGTACGGGCACTTGCC
1 TCGACCACCATCGGCACAGCTGGCCC-TTGGAACAGGAACTTACC
*
13521908 TCGACCGCCATCGGCACAAGCTGGCCCTTGGAACAGGAACTTACC
1 TCGACCACCATCGGCAC-AGCTGGCCCTTGGAACAGGAACTTACC
*
13521953 TCGACCACCATCGACACA
1 TCGACCACCATCGGCACA
13521971 TGCATGCCTC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.02
45 44 0.85
46 7 0.13
ACGTcount: A:0.22, C:0.36, G:0.23, T:0.19
Consensus pattern (44 bp):
TCGACCACCATCGGCACAGCTGGCCCTTGGAACAGGAACTTACC
Found at i:13522197 original size:162 final size:161
Alignment explanation
Indices: 13521890--13522289 Score: 437
Period size: 162 Copynumber: 2.5 Consensus size: 161
13521880 AGGTTGCCCT
* * * * * *
13521890 TTGGTACGGGCACTTGCCTCGACCGCCATCGGCACAAGCTGGCCCTTGGAACAGGAACTTACCTC
1 TTGGTACGGGCACTTGCCTCAACCACCATCGGCACAAGCTGGCCATTGGTACAGGCACTTGCCTC
* * * *
13521955 GACCACCATCGACACATGCATGCCTCGATGAGCATTGACAGAAGATGGCCCTTGGTGCGGACGGT
66 GACCACCATCGACACATGCATGCCTCGATCAGAATTGACAGAAGATGACCCCTGGTGCGGACGGT
* *
13522020 TGCCTCAAGCACCATCGGCACGTGTTGGGCC
131 TGCCTCAAGCACCATCGGCACATGCTGGGCC
** * ** * *
13522051 TTGGTGTGGGCACATGCCTCAACCACCATCATCACAAGCTGGCCATTGGTACAGGCACTTGCTTG
1 TTGGTACGGGCACTTGCCTCAACCACCATCGGCACAAGCTGGCCATTGGTACAGGCACTTGCCTC
* ** * * ** *
13522116 GACCACCATTGGTAGATGCCATGCCTCGATCATAATTGGTAGAAGATGACCCCTGGTGCATG-CG
66 GACCACCATCGACACATG-CATGCCTCGATCAGAATTGACAGAAGATGACCCCTGGTGC-GGACG
13522180 GTTGCCTCGAA-CACCATCGGCACATGCTGGGCC
129 GTTGCCTC-AAGCACCATCGGCACATGCTGGGCC
* * * * *
13522213 TTGGTACGGGCGA-TTGCCTCAAGCACCATCGGCACAAGCAGGCCGTTGGTGCGGGCACTTGCCT
1 TTGGTACGGGC-ACTTGCCTCAACCACCATCGGCACAAGCTGGCCATTGGTACAGGCACTTGCCT
**
13522277 AAACCACCATCGA
65 CGACCACCATCGA
13522290 TAGAAGATGG
Statistics
Matches: 193, Mismatches: 42, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
161 66 0.34
162 123 0.64
163 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.20
Consensus pattern (161 bp):
TTGGTACGGGCACTTGCCTCAACCACCATCGGCACAAGCTGGCCATTGGTACAGGCACTTGCCTC
GACCACCATCGACACATGCATGCCTCGATCAGAATTGACAGAAGATGACCCCTGGTGCGGACGGT
TGCCTCAAGCACCATCGGCACATGCTGGGCC
Found at i:13522230 original size:45 final size:45
Alignment explanation
Indices: 13522181--13522399 Score: 228
Period size: 45 Copynumber: 4.9 Consensus size: 45
13522171 GTGCATGCGG
* *
13522181 TTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGGGCGA
1 TTGCCTCAAACACCATCGGCACATGCTGGGCCTTGGTGCGGGCGA
* * *
13522226 TTGCCTCAAGCACCATCGGCACAAGC-AGGCCGTTGGTGCGGGC-A
1 TTGCCTCAAACACCATCGGCACATGCTGGGCC-TTGGTGCGGGCGA
** * * * * * * *
13522270 CTTGCCT-AAACCACCATCGATAGAAGATGGCCCCTGGTGCAGGCGG
1 -TTGCCTCAAA-CACCATCGGCACATGCTGGGCCTTGGTGCGGGCGA
* * *
13522316 TTGCCTCAAACACCATCGGCACATGTTGGGCCTTGGTGCGAGCGG
1 TTGCCTCAAACACCATCGGCACATGCTGGGCCTTGGTGCGGGCGA
*
13522361 TTGCCTCAAACACCATCAGCACATGCTGGGCCTTGGTGC
1 TTGCCTCAAACACCATCGGCACATGCTGGGCCTTGGTGC
13522400 AGGTGTCACG
Statistics
Matches: 142, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
44 7 0.05
45 129 0.91
46 6 0.04
ACGTcount: A:0.20, C:0.31, G:0.29, T:0.20
Consensus pattern (45 bp):
TTGCCTCAAACACCATCGGCACATGCTGGGCCTTGGTGCGGGCGA
Found at i:13528537 original size:149 final size:150
Alignment explanation
Indices: 13528218--13528537 Score: 378
Period size: 150 Copynumber: 2.1 Consensus size: 150
13528208 GTTTCTACAG
* * * * *** *
13528218 TGCCAAAGCCATTTTTGTGGTCC-ATGAATTCATATGAGCGCTCCCCATTGCCCGCGCACCACGC
1 TGCCAATGCCATTTTTATGG-CCTGTGAATTCATATGAGCACTCCCCAGCACCCGCACACCACGC
* * * * ** *
13528282 GCGGGTGTCTTAAGCCTGGGTCGAGCACCAATGAGCACTACAATCGGGTGGTAGGTGGGTTTAGT
65 GCGGGTGTCCTAAGCCTAGGCCGAGCACCAATGAGCACCACAATCAAGTGGTAGGTGGGTTTAGG
13528347 CACATCTTCATATTTCATCCA
130 CACATCTTCATATTTCATCCA
** * *
13528368 TGCCAATTTCATTTTTATGGCCTGTGAATTCATATGAGCACTCCCCAGCACCCGTACACCACGTG
1 TGCCAATGCCATTTTTATGGCCTGTGAATTCATATGAGCACTCCCCAGCACCCGCACACCACGCG
* * *
13528433 CGGGTGTCCTAAG-CTCAGGCCGAGCACC-ATGCGCTCCACGATCAAGTGGTAGGTGGGTTTAGG
66 CGGGTGTCCTAAGCCT-AGGCCGAGCACCAATGAGCACCACAATCAAGTGGTAGGTGGGTTTAGG
13528496 CACATCTTCATATTT-ATGCCA
130 CACATCTTCATATTTCAT-CCA
*
13528517 TGCCAATGCCTTTTTTATGGC
1 TGCCAATGCCATTTTTATGGC
13528538 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
148 2 0.01
149 68 0.48
150 72 0.51
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (150 bp):
TGCCAATGCCATTTTTATGGCCTGTGAATTCATATGAGCACTCCCCAGCACCCGCACACCACGCG
CGGGTGTCCTAAGCCTAGGCCGAGCACCAATGAGCACCACAATCAAGTGGTAGGTGGGTTTAGGC
ACATCTTCATATTTCATCCA
Found at i:13535498 original size:90 final size:89
Alignment explanation
Indices: 13535372--13535617 Score: 237
Period size: 90 Copynumber: 2.7 Consensus size: 89
13535362 TGGTGCGAGT
* * **
13535372 GGTTACCTCGAGCACCATCGACACAAG-TCGACCCTTGGTGTGGGCACTTGCCTCGACCACCATC
1 GGTTACCTCGAACACCATCGACACATGCT-GGGCCTTGGTGTGGGCACTTGCCTCGACCACCATC
*
13535436 GATAGAAGATAGCCCCTAGTGTA-AAC
65 GATAGAAGATAG-CCATAG-GTACAAC
* * * ** *
13535462 GGTTACGTTGAACACCATCGACACATGCTGGGCCTTGGT-TCAGGCGGTTGCCTCGATCACCATC
1 GGTTACCTCGAACACCATCGACACATGCTGGGCCTTGGTGT-GGGCACTTGCCTCGACCACCATC
* * * ***
13535526 GGTAGAAGATTGCCATTGGTACGTGT
65 GATAGAAGATAGCCATAGGTAC-AAC
* * * *
13535552 GGTTGCCTCGAACACCATCGACACATGCTGGGCCTTGGTGCGAGCACATGCCTCGACCACCATCG
1 GGTTACCTCGAACACCATCGACACATGCTGGGCCTTGGTGTGGGCACTTGCCTCGACCACCATCG
13535617 A
66 A
13535618 CACAAGTCAG
Statistics
Matches: 123, Mismatches: 28, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
88 3 0.02
89 5 0.04
90 114 0.93
91 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (89 bp):
GGTTACCTCGAACACCATCGACACATGCTGGGCCTTGGTGTGGGCACTTGCCTCGACCACCATCG
ATAGAAGATAGCCATAGGTACAAC
Found at i:13535523 original size:45 final size:45
Alignment explanation
Indices: 13535471--13535621 Score: 135
Period size: 45 Copynumber: 3.4 Consensus size: 45
13535461 CGGTTACGTT
*
13535471 GAACACCATCGACACATGCTGGGCCTTGGTTC-AGGCGGTTGCCTC
1 GAACACCATCGACACATGCTGGGCCTTGGTACGA-GCGGTTGCCTC
* ** * * * * * *
13535516 GATCACCATCGGTAGAAGAT-TGCCATTGGTACGTGTGGTTGCCTC
1 GAACACCATCGACACATGCTGGGCC-TTGGTACGAGCGGTTGCCTC
* ***
13535561 GAACACCATCGACACATGCTGGGCCTTGGTGCGAGCACATGCCTC
1 GAACACCATCGACACATGCTGGGCCTTGGTACGAGCGGTTGCCTC
*
13535606 GACCACCATCGACACA
1 GAACACCATCGACACA
13535622 AGTCAGCCCT
Statistics
Matches: 79, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
44 3 0.04
45 73 0.92
46 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.21
Consensus pattern (45 bp):
GAACACCATCGACACATGCTGGGCCTTGGTACGAGCGGTTGCCTC
Found at i:13535633 original size:45 final size:45
Alignment explanation
Indices: 13535555--13535664 Score: 118
Period size: 45 Copynumber: 2.4 Consensus size: 45
13535545 TACGTGTGGT
* * *
13535555 TGCCTCGAACACCATCGACACATGCTGGGCCTTGGTGC-GAGCACA
1 TGCCTCGAACACCATCGACACAAGCTAGCCCTTGGTGCAG-GCACA
* *
13535600 TGCCTCGACCACCATCGACACAAG-TCAGCCCTTGGTGCAGGCACT
1 TGCCTCGAACACCATCGACACAAGCT-AGCCCTTGGTGCAGGCACA
*
13535645 TGCCTC-AATCACCGTCGACA
1 TGCCTCGAA-CACCATCGACA
13535665 TGTGCCATGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 2 0.04
45 52 0.95
46 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (45 bp):
TGCCTCGAACACCATCGACACAAGCTAGCCCTTGGTGCAGGCACA
Found at i:13550504 original size:45 final size:45
Alignment explanation
Indices: 13550455--13550557 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
13550445 TTGCTTCGAA
** * *
13550455 CACCATCAGCATGTGTTAGGCC-TTGGTACGGGCACATGCCTAGAC
1 CACCATCAGCATAAGCT-GGCCATTGGTACGAGCACATGCCTAGAC
* * * *
13550500 CACCATCATCACAAGCTGGCCATTGGTACGAGCACTTGCCTGGAC
1 CACCATCAGCATAAGCTGGCCATTGGTACGAGCACATGCCTAGAC
*
13550545 CACCATCGGCATA
1 CACCATCAGCATA
13550558 TGCCACACCT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 4 0.09
45 42 0.91
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.20
Consensus pattern (45 bp):
CACCATCAGCATAAGCTGGCCATTGGTACGAGCACATGCCTAGAC
Found at i:13554796 original size:18 final size:18
Alignment explanation
Indices: 13554773--13554819 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
13554763 TGGGCTTGGA
13554773 AGACTTGAACTTGTTCAG
1 AGACTTGAACTTGTTCAG
13554791 AGACTTGAACTTGTTCAG
1 AGACTTGAACTTGTTCAG
*
13554809 AGGCTTGAACT
1 AGACTTGAACT
13554820 CTATAAGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (18 bp):
AGACTTGAACTTGTTCAG
Found at i:13556530 original size:45 final size:45
Alignment explanation
Indices: 13556481--13556574 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
13556471 TTACGTCAAA
*
13556481 CACCATCGGCACATACT-GGGCCTTGGTGCGGGCACATGCCTCGAC
1 CACCATCGGCACA-ACTCGGGCCTTAGTGCGGGCACATGCCTCGAC
* ** * *
13556526 CACCATCGGCACAAGTCGGGCCTTAGTGCTTGCACTTGCCTCGAT
1 CACCATCGGCACAACTCGGGCCTTAGTGCGGGCACATGCCTCGAC
13556571 CACC
1 CACC
13556575 GTCAGCACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (45 bp):
CACCATCGGCACAACTCGGGCCTTAGTGCGGGCACATGCCTCGAC
Found at i:13580376 original size:45 final size:45
Alignment explanation
Indices: 13580320--13580408 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
13580310 TAGTGTGGGT
* **
13580320 GGTTACGTCGAACACCATCGGCACATGCTGGGCCTT-CGTGCGGGC
1 GGTTACCTCGAACACCATCAACACATGCTGGGCCTTGC-TGCGGGC
13580365 GGTTACCTCGAACACCATCAACACATGCTGGGCCTTGCTGCGGG
1 GGTTACCTCGAACACCATCAACACATGCTGGGCCTTGCTGCGGG
13580409 TGTCACGGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.20
Consensus pattern (45 bp):
GGTTACCTCGAACACCATCAACACATGCTGGGCCTTGCTGCGGGC
Found at i:13593907 original size:150 final size:147
Alignment explanation
Indices: 13593630--13594002 Score: 389
Period size: 150 Copynumber: 2.5 Consensus size: 147
13593620 CCATGCACCT
* * * * * * * *
13593630 TGCACACCACGATCGAGTAGTAGGTGGGTTCAGCG-ATATCTTCATGTTTCTA-TAGTGCCAAAG
1 TGCACACCACAACCGGGTGGTAGGTGGGTTCAG-GAACATCTTCATATTTCTACCA-TGCCAATG
* * * * *
13593693 CCATTTTTGTGGTCCATGAATTCATATGAGCGCTCCCCAACACCTGCGCACCACGTGCAGGTGTC
64 CCATTTTTATGG-CCATGAATTCATATGAGCACTCCCCAACACCCGCACACCACGCGCAGGTGTC
13593758 CTGAGCCCT-AGCCAAGCACAAA
128 CTGAG-CCTGAGCCAAGCAC--A
* * * *
13593780 TG-ATCACCACGACCTGGTGGTAGGTGGGTTCAGGAACATCTTCATATTTTTGCCATGCCAATGC
1 TGCA-CACCACAACCGGGTGGTAGGTGGGTTCAGGAACATCTTCATATTTCTACCATGCCAATGC
* * *
13593844 CATTTTTATGGCCTGTGAATTCATATGAGCACTCCCCAGCGCCCGCACACCACGCGC-GAGTGTC
65 CATTTTTATGGCC-ATGAATTCATATGAGCACTCCCCAACACCCGCACACCACGCGCAG-GTGTC
**
13593908 CTGAGCCTGAGCTGAGCACA
128 CTGAGCCTGAGCCAAGCACA
* * * *
13593928 TGCACGCCACAATCGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCC
1 TGCACACCACAACCGGGTGGTAGGTGGGTTCAGGAACATCTTCATATTTCTACCATGCCAATGCC
13593993 A-TTTTATGGC
66 ATTTTTATGGC
13594003 TTTTAAATTC
Statistics
Matches: 188, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
147 9 0.05
148 57 0.30
149 9 0.05
150 112 0.60
151 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (147 bp):
TGCACACCACAACCGGGTGGTAGGTGGGTTCAGGAACATCTTCATATTTCTACCATGCCAATGCC
ATTTTTATGGCCATGAATTCATATGAGCACTCCCCAACACCCGCACACCACGCGCAGGTGTCCTG
AGCCTGAGCCAAGCACA
Found at i:13594796 original size:23 final size:23
Alignment explanation
Indices: 13594770--13594821 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
13594760 CGACCACCAT
13594770 CGGCACGTGTTGGGCCTTGGTGC
1 CGGCACGTGTTGGGCCTTGGTGC
13594793 CGGCACGTGTTGGGCCTTGGTGC
1 CGGCACGTGTTGGGCCTTGGTGC
*
13594816 GGGCAC
1 CGGCAC
13594822 ATGCCTCGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.06, C:0.27, G:0.44, T:0.23
Consensus pattern (23 bp):
CGGCACGTGTTGGGCCTTGGTGC
Found at i:13595122 original size:23 final size:23
Alignment explanation
Indices: 13595090--13595143 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
13595080 GAACACCATC
13595090 GACACATGCTGAGCCTTGGTGCG
1 GACACATGCTGAGCCTTGGTGCG
* *
13595113 GGCACATGCTGGGCCTTGGTGCG
1 GACACATGCTGAGCCTTGGTGCG
13595136 GACACATG
1 GACACATG
13595144 TCTTGACCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.17, C:0.26, G:0.37, T:0.20
Consensus pattern (23 bp):
GACACATGCTGAGCCTTGGTGCG
Found at i:13608317 original size:21 final size:21
Alignment explanation
Indices: 13608287--13608335 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13608277 ATCCGTCGCC
* *
13608287 CATGGCCTCCATGCCATGGTG
1 CATGGTCTCCATGCCATCGTG
13608308 CATGGTCTCCATGCCATCGTG
1 CATGGTCTCCATGCCATCGTG
*
13608329 CAAGGTC
1 CATGGTC
13608336 AGCACTTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (21 bp):
CATGGTCTCCATGCCATCGTG
Found at i:13612755 original size:148 final size:149
Alignment explanation
Indices: 13612385--13612771 Score: 476
Period size: 150 Copynumber: 2.6 Consensus size: 149
13612375 TCGTGCACCC
* * * * * *
13612385 TGCACACCACGATCGGGTAGTAGGTGGGTTTAGGGATATCTTCATGTTTCTA-TAGTGCCAAAGC
1 TGCACGCCACGATCGGGTGGTAGGTGGGTTTAGGAACATCTTCATGTTTCTACCA-TGCCAATGC
* * * * *
13612449 CATTTTTGTGGTCC-ATGAATTCATATGAGCGCTCCCCAATGCCCGCGCACCACGCGCGGGTGTC
65 CATTTTTAT-GCCCTGTGAATTCATATGAGCACTCCCCAATGCCCGCACACCACGCGCGGGTGTC
* *
13612513 CTTAGCCCAGGCTGAGCACAAA
129 CTGAGCCCAGGCCGAGCAC-AA
* * *
13612535 TG-ATCGCCACGACCGGGTGGTAGGTGGGTTTAGAAACATCTTCATGTTTCTGCCATGCCAATGC
1 TGCA-CGCCACGATCGGGTGGTAGGTGGGTTTAGGAACATCTTCATGTTTCTACCATGCCAATGC
* * *
13612599 CATTTTTATGCCCTGTGAATTCATATGAGCACTCCCTAGTGCCCGCACACCACGCGTGGGTGTCC
65 CATTTTTATGCCCTGTGAATTCATATGAGCACTCCCCAATGCCCGCACACCACGCGCGGGTGTCC
*
13612664 TGAGCCCGGGCCGAGCAC-A
130 TGAGCCCAGGCCGAGCACAA
* * *
13612683 TGCACGCCACGATCGGGTGGTAGGTGGGTTTAGGCACATCGTCATATTTCTACCATGCCAATGCC
1 TGCACGCCACGATCGGGTGGTAGGTGGGTTTAGGAACATCTTCATGTTTCTACCATGCCAATGCC
* * *
13612748 ATTTTTATGGCTTGTAAATTCATA
66 ATTTTTATGCCCTGTGAATTCATA
13612772 CAATGGTCCC
Statistics
Matches: 204, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
148 79 0.39
149 5 0.02
150 119 0.58
151 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (149 bp):
TGCACGCCACGATCGGGTGGTAGGTGGGTTTAGGAACATCTTCATGTTTCTACCATGCCAATGCC
ATTTTTATGCCCTGTGAATTCATATGAGCACTCCCCAATGCCCGCACACCACGCGCGGGTGTCCT
GAGCCCAGGCCGAGCACAA
Found at i:13613794 original size:45 final size:45
Alignment explanation
Indices: 13613739--13613827 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
13613729 GATAGAAGAT
* * *
13613739 GGCCTCTGGTGCAGGCGGTTGCATCGAACACCATTGGCACATGCTG
1 GGCCTCTGGTGCAGACGGTTACATCGAACACCA-TCGCACATGCTG
*
13613785 GGCCT-TGGTGCAGACGGTTACATTGAACACCATCGCACATGCT
1 GGCCTCTGGTGCAGACGGTTACATCGAACACCATCGCACATGCT
13613828 TGGCTTTCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 10 0.26
45 24 0.62
46 5 0.13
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.22
Consensus pattern (45 bp):
GGCCTCTGGTGCAGACGGTTACATCGAACACCATCGCACATGCTG
Found at i:13622332 original size:147 final size:149
Alignment explanation
Indices: 13622035--13622341 Score: 383
Period size: 147 Copynumber: 2.1 Consensus size: 149
13622025 TTGTGGTCCA
* ** * * *
13622035 TGAATTCATATGAGAGCTCCCCAATGCCCGTGCACCACGCGCAGGTGTCCTTATCCCGGGCTGAG
1 TGAATTCATATGAGAGCTCCCCAACGCCCGCACACCACCCGCAGGTGTCCTGAGCCCGGGCTGAG
13622100 CACAAATGATCACCACAATCGGGTGGCAGGTGGGTTCAGGAACATCTTCATATTTCTGCCATGCC
66 CAC-AATGATCACCACAATCGGGTGGCAGGTGGGTTCAGGAACATCTTCATATTTCTGCCATGCC
13622165 AATGACATTTTTATGGCTTG
130 AATGACATTTTTATGGCTTG
* *
13622185 TGAATTCATATGAGCA-CTCCCCAGCGCCTGCACACCACCCGCAGGTGTCCTGAGCCCGGG-TCG
1 TGAATTCATATGAG-AGCTCCCCAACGCCCGCACACCACCCGCAGGTGTCCTGAGCCCGGGCT-G
* * * **
13622248 AGCAC-ATG-TGCGCCACGATCGGGT-GTAGGTGGGTT-TTGACACATCTTCATATTTCTGCCAT
64 AGCACAATGAT-CACCACAATCGGGTGGCAGGTGGGTTCAGGA-ACATCTTCATATTTCTGCCAT
* *
13622309 GTCAATGACATTTTTGTGGCTTG
127 GCCAATGACATTTTTATGGCTTG
*
13622332 TAAATTCATA
1 TGAATTCATA
13622342 CAACGGTCCC
Statistics
Matches: 137, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
146 2 0.01
147 62 0.45
148 15 0.11
149 1 0.01
150 56 0.41
151 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (149 bp):
TGAATTCATATGAGAGCTCCCCAACGCCCGCACACCACCCGCAGGTGTCCTGAGCCCGGGCTGAG
CACAATGATCACCACAATCGGGTGGCAGGTGGGTTCAGGAACATCTTCATATTTCTGCCATGCCA
ATGACATTTTTATGGCTTG
Found at i:13626430 original size:45 final size:45
Alignment explanation
Indices: 13626347--13626432 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
13626337 TGTGACACAT
* **
13626347 GCACATGCCTCGACCACCATCGAGACATGTTGTCCCTTGGTCTTG
1 GCACATGCCTCGACCACCATCGAGACATGCTGGACCTTGGTCTTG
*
13626392 GCACATGCTTCGACCACCATCGATG-CATGCTGGACCTTGGT
1 GCACATGCCTCGACCACCATCGA-GACATGCTGGACCTTGGT
13626433 GCGGGTAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 35 0.97
46 1 0.03
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.26
Consensus pattern (45 bp):
GCACATGCCTCGACCACCATCGAGACATGCTGGACCTTGGTCTTG
Found at i:13626809 original size:151 final size:148
Alignment explanation
Indices: 13626532--13626882 Score: 395
Period size: 151 Copynumber: 2.3 Consensus size: 148
13626522 CGATCAAGCA
* * * * *
13626532 GTAGGTGGGTTCAGGGATATCTTCATGTTTCTG-TAGTGCCAAAGCCA-TTTTTATGGTCCATTA
1 GTAGGTGGGTTCA-GGAAATCTTCATATTTCTGCCA-TGCCAATGCCATTTTTTATGGTCCATGA
* * * * **
13626595 ATTCATATGAGCATTCCCCAATGCCCGCACACCCCGCGCGGGTGTCCTTAGCCTAGGTTGAGCAC
64 ATCCATATGAGCACTCCCCAATGCCCGCACACCACGCGCGGGTGTCCTAAGCCTAGGCCGAGCAC
* *
13626660 AAATGATTGCCACGATCGGGTG
129 --ATGAGTGCCACGATCAGGTG
*
13626682 GTAGGTGGGTTCAGGAACATCTTCATATTTCTGCCATGCCAATGCCATTTTTTATGG-CTTATGA
1 GTAGGTGGGTTCAGGAA-ATCTTCATATTTCTGCCATGCCAATGCCATTTTTTATGGTC-CATGA
* * *
13626746 ATCCATATGAGCACTCCCCAGTGCCCGCACACCACGTGTGGGTGTCCTAAGCCT-GGACCGAGCA
64 ATCCATATGAGCACTCCCCAATGCCCGCACACCACGCGCGGGTGTCCTAAGCCTAGG-CCGAGCA
* *
13626810 CATGCGTGCCACGGTCAGGTG
128 CATGAGTGCCACGATCAGGTG
* * * *
13626831 GTAGGTGGCTTTAGGCAAATCTTTATATTTCTGCCTTGCCAATGCCATTTTT
1 GTAGGTGGGTTCAGG-AAATCTTCATATTTCTGCCATGCCAATGCCATTTTT
13626883 AGGGCTTGTA
Statistics
Matches: 172, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
149 64 0.37
150 42 0.24
151 66 0.38
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (148 bp):
GTAGGTGGGTTCAGGAAATCTTCATATTTCTGCCATGCCAATGCCATTTTTTATGGTCCATGAAT
CCATATGAGCACTCCCCAATGCCCGCACACCACGCGCGGGTGTCCTAAGCCTAGGCCGAGCACAT
GAGTGCCACGATCAGGTG
Found at i:13627818 original size:162 final size:160
Alignment explanation
Indices: 13627496--13627856 Score: 381
Period size: 162 Copynumber: 2.2 Consensus size: 160
13627486 AAGCAACCTT
* * * **
13627496 TTGGTACGAGCACTTGCCTTGACCACCATCGCACAAGCTGGCCCTTGGAATAGGCACTTGCCTCA
1 TTGGTGCGGGCACTTGCCTCGACCACCATCGCACAAGCTGGCAATTGGAATAGGCACTTGCCTCA
* *
13627561 ACCACCATCGACACATGCATCCCTCGATGAGCATCAGTAAAAGATGGCCCTTGGTACGGGCGATT
66 ACCACCATCGACACATGCATCCCTCGATCAGCATCAGTAAAAGATGGCCCTTGGTACAGGCGATT
* * * *
13627626 GCCTCAAGCACCATTGGCAAGTGTTGGGCC
131 GCCTCAAACACCATCGACAAGTGCTGGGCC
* * * * *
13627656 TTGGTGCGGGCACATGCCTCGACCACCATCATCACAAGCTGGCAATTGGTATGGGCACTTGCCTG
1 TTGGTGCGGGCACTTGCCTCGACCACCATC-GCACAAGCTGGCAATTGGAATAGGCACTTGCCTC
* * * * *
13627721 GACCACCATC-AGCACGTGCCATCCCTTGATCAGCATC-GATAAAAGATGGTCCC-TGGTGCATG
65 AACCACCATCGA-CACATG-CATCCCTCGATCAGCATCAG-TAAAAGATGG-CCCTTGGTACAGG
* * *
13627783 TGGTTGCCTCAAACAGCATCGACACA-TGCTGGGCC
126 CGATTGCCTCAAACACCATCGACA-AGTGCTGGGCC
* *
13627818 TTGGTGCGGGCGA-TTGCCTCGAGCACCATTGACACAAGC
1 TTGGTGCGGGC-ACTTGCCTCGACCACCATCG-CACAAGC
13627857 CAACCCTTGG
Statistics
Matches: 165, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
160 27 0.16
161 43 0.26
162 90 0.55
163 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.21
Consensus pattern (160 bp):
TTGGTGCGGGCACTTGCCTCGACCACCATCGCACAAGCTGGCAATTGGAATAGGCACTTGCCTCA
ACCACCATCGACACATGCATCCCTCGATCAGCATCAGTAAAAGATGGCCCTTGGTACAGGCGATT
GCCTCAAACACCATCGACAAGTGCTGGGCC
Found at i:13627835 original size:45 final size:45
Alignment explanation
Indices: 13627786--13627963 Score: 135
Period size: 45 Copynumber: 4.0 Consensus size: 45
13627776 GTGCATGTGG
* * *
13627786 TTGCCTCAAACAGCATCGACACATGCTGGGCCTTGGTGCGGGCGA
1 TTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCGGGCGA
* * * ***
13627831 TTGCCTCGAGCACCATTGACACAAGCCAACCCTTGGTGCGGGC-A
1 TTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCGGGCGA
* * * ** * * *
13627875 CTTGCCTCGACCGCCATCGGTAGAAGATGGCCCTTGGTGCAGGCGA
1 -TTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCGGGCGA
** * *
13627921 TTGTGTCAAACACCATC-AGCACATGCTGGGCCTTGGTGCGGGC
1 TTGCCTCAAACACCATCGA-CACAAGCTGGCCCTTGGTGCGGGC
13627964 ACATGCCTTG
Statistics
Matches: 98, Mismatches: 32, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
44 1 0.01
45 96 0.98
46 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (45 bp):
TTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCGGGCGA
Found at i:13628136 original size:297 final size:296
Alignment explanation
Indices: 13627592--13628143 Score: 619
Period size: 297 Copynumber: 1.9 Consensus size: 296
13627582 CCTCGATGAG
* * ** *
13627592 CATCAGTAAAAGATGGCCCTTGGTACGGGCGATTGCCTCAAGCACCATTGGCAAGTGTTGGGCCT
1 CATCAGTAAAAGATGGCCCTTGGTACAGGCGATTGCCTCAAACACCATCAGCAAGTGCTGGGCCT
** * *
13627657 TGGTGCGGGCACATGCCTCGACCACCATCATCACAAGCTGGCAATTGGTATGGGCACTTGCCTGG
66 TGGTGCGGGCACATGCCTCGACCACCATCATCACAAGCT-GCAATTGGTACAGGCACTTGACTCG
** * * *
13627722 ACCACCATCAGCACGTGCCATCCCTTGATCAGCATCGATAAAAGATGGTCCCTGGTGCATGTGGT
130 ACCACCATCAGCACGTGCCATCCCTCAATCAGCATCGATAAAAGACGGGCCCTGGTGCAGGTGGT
* * ** * * * *
13627787 TGCCTCAAACAGCATCGACACATGCTGGGCCTTGGTGCGGGCGATTGCCTCGAGCACCATTGACA
195 TACCTCAAACACCATCGACACATGCTGGGCCTTACTGCAGGCAAATGCCTCGACCACCATTGACA
13627852 CAAGCCAACCCTTGGTGCGGGCACTTGCCTCGACCGC
260 CAAGCCAACCCTTGGTGCGGGCACTTGCCTCGACCGC
* * * **
13627889 CATCGGTAGAAGATGGCCCTTGGTGCAGGCGATTGTGTCAAACACCATCAGCACA-TGCTGGGCC
1 CATCAGTAAAAGATGGCCCTTGGTACAGGCGATTGCCTCAAACACCATCAGCA-AGTGCTGGGCC
* *
13627953 TTGGTGCGGGCACATGCCTTGACCACTATCGA-CACAAG-T-CAACCCTTGGTACAGGCACTTGA
65 TTGGTGCGGGCACATGCCTCGACCACCATC-ATCACAAGCTGCAA---TTGGTACAGGCACTTGA
* * * * * * * **
13628015 CTCGATCACCGTC-GACACGTGCCATGCCTCAATCAGCATCGGTAGAATACGGGCCTTGGTGTGG
126 CTCGACCACCATCAG-CACGTGCCATCCCTCAATCAGCATCGATAAAAGACGGGCCCTGGTGCAG
** * * *
13628079 GTGGTTACCTTGAACACCATCGATACGTGCTGGGCCTTACTGCAGGTAAATGCCTCGACCACCAT
190 GTGGTTACCTCAAACACCATCGACACATGCTGGGCCTTACTGCAGGCAAATGCCTCGACCACCAT
13628144 CGGTGCATGC
Statistics
Matches: 206, Mismatches: 43, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
294 3 0.01
296 2 0.01
297 199 0.97
298 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (296 bp):
CATCAGTAAAAGATGGCCCTTGGTACAGGCGATTGCCTCAAACACCATCAGCAAGTGCTGGGCCT
TGGTGCGGGCACATGCCTCGACCACCATCATCACAAGCTGCAATTGGTACAGGCACTTGACTCGA
CCACCATCAGCACGTGCCATCCCTCAATCAGCATCGATAAAAGACGGGCCCTGGTGCAGGTGGTT
ACCTCAAACACCATCGACACATGCTGGGCCTTACTGCAGGCAAATGCCTCGACCACCATTGACAC
AAGCCAACCCTTGGTGCGGGCACTTGCCTCGACCGC
Found at i:13630448 original size:26 final size:26
Alignment explanation
Indices: 13630410--13630462 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13630400 CTGGTCTGAT
*
13630410 CTTAGACTAGGAATGAACT-CCGTATG
1 CTTAGACTAGGAATAAACTGCC-TATG
*
13630436 CTTAGACTGGGAATAAACTGCCTATG
1 CTTAGACTAGGAATAAACTGCCTATG
13630462 C
1 C
13630463 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATAAACTGCCTATG
Found at i:13631534 original size:13 final size:13
Alignment explanation
Indices: 13631516--13631540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13631506 CAACGGCACA
13631516 TGATGGCACATGG
1 TGATGGCACATGG
13631529 TGATGGCACATG
1 TGATGGCACATG
13631541 CATCGACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13631943 original size:45 final size:45
Alignment explanation
Indices: 13631633--13632159 Score: 236
Period size: 45 Copynumber: 11.7 Consensus size: 45
13631623 GGTGGTGATG
* ** * * *
13631633 TCGATCACCATCGACACATGCTGACCCTTGGTGCTGGTGGTTACC
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * * ** * * ** *
13631678 TCGAGCACCATCGGCACAAGCCGACCCTCGGTGTGGGCTCTTACC
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * * * * * * * * *
13631723 TCGACCACCA-CTGACAGAAGATGGCCCCTAGTGCGGGCAGTTGCA
1 TCGATCACCATC-GGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * * * * * * *
13631768 TCAAACACCATCGACACAGGCTGGGCCCTAGTGCAGGTC-GTTGTC
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGC-GGGCGGTTGCC
* * * * * * * ** * **
13631813 TCGATCACCATCGGTAGAAGATGGCCCCTAGTGCAAGTGGTTGAG
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * * * * *
13631858 TCGAACACCATTGGCACATGTTAGGCCTTAGTTG-GGGCGGTTACC
1 TCGATCACCATCGGCACATGCTGGGCCTT-GGTGCGGGCGGTTGCC
* *
13631903 TCGATCACCATCGGCACATGCTGGGCCCTGGTGCGAGCGGTTGCC
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * **
13631948 TCGAACACCATTGGCATGTGCTGGGCCTTGGTGCGGGC-GTTGCC
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * * *
13631992 TCGATCACCATCGGCAGAAGATGGACCTTGGTGCGGGCGGTTGCC
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * ** * **
13632037 TCGAGCACCATCGGCACAAGC-CAGCCGTCGGTGCGGGCTCTTGCC
1 TCGATCACCATCGGCACATGCTGGGCC-TTGGTGCGGGCGGTTGCC
* * * * ** ** ** *
13632082 TCGACCCCCATCAGCATATGCTGACCCTTGGTGCGGGCAATCACA
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
* * *
13632127 TCGAACACCATCGGCACGTGCTGGTCCTTGGTG
1 TCGATCACCATCGGCACATGCTGGGCCTTGGTG
13632160 TGATCACATT
Statistics
Matches: 359, Mismatches: 114, Indels: 18
0.73 0.23 0.04
Matches are distributed among these distances:
44 43 0.12
45 307 0.86
46 9 0.03
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.21
Consensus pattern (45 bp):
TCGATCACCATCGGCACATGCTGGGCCTTGGTGCGGGCGGTTGCC
Found at i:13632034 original size:89 final size:89
Alignment explanation
Indices: 13631737--13632052 Score: 287
Period size: 90 Copynumber: 3.5 Consensus size: 89
13631727 CCACCACTGA
* * * * * * *
13631737 CAGAAGATGGCCCCTAGTGCGGGCAGTTGCATCAAACACCATCGACACAG-GCTGGGCCCTAGTG
1 CAGAAGATGGCCCCTAGTGCGAGCGGTTGCCTCGAACACCATCGGCA-AGTGCTGGGCCTTGGTG
* *
13631801 CAGGTCGTTGTCTCGATCACCATCGG
65 C-GGGCGTTGCCTCGATCACCATCGG
* * * ** * * * *
13631827 TAGAAGATGGCCCCTAGTGCAAGTGGTTGAGTCGAACACCATTGGCACA-TGTTAGGCCTTAGTT
1 CAGAAGATGGCCCCTAGTGCGAGCGGTTGCCTCGAACACCATCGGCA-AGTGCTGGGCCTT-GGT
*
13631891 G-GGGCGGTTACCTCGATCACCATCGG
64 GCGGGC-GTTGCCTCGATCACCATCGG
* * * * * * *
13631917 CACATGCTGGGCCCTGGTGCGAGCGGTTGCCTCGAACACCATTGGCATGTGCTGGGCCTTGGTGC
1 CAGAAGATGGCCCCTAGTGCGAGCGGTTGCCTCGAACACCATCGGCAAGTGCTGGGCCTTGGTGC
13631982 GGGCGTTGCCTCGATCACCATCGG
66 GGGCGTTGCCTCGATCACCATCGG
* * * * *
13632006 CAGAAGATGGACCTTGGTGCGGGCGGTTGCCTCGAGCACCATCGGCA
1 CAGAAGATGGCCCCTAGTGCGAGCGGTTGCCTCGAACACCATCGGCA
13632053 CAAGCCAGCC
Statistics
Matches: 180, Mismatches: 41, Indels: 11
0.78 0.18 0.05
Matches are distributed among these distances:
89 64 0.36
90 114 0.63
91 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.21
Consensus pattern (89 bp):
CAGAAGATGGCCCCTAGTGCGAGCGGTTGCCTCGAACACCATCGGCAAGTGCTGGGCCTTGGTGC
GGGCGTTGCCTCGATCACCATCGG
Found at i:13641383 original size:44 final size:45
Alignment explanation
Indices: 13641191--13641460 Score: 211
Period size: 45 Copynumber: 6.0 Consensus size: 45
13641181 CCTGATGCGT
* * * *
13641191 GTGGTTACCTCGAATACCATCGGCACATGCTGGGCTTTAGTACGG
1 GTGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGG
* * * * * ** * * * *
13641236 GTGGTTACCTCGAGCACCATTGGCATAAGCCAGCCCTTAGTGCAG
1 GTGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGG
*** * * * * * * **
13641281 GCACTTGCCTC-AACCACCATCGACAGAAGATGGCCCCTGGTGTGG
1 GTGGTTGCCTCGAA-CACCATCGGCACATGCTGGGCCTTGGTACGG
** * *
13641326 ACGGTTGCATCGAACACCATCGACACATGCTGGGCCTTGGT-CGG
1 GTGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGG
* *
13641370 GTGGTTGCCTCGAACACCATCGGCACATGCTAGGCCTTGGTGCGG
1 GTGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGG
* *
13641415 GTGGTTGCCTCGAACATCATCGGCACATGTTGGGCCTTGGTACGG
1 GTGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGG
13641460 G
1 G
13641461 CACATGCCTT
Statistics
Matches: 177, Mismatches: 45, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
44 39 0.22
45 136 0.77
46 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (45 bp):
GTGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGGTACGG
Found at i:13641436 original size:89 final size:90
Alignment explanation
Indices: 13641328--13641505 Score: 225
Period size: 90 Copynumber: 2.0 Consensus size: 90
13641318 TGGTGTGGAC
****
13641328 GGTTGCATCGAACACCATCGACACATGCTGGGCCTTGGT-CGGGTGGTTGCCTCGAACACCATCG
1 GGTTGCATCGAACACCATCGACACATGCTGGGCCTTGGTACGGGCACATGCCTCGAACACCATCG
* *
13641392 GCACATG-CTAGGCCTTGGTGCGGGT
66 GCACAAGTC-AGCCCTTGGTGCGGGT
* * * * * *
13641417 GGTTGCCTCGAACATCATCGGCACATGTTGGGCCTTGGTACGGGCACATGCCTTGACCACCATCG
1 GGTTGCATCGAACACCATCGACACATGCTGGGCCTTGGTACGGGCACATGCCTCGAACACCATCG
13641482 GCACAAGTCAGCCCTTGGTGCGGG
66 GCACAAGTCAGCCCTTGGTGCGGG
13641506 CACTTGCCTC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
89 35 0.47
90 39 0.52
91 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.22
Consensus pattern (90 bp):
GGTTGCATCGAACACCATCGACACATGCTGGGCCTTGGTACGGGCACATGCCTCGAACACCATCG
GCACAAGTCAGCCCTTGGTGCGGGT
Found at i:13641469 original size:45 final size:45
Alignment explanation
Indices: 13641330--13641525 Score: 191
Period size: 45 Copynumber: 4.4 Consensus size: 45
13641320 GTGTGGACGG
* * * ***
13641330 TTGCATCGAACACCATCGACACATGCTGGGCCTTGGT-CGGGTGG
1 TTGCCTCGAACACCATCGGCACATGCTAGGCCTTGGTGCGGGCAC
***
13641374 TTGCCTCGAACACCATCGGCACATGCTAGGCCTTGGTGCGGGTGG
1 TTGCCTCGAACACCATCGGCACATGCTAGGCCTTGGTGCGGGCAC
* * * *
13641419 TTGCCTCGAACATCATCGGCACATGTTGGGCCTTGGTACGGGCAC
1 TTGCCTCGAACACCATCGGCACATGCTAGGCCTTGGTGCGGGCAC
* * * * *
13641464 ATGCCTTGACCACCATCGGCACAAG-TCAGCCCTTGGTGCGGGCAC
1 TTGCCTCGAACACCATCGGCACATGCT-AGGCCTTGGTGCGGGCAC
13641509 TTGCCTC-AATCACCATC
1 TTGCCTCGAA-CACCATC
13641526 AACACGTGCC
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
44 36 0.28
45 92 0.72
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.22
Consensus pattern (45 bp):
TTGCCTCGAACACCATCGGCACATGCTAGGCCTTGGTGCGGGCAC
Found at i:13641513 original size:90 final size:89
Alignment explanation
Indices: 13641330--13641530 Score: 217
Period size: 90 Copynumber: 2.2 Consensus size: 89
13641320 GTGTGGACGG
* ****
13641330 TTGCATCGAACACCATCGACACATGCTGGGCCTTGGTCGGGTGGTTGCCTCGAACACCATCGGCA
1 TTGCCTCGAACACCATCGACACATGCTGGGCCTTGGTCGGGCACATGCCTCGAACACCATCGGCA
* * ***
13641395 CATGCTAGGCCTTGGTGCGGGTGG
66 CAAGCTAGCCCTTGGTGCGGGCAC
* * * * *
13641419 TTGCCTCGAACATCATCGGCACATGTTGGGCCTTGGTACGGGCACATGCCTTGACCACCATCGGC
1 TTGCCTCGAACACCATCGACACATGCTGGGCCTTGGT-CGGGCACATGCCTCGAACACCATCGGC
13641484 ACAAG-TCAGCCCTTGGTGCGGGCAC
65 ACAAGCT-AGCCCTTGGTGCGGGCAC
*
13641509 TTGCCTC-AATCACCATCAACAC
1 TTGCCTCGAA-CACCATCGACAC
13641531 GTGCCTCGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
89 36 0.40
90 55 0.60
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.22
Consensus pattern (89 bp):
TTGCCTCGAACACCATCGACACATGCTGGGCCTTGGTCGGGCACATGCCTCGAACACCATCGGCA
CAAGCTAGCCCTTGGTGCGGGCAC
Found at i:13641542 original size:22 final size:22
Alignment explanation
Indices: 13641510--13641557 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
13641500 TGCGGGCACT
13641510 TGCCTCAATCACCATCAACACG
1 TGCCTCAATCACCATCAACACG
* * **
13641532 TGCCTCGATCACTATCGGCACG
1 TGCCTCAATCACCATCAACACG
13641554 TGCC
1 TGCC
13641558 ATGCCTCGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.21
Consensus pattern (22 bp):
TGCCTCAATCACCATCAACACG
Found at i:13648749 original size:45 final size:45
Alignment explanation
Indices: 13648685--13648994 Score: 139
Period size: 45 Copynumber: 6.9 Consensus size: 45
13648675 TGGTACGTAC
* *
13648685 GGTTGCCTCAAACACCATCGACACATGCTGGGCCTTGGTGCAGAA
1 GGTTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCAGAA
* * * * *
13648730 GGTTGCCTCGAGCACCATCGATACAAGCTGACCCTTGGTGCGAGTA
1 GGTTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGC-AGAA
* * * * * * * * * ** *
13648776 -CTTACCTCGACCACCATTGGCAGAAGATGGCCCCTGGTGTGGGCA
1 GGTTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTG-CAGAA
* * * * *
13648821 -GTTGCATCAAACACCATC-AGTACATGCTGGGCCTTGGTGCA-AGT
1 GGTTGCCTCAAACACCATCGA-CACAAGCTGGCCCTTGGTGCAGA-A
* ** * * * * **
13648865 GGTTGCTTTGATCACCATCGATAGAAGATGGCCCTTGGTG-AGGGT
1 GGTTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCA-GAA
* * * *
13648910 GGTTGCCTCAAACACCATCGACACATGCTGGGCCTTGGTGCGGGCA
1 GGTTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGC-AGAA
** * *
13648956 -CATGCCTC-AACTACCATCGGCACAAGCTGACCCTTGGTG
1 GGTTGCCTCAAAC-ACCATCGACACAAGCTGGCCCTTGGTG
13648995 TGGGCACAAG
Statistics
Matches: 190, Mismatches: 64, Indels: 22
0.69 0.23 0.08
Matches are distributed among these distances:
44 4 0.02
45 181 0.95
46 5 0.03
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (45 bp):
GGTTGCCTCAAACACCATCGACACAAGCTGGCCCTTGGTGCAGAA
Found at i:13648881 original size:90 final size:90
Alignment explanation
Indices: 13648787--13648950 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
13648777 TTACCTCGAC
* * * *
13648787 CACCATTGGCAGAAGATGGCCCCTGGTGTGGGCAGTTGCATCAAACACCATC-AGTACATGCTGG
1 CACCATCGACAGAAGATGGCCCCTGGTGAGGGCAGTTGCATCAAACACCATCGA-CACATGCTGG
13648851 GCCTTGGTGCAAGTGGTTGCTTTGAT
65 GCCTTGGTGCAAGTGGTTGCTTTGAT
* * ** *
13648877 CACCATCGATAGAAGATGGCCCTTGGTGAGGGTGGTTGCCTCAAACACCATCGACACATGCTGGG
1 CACCATCGACAGAAGATGGCCCCTGGTGAGGGCAGTTGCATCAAACACCATCGACACATGCTGGG
13648942 CCTTGGTGC
66 CCTTGGTGC
13648951 GGGCACATGC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
90 63 0.98
91 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (90 bp):
CACCATCGACAGAAGATGGCCCCTGGTGAGGGCAGTTGCATCAAACACCATCGACACATGCTGGG
CCTTGGTGCAAGTGGTTGCTTTGAT
Found at i:13648949 original size:135 final size:135
Alignment explanation
Indices: 13648686--13648955 Score: 292
Period size: 135 Copynumber: 2.0 Consensus size: 135
13648676 GGTACGTACG
*
13648686 GTTGCCTCAAACACCATCGACACATGCTGGGCCTTGGTGCAGAAGGTTGCCTCGAGCACCATCGA
1 GTTGCATCAAACACCATCGACACATGCTGGGCCTTGGTGCAGAAGGTTGCCTCGAGCACCATCGA
* * * * * * * *
13648751 TACAAGCTGACCCTTGGTGCGAGTACTTACCTCGACCACCATTGGCAGAAGATGGCCCCTGGTGT
66 TACAAGATGACCCTTGGTGAGAGTACTTACCTCAAACACCATCGACACAAGATGGCCCCTGGTGC
13648816 GGGCA
131 GGGCA
* * * * *
13648821 GTTGCATCAAACACCATC-AGTACATGCTGGGCCTTGGTGCA-AGTGGTTGCTTTGATCACCATC
1 GTTGCATCAAACACCATCGA-CACATGCTGGGCCTTGGTGCAGA-AGGTTGCCTCGAGCACCATC
* * * ** * * * * *
13648884 GATAGAAGATGGCCCTTGGTGAGGGTGGTTGCCTCAAACACCATCGACACATGCTGGGCCTTGGT
64 GATACAAGATGACCCTTGGTGAGAGTACTTACCTCAAACACCATCGACACAAGATGGCCCCTGGT
13648949 GCGGGCA
129 GCGGGCA
13648956 CATGCCTCAA
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
134 2 0.02
135 107 0.98
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.23
Consensus pattern (135 bp):
GTTGCATCAAACACCATCGACACATGCTGGGCCTTGGTGCAGAAGGTTGCCTCGAGCACCATCGA
TACAAGATGACCCTTGGTGAGAGTACTTACCTCAAACACCATCGACACAAGATGGCCCCTGGTGC
GGGCA
Found at i:13649004 original size:23 final size:23
Alignment explanation
Indices: 13648974--13649019 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13648964 AACTACCATC
13648974 GGCACAAGCTGACCCTTGGTGTG
1 GGCACAAGCTGACCCTTGGTGTG
13648997 GGCACAAGCTGACCCTTGGTGTG
1 GGCACAAGCTGACCCTTGGTGTG
13649020 TGCCATGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.22
Consensus pattern (23 bp):
GGCACAAGCTGACCCTTGGTGTG
Found at i:13660131 original size:24 final size:24
Alignment explanation
Indices: 13660104--13660167 Score: 128
Period size: 24 Copynumber: 2.7 Consensus size: 24
13660094 TGCGACCCTA
13660104 GTCTGACTGCATGCCCATGTGTCG
1 GTCTGACTGCATGCCCATGTGTCG
13660128 GTCTGACTGCATGCCCATGTGTCG
1 GTCTGACTGCATGCCCATGTGTCG
13660152 GTCTGACTGCATGCCC
1 GTCTGACTGCATGCCC
13660168 GCGCACCGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.12, C:0.31, G:0.28, T:0.28
Consensus pattern (24 bp):
GTCTGACTGCATGCCCATGTGTCG
Found at i:13660934 original size:149 final size:150
Alignment explanation
Indices: 13660645--13660940 Score: 400
Period size: 149 Copynumber: 2.0 Consensus size: 150
13660635 TTGTGGTCCA
* * * * ** * * * *
13660645 TGAATTCATATGAGCGCTCCCTAATGCCCGCGCACCACGTGCGGGTGTCCTAAGCTCGGGTCGAG
1 TGAATTCATATGAGCACTCCCCAATGCCCGCACACAACACGCGGGTGTCCTAAGCCCAGGCCAAG
*
13660710 CACCAATGAGCACCACAATCAAGTGGTAGGTGGGTTTAGGCACATCTTCATATTTTTGCCATGCC
66 CACCAATGAGCACCACAATCAAGTGGTAGGTGGGTTTAGGCACATCTTCATATTTATGCCATGCC
*
13660775 AATGCCATTTTTATGGCATG
131 AATGACATTTTTATGGCATG
* *
13660795 TGAATTCATATGAGCACTCCCCAGTGCCTGCACACAACACGCGGGTGTCCTAAGCCCAGGCCAAG
1 TGAATTCATATGAGCACTCCCCAATGCCCGCACACAACACGCGGGTGTCCTAAGCCCAGGCCAAG
* * *
13660860 CACC-ATGCA-CGCCACGATC-TGATGGTAGGTGGGTTTAGGCACATCTTCATATTTATGCCATG
66 CACCAATG-AGCACCACAATCAAG-TGGTAGGTGGGTTTAGGCACATCTTCATATTTATGCCATG
13660922 CCAATGACATTTTTATGGC
129 CCAATGACATTTTTATGGC
13660941 TTTTAAATTC
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
148 1 0.01
149 68 0.54
150 58 0.46
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (150 bp):
TGAATTCATATGAGCACTCCCCAATGCCCGCACACAACACGCGGGTGTCCTAAGCCCAGGCCAAG
CACCAATGAGCACCACAATCAAGTGGTAGGTGGGTTTAGGCACATCTTCATATTTATGCCATGCC
AATGACATTTTTATGGCATG
Found at i:13676574 original size:150 final size:148
Alignment explanation
Indices: 13676376--13676725 Score: 390
Period size: 150 Copynumber: 2.4 Consensus size: 148
13676366 GTTCAATGAT
* * * *
13676376 ATCTTCATGTTTCTACAATGCCAAAGCCATTTTTATGGTCCATG--AATTCATATGAGCACTCCC
1 ATCTTCATATTTCTTCCATGCCAATGCCATTTTTATGG-CC-TGTAAATTCATATGAGCACTCCC
* * * * *
13676439 CAATGC-CC-GCACACTACGCGCGGGTGTCCTGAGCTC-GAGCCGAGCACCAATGATCGCCATGA
64 C-A-GCACCTGCACACCACACGCGGGTGTCCTGAGC-CAGAGCCGAGC-CCAATGAGCACCAGGA
** *
13676501 TCGGGTGGTAGGTTGGTTCAGGCAC
125 TCAAGTGGTA-GTGGGTTCAGGCAC
13676526 ATCTTCATA-TT-TTCGCTATGCCAATGCCATTTTTATGGCCTGTAAATTCATATGAGCACTCCC
1 ATCTTCATATTTCTTC-C-ATGCCAATGCCATTTTTATGGCCTGTAAATTCATATGAGCACTCCC
* * * * *
13676589 CAGCACCTGCACACCACACGCGGGTGTCTTGAGCCAGGGTCGAGCCCCATGCGCACCAGGATCAA
64 CAGCACCTGCACACCACACGCGGGTGTCCTGAGCCAGAGCCGAGCCCAATGAGCACCAGGATCAA
*
13676654 GTGGTAGTGGGTTTAGGCAC
129 GTGGTAGTGGGTTCAGGCAC
* *
13676674 GTCTTCATATTTCTTCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATA
1 ATCTTCATATTTCTTCCATGCCAATGCCATTTTTATGGCCTGTAAATTCATA
13676726 CAATGGTCCC
Statistics
Matches: 171, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
148 60 0.35
149 30 0.18
150 81 0.47
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (148 bp):
ATCTTCATATTTCTTCCATGCCAATGCCATTTTTATGGCCTGTAAATTCATATGAGCACTCCCCA
GCACCTGCACACCACACGCGGGTGTCCTGAGCCAGAGCCGAGCCCAATGAGCACCAGGATCAAGT
GGTAGTGGGTTCAGGCAC
Found at i:13677279 original size:13 final size:13
Alignment explanation
Indices: 13677261--13677285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13677251 CAACGCCACA
13677261 TGATGGCACATGG
1 TGATGGCACATGG
13677274 TGATGGCACATG
1 TGATGGCACATG
13677286 CTTTGACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:13677838 original size:45 final size:45
Alignment explanation
Indices: 13677789--13677894 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 45
13677779 TGGGCAGTTA
* * *
13677789 CCTCGAACACCATCGGCATATGCTGGGCCTTGGTGCAGGCACATG
1 CCTCGAACACCATCGGCATAAGCAGGCCCTTGGTGCAGGCACATG
* * ** *
13677834 CCTCGACCACCATCAGCATAAGCAGGCCCTTGGTGTGGGCACTTG
1 CCTCGAACACCATCGGCATAAGCAGGCCCTTGGTGCAGGCACATG
* *
13677879 CCTCGATCAGCATCGG
1 CCTCGAACACCATCGG
13677895 TATGTGCCAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (45 bp):
CCTCGAACACCATCGGCATAAGCAGGCCCTTGGTGCAGGCACATG
Found at i:13686640 original size:150 final size:148
Alignment explanation
Indices: 13686364--13686727 Score: 376
Period size: 150 Copynumber: 2.4 Consensus size: 148
13686354 GATCGGCCAA
* * * * * * * *
13686364 TAGGTGGGTTCAGGGATATCTTCATGTTTCTACAGTGTGAAAGCCATTTTTGTGGTCC-ATGAAT
1 TAGGTGGGTTCAGGCACATCTTCATATTTCTGCA-TGTCAATGCCATTTTTATGG-CCTGTGAAT
* * *
13686428 TCATATGAGCGCTCTTCAATGCCCGTACACCACGCGCGGGTGTCCTGAGCTTAGTCCAAGCACCA
64 TCATATGAGCACTCTTCAATGCCCGCACACCACGCGCGGGTGTCCTGAGCCTAGTCCAAGCACC-
*
13686493 ACGAT-CGCCACGACCGGGAAG
128 ACG-TGCGCCACGACCAGGAAG
13686514 TAGGTGGGTTCAGGCACATCTTCATATTTCTGCCATGTCAATGCCATTTTTATGGCCTGTGAATT
1 TAGGTGGGTTCAGGCACATCTTCATATTTCTG-CATGTCAATGCCATTTTTATGGCCTGTGAATT
* * * * *
13686579 CATATGAGCACTCCTT-AGTGCCTGCACACCACGTGCGGGTGTCCTGAGCCCTGGT-CGAGCACC
65 CATATGAGCACT-CTTCAATGCCCGCACACCACGCGCGGGTGTCCTGAG-CCTAGTCCAAGCACC
* ** * **
13686642 ATGTGCGCCATTATCAGGTGG
128 ACGTGCGCCACGACCAGGAAG
* * * * *
13686663 TAGGTGGGTTTAGGCACATCTTCATATTTCTAGCTTGCCAATGCCATTTTTATGGCTTGTAAATT
1 TAGGTGGGTTCAGGCACATCTTCATATTTCT-GCATGTCAATGCCATTTTTATGGCCTGTGAATT
13686728 TATACAATGG
Statistics
Matches: 180, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
148 1 0.01
149 72 0.40
150 98 0.54
151 9 0.05
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (148 bp):
TAGGTGGGTTCAGGCACATCTTCATATTTCTGCATGTCAATGCCATTTTTATGGCCTGTGAATTC
ATATGAGCACTCTTCAATGCCCGCACACCACGCGCGGGTGTCCTGAGCCTAGTCCAAGCACCACG
TGCGCCACGACCAGGAAG
Found at i:13687073 original size:12 final size:12
Alignment explanation
Indices: 13687056--13687098 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
13687046 GAGGGATAGG
13687056 GGGCCAATATAA
1 GGGCCAATATAA
13687068 GGGCCAATATAA
1 GGGCCAATATAA
13687080 GGGCCAATATAA
1 GGGCCAATATAA
13687092 GGGCCAA
1 GGGCCAA
13687099 GTACAAGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.14
Consensus pattern (12 bp):
GGGCCAATATAA
Found at i:13687433 original size:45 final size:46
Alignment explanation
Indices: 13687340--13687439 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 46
13687330 CATCGACCAT
* * **
13687340 CATCGGCAC-AGACTGCCCTTTGGTACGGGCACTTACCTCGACTGC
1 CATCGGCACAAGACTGCCCTTTGGAACAGGCACTTACCTCGACAAC
13687385 CATCGGCACAAG-CTGGCCC-TTGGAACAGGCACTTACCTCGACAAC
1 CATCGGCACAAGACT-GCCCTTTGGAACAGGCACTTACCTCGACAAC
*
13687430 CATCGACACA
1 CATCGGCACA
13687440 TGCATGCCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 42 0.88
46 6 0.12
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (46 bp):
CATCGGCACAAGACTGCCCTTTGGAACAGGCACTTACCTCGACAAC
Found at i:13688282 original size:40 final size:41
Alignment explanation
Indices: 13688210--13688288 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 41
13688200 TTTTTCTTTT
* * * **
13688210 TCTCGATGTGAATGTGCCTTCTTGTGTGTGCTTGAGATTGA
1 TCTCGATATGAATGTGCCTTATTATGAATGCTTGAGATTGA
*
13688251 TCTCGATAT-AATGTGCCTTATTATGAATGCTTGGGATT
1 TCTCGATATGAATGTGCCTTATTATGAATGCTTGAGATT
13688289 AACCATGGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 24 0.75
41 8 0.25
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (41 bp):
TCTCGATATGAATGTGCCTTATTATGAATGCTTGAGATTGA
Found at i:13699349 original size:21 final size:21
Alignment explanation
Indices: 13699280--13699343 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
13699270 TTCCATCCGC
13699280 TGGTGCATGGCCACCATGCCA
1 TGGTGCATGGCCACCATGCCA
13699301 TGGTGCATGGCCACCATGCCA
1 TGGTGCATGGCCACCATGCCA
*
13699322 TGGTGCATGGCCTCCATGCCA
1 TGGTGCATGGCCACCATGCCA
13699343 T
1 T
13699344 CATGCAAGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (21 bp):
TGGTGCATGGCCACCATGCCA
Found at i:13710083 original size:150 final size:148
Alignment explanation
Indices: 13709887--13710193 Score: 398
Period size: 148 Copynumber: 2.1 Consensus size: 148
13709877 GTGGTCCATT
* * * * * *
13709887 AATTCATATGAGCACTCCCCAATGCTCGCGCACCACGCACGGGTGTCCTTAGCCTGGGTCGAGCA
1 AATTCATATGAGCACTCCCCAATGCCCGCACACCACGCACGAGTGTCCTGAGCCCGGGCCGAGCA
* * *
13709952 CAAATGATCGCCACGACCGGGTGGTAGGTGGGTTTAGAAACATCTTCATATTTCTGCCATGCCAA
66 C--ATGAGCGCCACGACCAGGTGGTAGGTGGGTTTAGAAACATCTTCATATTTCTACCATGCCAA
*
13710017 TGCCATTTTTATGGCCTGTG
129 TGCCATTTTTATGGCCTGTA
* * ** *
13710037 AATTCATATGAGCATTCCCTAATGCCCGCACACCACGCGTGAGTGTCGTGAGCCCGGGCCGAGCA
1 AATTCATATGAGCACTCCCCAATGCCCGCACACCACGCACGAGTGTCCTGAGCCCGGGCCGAGCA
* * ** * *
13710102 CATGCGCGCCACGATCAGGTGGTAGGTGGGTTTAGGCATATCTTCATATTTCTATCATGCCAATG
66 CATGAGCGCCACGACCAGGTGGTAGGTGGGTTTAGAAACATCTTCATATTTCTACCATGCCAATG
*
13710167 CCATTTTTATGGCTTGTA
131 CCATTTTTATGGCCTGTA
13710185 AATTCATAT
1 AATTCATAT
13710194 AATGGTCCCT
Statistics
Matches: 135, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
148 80 0.59
150 55 0.41
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (148 bp):
AATTCATATGAGCACTCCCCAATGCCCGCACACCACGCACGAGTGTCCTGAGCCCGGGCCGAGCA
CATGAGCGCCACGACCAGGTGGTAGGTGGGTTTAGAAACATCTTCATATTTCTACCATGCCAATG
CCATTTTTATGGCCTGTA
Found at i:13710163 original size:148 final size:147
Alignment explanation
Indices: 13709825--13710193 Score: 402
Period size: 150 Copynumber: 2.5 Consensus size: 147
13709815 CGATTGGGCA
* * * * * *
13709825 GTAGGTGAGTTTAGGGATATCTTCATGTTT-TTGCAGTGCCAAAGCAATTTTTGTGGTCCAT-TA
1 GTAGGTGGGTTTAGGAATATCTTCATATTTCTT-CA-TGCCAATGCCATTTTTATGG-CC-TGTA
* * * * * *
13709888 ATTCATATGAGCACTCCCCAATGCTCGCGCACCACGCACGGGTGTCCTTAGCCTGGGTCGAGCAC
62 ATTCATATGAGCACTCCCCAATGCCCGCACACCACGCACGAGTGTCCTGAGCCCGGGCCGAGCAC
* *
13709953 AAATGATCGCCACGACCGGGTG
127 -AATGAGCGCCACGACCAGGTG
* * *
13709975 GTAGGTGGGTTTAGAAACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCCTGTGAAT
1 GTAGGTGGGTTTAGGAATATCTTCATATTTCT-TCATGCCAATGCCATTTTTATGGCCTGT-AAT
* * ** *
13710040 TCATATGAGCATTCCCTAATGCCCGCACACCACGCGTGAGTGTCGTGAGCCCGGGCCGAGCAC-A
64 TCATATGAGCACTCCCCAATGCCCGCACACCACGCACGAGTGTCCTGAGCCCGGGCCGAGCACAA
* *
13710104 TGCGCGCCACGATCAGGTG
129 TGAGCGCCACGACCAGGTG
* *
13710123 GTAGGTGGGTTTAGGCATATCTTCATATTTCTATCATGCCAATGCCATTTTTATGGCTTGTAAAT
1 GTAGGTGGGTTTAGGAATATCTTCATATTTCT-TCATGCCAATGCCATTTTTATGGCCTGT-AAT
13710188 TCATAT
64 TCATAT
13710194 AATGGTCCCT
Statistics
Matches: 184, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
148 81 0.44
149 3 0.02
150 97 0.53
151 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (147 bp):
GTAGGTGGGTTTAGGAATATCTTCATATTTCTTCATGCCAATGCCATTTTTATGGCCTGTAATTC
ATATGAGCACTCCCCAATGCCCGCACACCACGCACGAGTGTCCTGAGCCCGGGCCGAGCACAATG
AGCGCCACGACCAGGTG
Found at i:13720190 original size:148 final size:149
Alignment explanation
Indices: 13719875--13720206 Score: 393
Period size: 148 Copynumber: 2.2 Consensus size: 149
13719865 TGTTCTACAG
* * * * * *
13719875 TGCCAAAGCCATTTTTGTGGCCCATGAATTCATATGAGTGCTCCCCAACACCCGAGCACCACGCG
1 TGCCAATGCCATTTTTATGGCCTATAAATTCATATGAGTACTCACCAACACCCGAGCACCACGCG
* *
13719940 CGGGTGTCCTTAGCCCAGGCCGAGCACAAATGATAACCACGATCGGGTGGTAGGTGGGTTCAGGA
66 CGGGTGTCCTAAGCCCAGGCCGAGCAC-AATGAGAACCACGATCGGGTGGTAGGTGGGTTCAGGA
*
13720005 ACATCTTCTTATTTTTGCCA
130 ACATCTTCATATTTTTGCCA
* * *
13720025 TGCCAATACCATTTTTATGGCCTATAAATTCATATGA-TCACTCACCAGCGCCCGCA-CACCACG
1 TGCCAATGCCATTTTTATGGCCTATAAATTCATATGAGT-ACTCACCAACACCCG-AGCACCACG
* * ** * * *
13720088 -GACGGGTGTCCTAAGCCCGGGCCGAGCAC-ATGCGCGCTACGATTGGGTGGTAGGTGGGTTTAG
64 CG-CGGGTGTCCTAAGCCCAGGCCGAGCACAATGAGAACCACGATCGGGTGGTAGGTGGGTTCAG
*
13720151 GCACATCTTCATATTTTTGCCA
128 GAACATCTTCATATTTTTGCCA
* * *
13720173 TGTCAATGCCATTTTTATGGCTTGTAAATTCATA
1 TGCCAATGCCATTTTTATGGCCTATAAATTCATA
13720207 CAATGGTCCC
Statistics
Matches: 155, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
148 77 0.50
149 2 0.01
150 75 0.48
151 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (149 bp):
TGCCAATGCCATTTTTATGGCCTATAAATTCATATGAGTACTCACCAACACCCGAGCACCACGCG
CGGGTGTCCTAAGCCCAGGCCGAGCACAATGAGAACCACGATCGGGTGGTAGGTGGGTTCAGGAA
CATCTTCATATTTTTGCCA
Found at i:13724282 original size:45 final size:45
Alignment explanation
Indices: 13724199--13724284 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
13724189 CGTGACACTT
* *
13724199 GCACATGCCTTGACCACCATCGAGACATGTTGGCCCTTGGTCTCA
1 GCACATGCCTTGACCACCATCGAGACATGCTGGACCTTGGTCTCA
* *
13724244 GCACATG-CTTCGACCACTATCTGTG-CATGCTGGACCTTGGT
1 GCACATGCCTT-GACCACCATC-GAGACATGCTGGACCTTGGT
13724285 GTGGGTAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 3 0.09
45 30 0.86
46 2 0.06
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (45 bp):
GCACATGCCTTGACCACCATCGAGACATGCTGGACCTTGGTCTCA
Found at i:13724847 original size:19 final size:19
Alignment explanation
Indices: 13724805--13724847 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13724795 CTTGTTTTCT
**
13724805 ATTTTTCACGATTTTTGAA
1 ATTTTTCACGATTTGGGAA
*
13724824 ATTTTTTACGATTTGGG-A
1 ATTTTTCACGATTTGGGAA
13724842 ATTTTT
1 ATTTTT
13724848 AAAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.56
Consensus pattern (19 bp):
ATTTTTCACGATTTGGGAA
Found at i:13726149 original size:49 final size:49
Alignment explanation
Indices: 13726077--13726177 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
13726067 TTCTTCCACA
* * *
13726077 CCCAACCTTGTGACACCCTCGTCACTG-AGGCTAGCCACGCTGCCTACCT
1 CCCAACCTCGTGACACCCTCGTCA-TGAAGGCTAGCCACCCTACCTACCT
* *
13726126 CCCAACCTCGTGACGCCCTCGTCATGAAGGCTAGCCACCCTATCTACCT
1 CCCAACCTCGTGACACCCTCGTCATGAAGGCTAGCCACCCTACCTACCT
13726175 CCC
1 CCC
13726178 TCGAGGTGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 2 0.04
49 44 0.96
ACGTcount: A:0.19, C:0.45, G:0.17, T:0.20
Consensus pattern (49 bp):
CCCAACCTCGTGACACCCTCGTCATGAAGGCTAGCCACCCTACCTACCT
Found at i:13734719 original size:26 final size:26
Alignment explanation
Indices: 13734668--13734720 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13734658 TTGGTCCGAT
* *
13734668 CTTAGACTGGGTATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTATATG
*
13734694 CTTAGATTGGGAATGAACTAC-ATATG
1 CTTAGACTGGGAATGAACT-CTATATG
13734720 C
1 C
13734721 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTATATG
Done.