Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 72 of 170
Found at i:21820066 original size:128 final size:127
Alignment explanation
Indices: 21819827--21820132 Score: 332
Period size: 128 Copynumber: 2.4 Consensus size: 127
21819817 GATATGTTTT
* * * * * * * **
21819827 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAGAGGTTTTGATCTATAGTGGCGTTTGTGGGAAATGT
1 TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCATTTGTGAAAAATGT
* * * * ** **
21819892 GCCGCTAAAGGTCTTGATTTATAGCGGCGTTTGTGGGAAATTGCCGCTAAAGATCTTGAGCTA
66 -CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCCCGAGCTA
* *
21819955 TAGCGGTGTTT-TTGTAAAAAGCGCCGGTAAAGGTTCTGATCTATAGCGGCATTTGTGAAAAACT
1 TAGCGGCGTTTGTTGT-AAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCATTTGTGAAAAA-T
* *
21820019 GT-CGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCGATCTA
64 GTCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCCCGAGCTA
*
21820083 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGG-TCATGA-CTTATAGCGGC
1 TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGGTTC-TGATC-TATAGCGGC
21820133 GTTTTTTGAA
Statistics
Matches: 148, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
127 36 0.24
128 105 0.71
129 7 0.05
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (127 bp):
TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCATTTGTGAAAAATGT
CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCCCGAGCTA
Found at i:21820692 original size:40 final size:40
Alignment explanation
Indices: 21820648--21820777 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
21820638 GGAAATTAAG
*
21820648 GGGAAAAATAAAGTGAATCGGGTTAGGGGAGAAATGGTTT
1 GGGAAAAATAAAGAGAATCGGGTTAGGGGAGAAATGGTTT
* * * * * *
21820688 GGGAAAAATAAA-AGAGCTGCCGATTTGGGGA-AATTGG--G
1 GGGAAAAATAAAGAGA-AT-CGGGTTAGGGGAGAAATGGTTT
* *
21820726 GGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTT
1 GGGAAAAATAAAGAGAATCGGGTTAGGGGAGAAATGGTTT
21820766 GGGAAAAATAAA
1 GGGAAAAATAAA
21820778 ATGGGGAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
37 8 0.12
38 18 0.26
39 4 0.06
40 30 0.43
41 9 0.13
ACGTcount: A:0.40, C:0.04, G:0.38, T:0.18
Consensus pattern (40 bp):
GGGAAAAATAAAGAGAATCGGGTTAGGGGAGAAATGGTTT
Found at i:21820756 original size:78 final size:78
Alignment explanation
Indices: 21820627--21820778 Score: 268
Period size: 78 Copynumber: 1.9 Consensus size: 78
21820617 TGCAGAGGGT
* *
21820627 TGCCGATTTGGGGAAATTAAGGGGAAAAATAAAGTGAATCGGGTTAGGGGAGAAATGGTTTGGGA
1 TGCCGATTTGGGGAAATTAAGGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
21820692 AAAATAAAAGAGC
66 AAAATAAAAGAGC
**
21820705 TGCCGATTTGGGGAAATTGGGGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
1 TGCCGATTTGGGGAAATTAAGGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
21820770 AAAATAAAA
66 AAAATAAAA
21820779 TGGGGAAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.20
Consensus pattern (78 bp):
TGCCGATTTGGGGAAATTAAGGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
AAAATAAAAGAGC
Found at i:21821593 original size:39 final size:38
Alignment explanation
Indices: 21821541--21821614 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
21821531 TAACCCCTAT
* *
21821541 CCCCTAAACCTTAAATCATAAACCCCTAACCCTTAAGTA
1 CCCCTAAACCTTAAACCATAAACCCC-AACACTTAAGTA
* *
21821580 CCCCTAACCCTTAAACCTTAAACCCCAACACTTAA
1 CCCCTAAACCTTAAACCATAAACCCCAACACTTAA
21821615 ACCATAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.22
Consensus pattern (38 bp):
CCCCTAAACCTTAAACCATAAACCCCAACACTTAAGTA
Found at i:21821598 original size:24 final size:21
Alignment explanation
Indices: 21821561--21821624 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
21821551 TTAAATCATA
* *
21821561 AACCCCTAACCCTTAAGTACCCC
1 AACCCTTAAACCTTAA--ACCCC
21821584 TAACCCTTAAACCTTAAACCCC
1 -AACCCTTAAACCTTAAACCCC
* *
21821606 AACACTTAAACCATAAACC
1 AACCCTTAAACCTTAAACC
21821625 ATAATCCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 17 0.47
22 5 0.14
24 14 0.39
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.19
Consensus pattern (21 bp):
AACCCTTAAACCTTAAACCCC
Found at i:21821615 original size:21 final size:22
Alignment explanation
Indices: 21821579--21821624 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
21821569 ACCCTTAAGT
* *
21821579 ACCCCTAACCCTTAAACCTTAA
1 ACCCCTAACACTTAAACCATAA
21821601 ACCCC-AACACTTAAACCATAA
1 ACCCCTAACACTTAAACCATAA
21821622 ACC
1 ACC
21821625 ATAATCCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (22 bp):
ACCCCTAACACTTAAACCATAA
Found at i:21821651 original size:15 final size:15
Alignment explanation
Indices: 21821616--21821653 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21821606 AACACTTAAA
21821616 CCATAAAC-CATAAT
1 CCATAAACTCATAAT
*
21821630 CCCTAAACTCATAAT
1 CCATAAACTCATAAT
*
21821645 TCATAAACT
1 CCATAAACT
21821654 TTAAGATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
CCATAAACTCATAAT
Found at i:21821781 original size:7 final size:7
Alignment explanation
Indices: 21821769--21821890 Score: 93
Period size: 7 Copynumber: 17.0 Consensus size: 7
21821759 ACTAATTAAT
21821769 CTAAACC
1 CTAAACC
21821776 CTAAACCC
1 CTAAA-CC
21821784 CTAAACC
1 CTAAACC
21821791 CTAAACC
1 CTAAACC
* *
21821798 ATAAATC
1 CTAAACC
*
21821805 ATAAACC
1 CTAAACC
*
21821812 CTTAACAC
1 CTAAAC-C
*
21821820 CTAACCC
1 CTAAACC
21821827 CTAAACC
1 CTAAACC
*
21821834 TTAAACC
1 CTAAACC
*
21821841 C-CAACC
1 CTAAACC
21821847 CTTAAACC
1 C-TAAACC
*
21821855 ATAAACC
1 CTAAACC
* *
21821862 ATAATCC
1 CTAAACC
21821869 CTAAACC
1 CTAAACC
*
21821876 CATAATCC
1 C-TAAACC
*
21821884 ATAAACC
1 CTAAACC
21821891 TTAAGATAGT
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
6 5 0.05
7 65 0.71
8 21 0.23
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:21821812 original size:29 final size:30
Alignment explanation
Indices: 21821770--21821890 Score: 110
Period size: 29 Copynumber: 4.2 Consensus size: 30
21821760 CTAATTAATC
*
21821770 TAAACCCTAAACCCCTAAACCC-TAAACCA
1 TAAACCATAAACCCCTAAACCCATAAACCA
* * * *
21821799 TAAATCATAAA-CCCTTAACACC-TAACCCC
1 TAAACCATAAACCCCTAAAC-CCATAAACCA
* *
21821828 TAAACCTTAAACCCC--AACCCTTAAACCA
1 TAAACCATAAACCCCTAAACCCATAAACCA
* *
21821856 TAAACCAT-AATCCCTAAACCCATAATCCA
1 TAAACCATAAACCCCTAAACCCATAAACCA
21821885 TAAACC
1 TAAACC
21821891 TTAAGATAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
27 7 0.09
28 22 0.30
29 42 0.57
30 3 0.04
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (30 bp):
TAAACCATAAACCCCTAAACCCATAAACCA
Found at i:21821823 original size:36 final size:35
Alignment explanation
Indices: 21821766--21821838 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
21821756 AACACTAATT
*
21821766 AATCTAAACCCTAAACCCCTAAACCCTAAACCATA
1 AATCTAAACCCTAAACACCTAAACCCTAAACCATA
* * *
21821801 AATCATAAACCCTTAACACCTAACCCCTAAACCTTA
1 AATC-TAAACCCTAAACACCTAAACCCTAAACCATA
21821837 AA
1 AA
21821839 CCCCAACCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (35 bp):
AATCTAAACCCTAAACACCTAAACCCTAAACCATA
Found at i:21821878 original size:15 final size:15
Alignment explanation
Indices: 21821843--21821890 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
21821833 CTTAAACCCC
* *
21821843 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
21821858 AA-CCATAATCCCTA
1 AACCCATAATCCATA
21821872 AACCCATAATCCATA
1 AACCCATAATCCATA
21821887 AACC
1 AACC
21821891 TTAAGATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:21822321 original size:41 final size:41
Alignment explanation
Indices: 21822221--21822435 Score: 263
Period size: 41 Copynumber: 5.3 Consensus size: 41
21822211 ATAAAATGTT
* * *
21822221 TAAAGCACAGAGCATTAGCGACGCTTTTTCAAAAATG-CAC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* *
21822261 TATAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGTCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* * *
21822302 TAAAGCACCAAGCTTTAGCGGCACTTTTTCAAAAATGCCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* * * *
21822343 TAAAGTC-TCGAGCATTAGCGGTGCCTTTTCAAAAACGCCGC
1 TAAAG-CACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* *
21822384 TAAAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* *
21822425 TGAAGCCCCGA
1 TAAAGCACCGA
21822436 AAGGTCAGAA
Statistics
Matches: 152, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 35 0.23
41 116 0.76
42 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
Found at i:21834918 original size:21 final size:22
Alignment explanation
Indices: 21834871--21834918 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
21834861 TTAAAAATAG
*
21834871 ATATATTTTAAATTAATTATAT
1 ATATATTTTAAAATAATTATAT
*
21834893 TTATA-TTTAAAATAATTGAT-T
1 ATATATTTTAAAATAATT-ATAT
21834914 ATATA
1 ATATA
21834919 AACTTGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATTTTAAAATAATTATAT
Found at i:21846789 original size:30 final size:30
Alignment explanation
Indices: 21846755--21846811 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
21846745 CATAGCAATA
*
21846755 TGTCACACACGGCTGAGAAACACGCCCATG
1 TGTCACACACGGCTAAGAAACACGCCCATG
*
21846785 TGTCACACACGGCTAAGACACACGCCC
1 TGTCACACACGGCTAAGAAACACGCCC
21846812 GTGTCTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.37, G:0.21, T:0.12
Consensus pattern (30 bp):
TGTCACACACGGCTAAGAAACACGCCCATG
Found at i:21851406 original size:56 final size:51
Alignment explanation
Indices: 21851345--21851611 Score: 251
Period size: 50 Copynumber: 5.2 Consensus size: 51
21851335 TGTGAGCCAG
* ** *
21851345 TGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAAATTCTGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGAAA---TGAAAGGTCCCA
* * *
21851401 TGTAAGACCATATCTGGGACATGGCGTTGGC-ACCGAGATGAAAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAAATGAAAGGTCCCA
* *
21851451 TGTAAGACCATGTCTGGGACATGGCATTGGC-ACCGAGAT-AAGAGGTCTCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAAATGAA-AGGTCCCA
* * ** * *
21851501 TGTAAGACCATGTCTAGGACATAGTGTTGGC-ACCGAGAT-AAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAAATGAA-AGGTCCCA
* * *
21851551 TGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAACG-CCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAAATGA-AAGGTCCCA
21851601 TGTAAGACCAT
1 TGTAAGACCAT
21851612 ATCTAGGATA
Statistics
Matches: 184, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.01
50 146 0.79
51 3 0.02
52 1 0.01
53 4 0.02
56 28 0.15
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (51 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAAATGAAAGGTCCCA
Found at i:21851468 original size:50 final size:50
Alignment explanation
Indices: 21851391--21851611 Score: 302
Period size: 50 Copynumber: 4.4 Consensus size: 50
21851381 TGAAATTCTG
* *
21851391 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT-A
21851442 A-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATA
* * * **
21851491 AGAGGTCTCATGTAAGACCATGTCTAGGACATAGTGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATA
* * * *
21851541 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATA
*
21851591 AGAACG-CCCATGTAAGACCAT
1 AG-AGGTCCCATGTAAGACCAT
21851612 ATCTAGGATA
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.01
50 145 0.97
51 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATA
Found at i:21851521 original size:100 final size:100
Alignment explanation
Indices: 21851391--21851624 Score: 337
Period size: 100 Copynumber: 2.3 Consensus size: 100
21851381 TGAAATTCTG
*
21851391 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGAA-AGGTCCCATGTA
1 AGAGGTCCCATGTAAGACCATATCTAGGACATGGCGTTGGCACCGAGAT-AAGAGGTCCCATGTA
*
21851455 AGACCATGTCTGGGACATGGCATTGGCACCGAGATA
65 AGACCATGTCTGGGACATGGCATGGGCACCGAGATA
* * * * *
21851491 AGAGGTCTCATGTAAGACCATGTCTAGGACATAGTGTTGGCACCGAGATAAGAGGTCCCCTGTAA
1 AGAGGTCCCATGTAAGACCATATCTAGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
* *
21851556 GACCATGTCTGGGACATGGCATGGGCACCGATATG
66 GACCATGTCTGGGACATGGCATGGGCACCGAGATA
* *
21851591 AGAACG-CCCATGTAAGACCATATCTAGGATATGG
1 AG-AGGTCCCATGTAAGACCATATCTAGGACATGG
21851625 TATTCGTAGT
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 2 0.02
100 114 0.97
101 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATATCTAGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCATGGGCACCGAGATA
Found at i:21852597 original size:25 final size:25
Alignment explanation
Indices: 21852569--21852616 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
21852559 GGAGTTTAGC
21852569 GTGCTCTCTGATTATTAGCACATCG
1 GTGCTCTCTGATTATTAGCACATCG
21852594 GTGCTCTCTGATTATTAGCACAT
1 GTGCTCTCTGATTATTAGCACAT
21852617 TTATGTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCG
Found at i:21859850 original size:25 final size:26
Alignment explanation
Indices: 21859822--21859871 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
21859812 ATTGTTAAGG
* *
21859822 TTAATAAGTAGGTTAAA-AAGGTAAT
1 TTAATAAGTAAGTAAAATAAGGTAAT
*
21859847 TTAATAATTAAGTAAAATAAGGTAA
1 TTAATAAGTAAGTAAAATAAGGTAA
21859872 AAATTTAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (26 bp):
TTAATAAGTAAGTAAAATAAGGTAAT
Found at i:21873934 original size:24 final size:24
Alignment explanation
Indices: 21873844--21873936 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 24
21873834 TTTACTGCAA
* * *
21873844 TATTGAGTGGCTTGACCCCAACGC
1 TATTGAGTAGCTTGACCACAATGC
* *
21873868 TATTGAGTAGCTTGCCCAGAATGC
1 TATTGAGTAGCTTGACCACAATGC
* * *
21873892 TATTGAGCAGCTTGGCCACAATGT
1 TATTGAGTAGCTTGACCACAATGC
* *
21873916 TATTGAGTGGTTTGACCACAA
1 TATTGAGTAGCTTGACCACAA
21873937 AGATGCAGCT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (24 bp):
TATTGAGTAGCTTGACCACAATGC
Found at i:21879119 original size:27 final size:27
Alignment explanation
Indices: 21879088--21879265 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21879078 TAAATTGTAC
21879088 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21879115 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21879141 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21879169 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21879197 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21879224 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21879251 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21879266 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21879202 original size:82 final size:81
Alignment explanation
Indices: 21879089--21879244 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21879079 AAATTGTACA
* *
21879089 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21879153 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21879170 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21879235 TGCGAGTTGA
65 TGCGAATTGA
21879245 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21879256 original size:82 final size:81
Alignment explanation
Indices: 21879085--21879265 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21879075 GATTAAATTG
* *
21879085 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21879150 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21879166 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21879230 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21879248 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21879266 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21887094 original size:27 final size:27
Alignment explanation
Indices: 21887063--21887240 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21887053 TAAATTGTAC
21887063 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21887090 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21887116 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21887144 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21887172 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21887199 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21887226 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21887241 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21887177 original size:82 final size:81
Alignment explanation
Indices: 21887064--21887219 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21887054 AAATTGTACA
* *
21887064 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21887128 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21887145 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21887210 TGCGAGTTGA
65 TGCGAATTGA
21887220 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21887231 original size:82 final size:81
Alignment explanation
Indices: 21887060--21887240 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21887050 GATTAAATTG
* *
21887060 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21887125 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21887141 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21887205 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21887223 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21887241 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21895055 original size:62 final size:61
Alignment explanation
Indices: 21894968--21895087 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 61
21894958 TTATTAAAAT
*
21894968 AATAAATAATTTAATCATGTTTTAATATAATTATTACT-AAATAT-AATTAAATAAAAATAAA
1 AATAAATAATTTAATCATGTCTTAATATAATT-TTACTAAAATATGAATT-AATAAAAATAAA
* *
21895029 AATATATAATTTAATAACAT-TCTTAATATAATTTTATTAAAATATGAATTAATAAAAAT
1 AATAAATAATTTAAT--CATGTCTTAATATAATTTTACTAAAATATGAATTAATAAAAAT
21895088 CATAACATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
61 18 0.35
62 27 0.52
63 7 0.13
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (61 bp):
AATAAATAATTTAATCATGTCTTAATATAATTTTACTAAAATATGAATTAATAAAAATAAA
Found at i:21895505 original size:22 final size:25
Alignment explanation
Indices: 21895453--21895502 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21895443 AATTGCTATT
21895453 TGAATTATTGAACAACAATGGATTA
1 TGAATTATTGAACAACAATGGATTA
21895478 TGAATTATTGAACAACAATGGATTA
1 TGAATTATTGAACAACAATGGATTA
21895503 ATTTACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
TGAATTATTGAACAACAATGGATTA
Found at i:21900850 original size:43 final size:43
Alignment explanation
Indices: 21900784--21900938 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
21900774 GGCTCGTACA
*
21900784 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* *
21900827 ATGCC-ACAGTCCCAGACAG-GGTCTTACACA-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATATAATCACATATCG
* *
21900868 ATGCCAATGTCCCAGACATGGTCTTATACATAT-A-CACA-ATTCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATATAATCACATA-TCG
21900911 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
21900939 CGAAAATACA
Statistics
Matches: 94, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
41 25 0.27
42 16 0.17
43 52 0.55
44 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
Found at i:21900925 original size:84 final size:84
Alignment explanation
Indices: 21900784--21900939 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
21900774 GGCTCGTACA
* *
21900784 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACAGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACATATAATCACATATCGATGCCACAGTCCCAGAC-GTGG
21900848 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
*
21900868 ATGCCAATGTCCCAGACATGGTCTTATACATAT-A-CACA-ATTCGATGCCA-ACGTCCCAGACG
1 ATGCCAACGTCCCAGACATGGTC-T-TACATATAATCACATA-TCGATGCCACA-GTCCCAGACG
21900929 TGGTCTTACAC
62 TGGTCTTACAC
21900940 GAAAATACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
83 3 0.05
84 53 0.83
85 2 0.03
86 6 0.09
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACATATAATCACATATCGATGCCACAGTCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:21908871 original size:88 final size:85
Alignment explanation
Indices: 21908778--21908938 Score: 232
Period size: 88 Copynumber: 1.9 Consensus size: 85
21908768 TTTTTTTTTT
* *
21908778 ACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGGCTATCAAACTTCTTCAAGAAAGCA
1 ACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGAC--TCAAACTTCTTCAAAAAAGCA
*
21908843 ATTAAGACCCTGCTTTTGTTTCC
64 AATAAG-CCCTGCTTTTGTTTCC
* * * *
21908866 ACTCAATTGAGTATTTGAACTTTCAAAATGCATAAAAAAGACTCAAATTTTTTCAAAAAAGCAAA
1 ACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACTCAAACTTCTTCAAAAAAGCAAA
21908931 TAAGCCCT
66 TAAGCCCT
21908939 TACTCTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 4 0.06
86 23 0.35
88 39 0.59
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (85 bp):
ACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACTCAAACTTCTTCAAAAAAGCAAA
TAAGCCCTGCTTTTGTTTCC
Found at i:21908989 original size:30 final size:30
Alignment explanation
Indices: 21908954--21909012 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21908944 TTATTAAAAA
21908954 TTAGAAAAATAATTAA-AATAATAATAAATT
1 TTAGAAAAATAATTAATAATAATAA-AAATT
* *
21908984 TTAGAAAAATTATTAATTATAATAAAAAT
1 TTAGAAAAATAATTAATAATAATAAAAAT
21909013 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
TTAGAAAAATAATTAATAATAATAAAAATT
Found at i:21909294 original size:10 final size:9
Alignment explanation
Indices: 21909279--21909349 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
21909269 TTCTTACTAC
21909279 TTTATAAAAT
1 TTTAT-AAAT
*
21909289 TTTATAATT
1 TTTATAAAT
* *
21909298 TTTTTATAT
1 TTTATAAAT
*
21909307 TTCTATATAT
1 TT-TATAAAT
*
21909317 TTTATAATT
1 TTTATAAAT
21909326 TTTATAAAAT
1 TTTAT-AAAT
* *
21909336 TTTACAATT
1 TTTATAAAT
21909345 TTTAT
1 TTTAT
21909350 TACTTTTTAC
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
9 28 0.58
10 20 0.42
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTATAAAT
Found at i:21909324 original size:28 final size:28
Alignment explanation
Indices: 21909240--21909328 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 28
21909230 TTTTACGAAA
* *
21909240 TTTATATTTCTTTACATTTTGTATAATTTT
1 TTTATATTTCTATA-AATTT-TATAATTTT
*
21909270 TCTTACTACTT-TATAAAATTTTATAATTTT
1 T-TTA-TATTTCTAT-AAATTTTATAATTTT
*
21909300 TTTATATTTCTATATATTTTATAATTTT
1 TTTATATTTCTATAAATTTTATAATTTT
21909328 T
1 T
21909329 ATAAAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
28 19 0.38
29 6 0.12
30 11 0.22
31 9 0.18
32 5 0.10
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATATTTCTATAAATTTTATAATTTT
Found at i:21909331 original size:47 final size:47
Alignment explanation
Indices: 21909279--21909384 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 47
21909269 TTCTTACTAC
* *
21909279 TTTATAAAATTTTATAATTTTT-TTA-TATTTCTA-TATATTTTATAATT
1 TTTATAAAATTTTACAATTTTTATTACT-TTT-TACGAT-TTTTATAATT
21909326 TTTATAAAATTTTACAATTTTTATTACTTTTTACGATTTTTATAATT
1 TTTATAAAATTTTACAATTTTTATTACTTTTTACGATTTTTATAATT
*
21909373 TTT-TAATATTTT
1 TTTATAAAATTTT
21909385 TTTCTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
46 8 0.15
47 36 0.68
48 8 0.15
49 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (47 bp):
TTTATAAAATTTTACAATTTTTATTACTTTTTACGATTTTTATAATT
Found at i:21909375 original size:10 final size:10
Alignment explanation
Indices: 21909288--21909392 Score: 51
Period size: 9 Copynumber: 10.9 Consensus size: 10
21909278 CTTTATAAAA
21909288 TTTTATAATT
1 TTTTATAATT
21909298 TTTT-T-ATAT
1 TTTTATAAT-T
* *
21909307 TTCTAT-ATA
1 TTTTATAATT
21909316 TTTTATAA-T
1 TTTTATAATT
**
21909325 TTTTATAAAA
1 TTTTATAATT
*
21909335 TTTTACAA-T
1 TTTTATAATT
* *
21909344 TTTTATTACT
1 TTTTATAATT
**
21909354 TTTTACGA-T
1 TTTTATAATT
21909363 TTTTATAATT
1 TTTTATAATT
*
21909373 TTTTAATATTT
1 TTTT-ATAATT
*
21909384 TTTTCTAAT
1 TTTTATAAT
21909393 ATTTAATATT
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
8 2 0.03
9 31 0.43
10 30 0.42
11 9 0.12
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:21909385 original size:19 final size:19
Alignment explanation
Indices: 21909288--21909385 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 19
21909278 CTTTATAAAA
*
21909288 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTTTAATAT
* *
21909307 TTCTAT-ATATTTT-ATAAT
1 TTTTATAATTTTTTAAT-AT
**
21909325 TTTTATAAAATTTTACA-AT
1 TTTTATAATTTTTTA-ATAT
* * **
21909344 TTTTATTACTTTTTACGAT
1 TTTTATAATTTTTTAATAT
21909363 TTTTATAATTTTTTAATAT
1 TTTTATAATTTTTTAATAT
21909382 TTTT
1 TTTT
21909386 TTCTAATATT
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 46 0.74
21 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTAATAT
Found at i:21909651 original size:89 final size:89
Alignment explanation
Indices: 21909485--21909703 Score: 239
Period size: 89 Copynumber: 2.4 Consensus size: 89
21909475 AAGAAGGGGT
*
21909485 TTAATTGTTTTTTTTTCTTAAGTTTGAGGGTCTTTTTAATGCATTTTGAAAGTTCAAATACCCAA
1 TTAATTG-TTTTTTTTCTAAAGTTTGAGGG-CTTTTTAATGCATTTTGAAAGTTCAAATACCCAA
* *
21909550 TTAGGTG-CAAAAAAA-AGTAGGAAC
64 ATAGGTGAAAAAAAAAGAGTAGGAAC
* * *
21909574 TTAATTGCTTTTTTTT-TAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTACCCA
1 TTAATTG-TTTTTTTTCTAAA-GTTTGAGGG-CTTTTTAATGCATTTTGAAAGTTCAAATACCCA
**
21909638 AAT-GTGTGAAAAAAAAAAAGAGTAGGGGC
63 AATAG-GTG--AAAAAAAAAGAGTAGGAAC
**
21909667 TTAATTGTTTTTTTTGAAAAAGTTTGAGGGCTTTTTA
1 TTAATTGTTTTTTTT-CTAAAGTTTGAGGGCTTTTTA
21909704 CACCCTTAAG
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
88 4 0.04
89 59 0.54
92 21 0.19
93 23 0.21
94 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (89 bp):
TTAATTGTTTTTTTTCTAAAGTTTGAGGGCTTTTTAATGCATTTTGAAAGTTCAAATACCCAAAT
AGGTGAAAAAAAAAGAGTAGGAAC
Found at i:21917591 original size:56 final size:50
Alignment explanation
Indices: 21917500--21917721 Score: 237
Period size: 50 Copynumber: 4.3 Consensus size: 50
21917490 GGGAATGAGA
* * * * *
21917500 TCCCATGTAAGATCATTTCTGGGACATGACATTGGCATCATTGAGATTATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--TGAG---ATGAGAGG
*
21917556 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* *
21917606 TCCCATGTAAGGCAATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
** * * * * **
21917656 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
*
21917706 TCCCATGTAATACCAT
1 TCCCATGTAAGACCAT
21917722 ATATGGGGTA
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 107 0.74
53 3 0.02
55 1 0.01
56 33 0.23
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
Found at i:21917606 original size:50 final size:50
Alignment explanation
Indices: 21917552--21917721 Score: 241
Period size: 50 Copynumber: 3.4 Consensus size: 50
21917542 GAGATTATGG
21917552 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
* * *
21917602 GAGGTCCCATGTAAGGCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
** * * *
21917652 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
** *
21917702 GAACTCCCATGTAATACCAT
1 GAGGTCCCATGTAAGACCAT
21917722 ATATGGGGTA
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 104 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
Found at i:21918008 original size:12 final size:12
Alignment explanation
Indices: 21917991--21918041 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
21917981 ATGAGTTATT
21917991 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
21918003 TAAGTAAACAAG
1 TAAGTAAGCAAG
21918015 TAAGTGAA-CAAG
1 TAAGT-AAGCAAG
* *
21918027 TAAGTGAGTAAG
1 TAAGTAAGCAAG
21918039 TAA
1 TAA
21918042 AGAAGCGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.91
13 2 0.06
ACGTcount: A:0.51, C:0.06, G:0.24, T:0.20
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:21921178 original size:29 final size:30
Alignment explanation
Indices: 21921136--21921196 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
21921126 GCCTTTTGAA
* *
21921136 AATATTTACAAAAA-AGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGAATCAAATTTTT
*
21921165 AATATTTACAAAAAGAGTAATCAAATTTTT
1 AATATTTACAAAAAGAGGAATCAAATTTTT
21921195 AA
1 AA
21921197 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGAATCAAATTTTT
Found at i:21937013 original size:10 final size:10
Alignment explanation
Indices: 21936998--21937046 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
21936988 TTGGGTTAAG
21936998 ATTGAGCTGA
1 ATTGAGCTGA
21937008 ATTGAGCTCGA
1 ATTGAGCT-GA
21937019 A-TGAGCTGA
1 ATTGAGCTGA
* *
21937028 CTTGAGCTCA
1 ATTGAGCTGA
*
21937038 AGTGAGCTG
1 ATTGAGCTG
21937047 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:21937023 original size:20 final size:20
Alignment explanation
Indices: 21937000--21937046 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
21936990 GGGTTAAGAT
21937000 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
21937020 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
21937040 TGAGCTG
1 TGAGCTG
21937047 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:21938958 original size:21 final size:19
Alignment explanation
Indices: 21938932--21938986 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 19
21938922 TTTTCAAGCT
21938932 CTCTTTCAATTTCTTTTTC
1 CTCTTTCAATTTCTTTTTC
*
21938951 CAC--TC--TTTCTTTTTC
1 CTCTTTCAATTTCTTTTTC
21938966 TTCTCTTTCAATTTCTTTTTC
1 --CTCTTTCAATTTCTTTTTC
21938987 AATCTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
15 10 0.36
17 4 0.14
19 4 0.14
21 10 0.36
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (19 bp):
CTCTTTCAATTTCTTTTTC
Found at i:21939050 original size:15 final size:15
Alignment explanation
Indices: 21939027--21939073 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
21939017 TTTTGAAATC
21939027 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
21939042 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
21939057 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
21939073 T
1 T
21939074 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:21940156 original size:9 final size:9
Alignment explanation
Indices: 21940120--21940185 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
21940110 TTTTCACTTC
*
21940120 TTCTTTTTC
1 TTCTTTTTT
21940129 TTCTTTTTT
1 TTCTTTTTT
*
21940138 TACTTTTTTT
1 TTC-TTTTTT
21940148 TTCTTTTTT
1 TTCTTTTTT
***
21940157 TTGC--TCAC
1 TT-CTTTTTT
21940165 TTCTTTTTT
1 TTCTTTTTT
21940174 TTCTTTTTT
1 TTCTTTTTT
21940183 TTC
1 TTC
21940186 AAATTTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
7 1 0.02
8 3 0.07
9 31 0.70
10 9 0.20
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.79
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:21940197 original size:26 final size:26
Alignment explanation
Indices: 21940141--21940197 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
21940131 CTTTTTTTAC
**
21940141 TTTTTTTTTCTTTTTTTTGCTCACTT
1 TTTTTTTTTCTTTTTTTTGCAAACTT
*
21940167 CTTTTTTTTCTTTTTTTT-CAAA-TT
1 TTTTTTTTTCTTTTTTTTGCAAACTT
21940191 TTTTTTT
1 TTTTTTT
21940198 GAATTTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.30
25 2 0.07
26 17 0.63
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTTTTTTTCTTTTTTTTGCAAACTT
Found at i:21941756 original size:10 final size:10
Alignment explanation
Indices: 21941741--21941789 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
21941731 TTGGGTTAAG
21941741 ATTGAGCTGA
1 ATTGAGCTGA
21941751 ATTGAGCTCGA
1 ATTGAGCT-GA
21941762 A-TGAGCTGA
1 ATTGAGCTGA
* *
21941771 CTTGAGCTCA
1 ATTGAGCTGA
*
21941781 AGTGAGCTG
1 ATTGAGCTG
21941790 GAAACAAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:21941766 original size:20 final size:20
Alignment explanation
Indices: 21941743--21941789 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
21941733 GGGTTAAGAT
21941743 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
21941763 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
21941783 TGAGCTG
1 TGAGCTG
21941790 GAAACAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:21951366 original size:81 final size:80
Alignment explanation
Indices: 21951224--21951473 Score: 392
Period size: 81 Copynumber: 3.1 Consensus size: 80
21951214 TCGGCTGAAG
* *
21951224 CAACCTAGGTGAACGTTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAAT
1 CAACCCAGGTG-ACATTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAAT
21951289 CAGCTACGTCCTTCTT
65 CAGCTACGTCCTTCTT
* * * *
21951305 CAACCCAGGTGCACATTGATGCTTAGCTTTAACCCTTTGGAAAACTAAAAATTTACTAACAAAAT
1 CAACCCAGGTG-ACATTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAAT
*
21951370 TAGCTACGTCCTTCTT
65 CAGCTACGTCCTTCTT
* *
21951386 CAACCCAGGCAGACATTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAATAAAAT
1 CAACCCAGG-TGACATTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAAT
21951451 CAGCTACGTCCTTCTT
65 CAGCTACGTCCTTCTT
21951467 CAACCCA
1 CAACCCA
21951474 AGCCACCAAT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
81 152 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (80 bp):
CAACCCAGGTGACATTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAATC
AGCTACGTCCTTCTT
Found at i:21959092 original size:43 final size:43
Alignment explanation
Indices: 21959023--21959331 Score: 320
Period size: 43 Copynumber: 7.3 Consensus size: 43
21959013 TTTTAGAAAT
* *
21959023 AAACACCGCTATAGATCAT-AATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACT-TTTAGCGGCGCTTTTCCCAC
* * * * * * *
21959066 AAATGTCGCTATATATCAGGACCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* *
21959109 AAACGCCGCTATAGATCAGGACTTTTAGCGGCGCTTTT-ACAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * * * *
21959151 -AACGCCGCTATAGCTCAAGACCTTTAGTGACTCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* ** ** *
21959193 AAACGCCGCTATAGATCATGACTTTTAGCAGTACTTTTTGCTC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
21959236 AAACACCGCTATAAATCATGACTTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* **
21959279 AAACGCCGCTATAGA-CATGACTTTTAGCGGTGCTTTTTTCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
21959321 AAACGCCGCTA
1 AAACGCCGCTA
21959332 AAAGTGCCAT
Statistics
Matches: 215, Mismatches: 48, Indels: 7
0.80 0.18 0.03
Matches are distributed among these distances:
41 31 0.14
42 40 0.19
43 143 0.67
44 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:21959259 original size:127 final size:129
Alignment explanation
Indices: 21959056--21959292 Score: 334
Period size: 127 Copynumber: 1.9 Consensus size: 129
21959046 TTTAGCGGCG
* * * * * *
21959056 CTTTTCCCACAAATGTCGCTATATATCAGGACCTTTAGCGGTGCTTTTTCCACAAACGCCGCTAT
1 CTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCAGTACTTTTTCCACAAACACCGCTAT
* *
21959121 AGATCAGGACTTTTAGCGGCGCTT-TTACAC-AACGCCGCTATAGCTCAAGACCTTTAGTGACT
66 AAATCAGGACTTTTAGCGGCGCTTCTCACACAAACGCCGCTATAGCTCAAGACCTTTAGTGACT
* * * *
21959183 CTTTTCCCACAAACGCCGCTATAGATCATGACTTTTAGCAGTACTTTTTGCTCAAACACCGCTAT
1 CTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCAGTACTTTTTCCACAAACACCGCTAT
* *
21959248 AAATCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAG
66 AAATCAGGACTTTTAGCGGCGCTTCTCACACAAACGCCGCTATAG
21959293 ACATGACTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
127 77 0.82
128 4 0.04
129 13 0.14
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (129 bp):
CTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCAGTACTTTTTCCACAAACACCGCTAT
AAATCAGGACTTTTAGCGGCGCTTCTCACACAAACGCCGCTATAGCTCAAGACCTTTAGTGACT
Found at i:21963770 original size:21 final size:21
Alignment explanation
Indices: 21963746--21963810 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
21963736 AACCCTAAAT
*
21963746 CCCTAACTCTTAAC-CCCAGAC
1 CCCTAACCCTTAACTCCCA-AC
*
21963767 CCCTAACCCTTAACTCCTAAC
1 CCCTAACCCTTAACTCCCAAC
* * *
21963788 CCCTAAACTTTAAATCCCAAC
1 CCCTAACCCTTAACTCCCAAC
21963809 CC
1 CC
21963811 TTAAACCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 34 0.92
22 3 0.08
ACGTcount: A:0.31, C:0.46, G:0.02, T:0.22
Consensus pattern (21 bp):
CCCTAACCCTTAACTCCCAAC
Found at i:21963815 original size:21 final size:21
Alignment explanation
Indices: 21963760--21963816 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
21963750 AACTCTTAAC
* * *
21963760 CCCAGACCCCTAACCCTTAACT
1 CCCA-ACCCCTAAACTTTAAAT
*
21963782 CCTAACCCCTAAACTTTAAAT
1 CCCAACCCCTAAACTTTAAAT
*
21963803 CCCAACCCTTAAAC
1 CCCAACCCCTAAAC
21963817 CATAATCCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (21 bp):
CCCAACCCCTAAACTTTAAAT
Found at i:21963857 original size:28 final size:28
Alignment explanation
Indices: 21963826--21963885 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
21963816 CCATAATCCT
21963826 TAAATCCATATATAATCCCCAAACCTTA
1 TAAATCCATATATAATCCCCAAACCTTA
21963854 TAAATCCATATATAATCCCCAAACCTTA
1 TAAATCCATATATAATCCCCAAACCTTA
21963882 -AAAT
1 TAAAT
21963886 AGTAACTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAATCCATATATAATCCCCAAACCTTA
Found at i:21964046 original size:24 final size:23
Alignment explanation
Indices: 21964019--21964073 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
21964009 TATATGAAAT
21964019 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAA-A
*
21964043 TATTTAAAATATAAATTAAAAAA
1 TATTTAATATATAAATTAAAAAA
*
21964066 TAATTAAT
1 TATTTAAT
21964074 CTAAACCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTTAATATATAAATTAAAAAA
Found at i:21964133 original size:22 final size:22
Alignment explanation
Indices: 21964108--21964208 Score: 75
Period size: 22 Copynumber: 4.7 Consensus size: 22
21964098 CTATGAATCC
*
21964108 TTAAACCCTAAATCCCTAACTA
1 TTAAACCCTAAATCCCTAACCA
* * *
21964130 TTAACCCCTAAACCCCTAACCC
1 TTAAACCCTAAATCCCTAACCA
* * *
21964152 CTAAACCTTAAATCCC-AACCC
1 TTAAACCCTAAATCCCTAACCA
*
21964173 TTAAA--CTATAATCGCTAATCC-
1 TTAAACCCTA-AATCCCTAA-CCA
*
21964194 TTAATCCCTAAATCC
1 TTAAACCCTAAATCC
21964209 ATACTCCTTA
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
19 2 0.03
20 5 0.08
21 15 0.25
22 36 0.59
23 3 0.05
ACGTcount: A:0.37, C:0.37, G:0.01, T:0.26
Consensus pattern (22 bp):
TTAAACCCTAAATCCCTAACCA
Found at i:21964171 original size:21 final size:22
Alignment explanation
Indices: 21964138--21964178 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21964128 TATTAACCCC
21964138 TAAACCCCTAACCCCTAAACCT
1 TAAACCCCTAACCCCTAAACCT
* *
21964160 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
21964179 TATAATCGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACCT
Found at i:21964458 original size:23 final size:26
Alignment explanation
Indices: 21964431--21964485 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
21964421 TAAATAATAG
21964431 TATTTT-AATT-TTTCCATGTGTT-T
1 TATTTTAAATTATTTCCATGTGTTAT
*
21964454 TATTTTAAATTATTTCTATGTGTTAT
1 TATTTTAAATTATTTCCATGTGTTAT
21964480 TATTTT
1 TATTTT
21964486 TTTCTGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 11 0.39
26 7 0.25
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.65
Consensus pattern (26 bp):
TATTTTAAATTATTTCCATGTGTTAT
Found at i:21964751 original size:40 final size:41
Alignment explanation
Indices: 21964570--21964762 Score: 237
Period size: 41 Copynumber: 4.7 Consensus size: 41
21964560 TAAAATGTTT
* * * *
21964570 TTAGCGGCG-TTTTTGAAAAAGCGCTGCCAAAACCCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAA-CGCCGCTAAAACCCCGAGCA
** * *
21964611 TTAGCGGCGCTTTCTCAAAAACGCCATTAAAACCGCGAACA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
* *
21964652 TTAGCGGCTCTTTCTCATAAACGCCGCTAAAACCCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
* *
21964693 TTAGAGGCGGTTTCTCAAAAACGCCGCTAAAA-CCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
* *
21964733 TTAGCGGCACTTTTTCAAAAACGCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAA
21964763 TGCTCAGGGC
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 34 0.26
41 86 0.67
42 9 0.07
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:21964786 original size:40 final size:40
Alignment explanation
Indices: 21964570--21964804 Score: 168
Period size: 41 Copynumber: 5.8 Consensus size: 40
21964560 TAAAATGTTT
* * * * *
21964570 TTAGCGGC-GTTTTTGAAAAAGCGCTGCCAAAACCCCGAGCA
1 TTAGCGGCACTTTTTCAAAAA-CGCCGCTAAAA-CCAGAGCA
* * ** * *
21964611 TTAGCGGCGCTTTCTCAAAAACGCCATTAAAACCGCGAACA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACC-AGAGCA
* * * *
21964652 TTAGCGGCTCTTTCTCATAAACGCCGCTAAAACCCCGAGCA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAA-CCAGAGCA
* ** * *
21964693 TTAGAGGCGGTTTCTCAAAAACGCCGCTAAAACCCGAGCA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCAGAGCA
** * *
21964733 TTAGCGGCACTTTTTCAAAAACGCCGCTAATGCTCAGGGCT
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAAC-CAGAGCA
* *
21964774 TTAGCGGC-CTTTTTTAAAAAGCGTCGCTAAA
1 TTAGCGGCACTTTTTCAAAAA-CGCCGCTAAA
21964805 GCCCTGAAAG
Statistics
Matches: 160, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
40 48 0.30
41 101 0.63
42 11 0.07
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCAGAGCA
Found at i:21966144 original size:74 final size:74
Alignment explanation
Indices: 21966048--21966192 Score: 238
Period size: 75 Copynumber: 2.0 Consensus size: 74
21966038 AAAAACCAAA
* * *
21966048 ATTATTCCTTGTTAATAGAGAAGACAAATAGAAAG-TAGAAAAATGAATTATATTCTTTCTAAAA
1 ATTATTCCTTATTAATAGAGAAGACAAATAGAAAGTTAGAAAAATAAATTATATTCTTTCCAAAA
21966112 GAATATAGG
66 GAATATAGG
*
21966121 ATTATTCCCTTATTAATAGAGAAGACAAATAGAAAGTTAGGAAAATAAATTATATTCTTTCCAAA
1 ATTATT-CCTTATTAATAGAGAAGACAAATAGAAAGTTAGAAAAATAAATTATATTCTTTCCAAA
21966186 AGAATAT
65 AGAATAT
21966193 TAATTTACAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
73 6 0.09
74 28 0.42
75 32 0.48
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (74 bp):
ATTATTCCTTATTAATAGAGAAGACAAATAGAAAGTTAGAAAAATAAATTATATTCTTTCCAAAA
GAATATAGG
Found at i:21966506 original size:118 final size:118
Alignment explanation
Indices: 21966288--21966512 Score: 328
Period size: 118 Copynumber: 1.9 Consensus size: 118
21966278 TATTCTGTAC
*
21966288 GAATCAAATTCATATATCAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATT
1 GAATCAAATTCATATATCAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTATATTATATT
* *
21966353 TTGATCAAAATTAATTAATATAATTGTTTAGATTAATAAATTCGGTAAAGTAT
66 TTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATTCGGTAAAGTAT
* * * * *
21966406 GAATCAAATTCATATATTAATTGTATTATTTTC-AAAAGAATATTAATTTTCATGTAT-TGTATA
1 GAATCAAATTCATATATCAATTATATT-CTTGCAAAAAGAATATTAATTTCCATGTATAT-TATA
* *
21966469 TTTTGATCGAAATTAATTAATATAACTATTTATATTAATAAATT
64 TTTTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATT
21966513 TAGTAAAATA
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
117 1 0.01
118 91 0.96
119 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (118 bp):
GAATCAAATTCATATATCAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTATATTATATT
TTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATTCGGTAAAGTAT
Found at i:21966580 original size:138 final size:138
Alignment explanation
Indices: 21966402--21966846 Score: 683
Period size: 138 Copynumber: 3.2 Consensus size: 138
21966392 ATTCGGTAAA
* * * * *
21966402 GTATGAATCAAATTCATATATTAATTGTATTATTTTCAAAAGAATATTAATTTTCATGTATTGTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
* * * **
21966467 TATTTTGATCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
21966532 AATATTTT
131 AATATTTT
* * * *
21966540 GTATGGATCAAATTCATATATTAATTAAATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
* *
21966605 TATTTTGACCAAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
*
21966670 CATATTTT
131 AATATTTT
* *
21966678 GTATGAATCAAATTCATATAATAATTATATTATTTCCAAAAGAATATTAATTTCCATGCCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
*
21966743 TATTTTGACCGAAATTAATTAATATAATTGTTGATATTAATAAATTCGGTAAAATATATACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
*
21966808 AATATTTA
131 AATATTTT
* *
21966816 ATATGAATCAAATTCATATATTAATTCTATT
1 GTATGAATCAAATTCATATATTAATTATATT
21966847 TATGTTCTTT
Statistics
Matches: 276, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 276 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
AATATTTT
Found at i:21966637 original size:256 final size:260
Alignment explanation
Indices: 21966168--21966841 Score: 890
Period size: 256 Copynumber: 2.5 Consensus size: 260
21966158 TAGGAAAATA
* * *
21966168 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCAAAATTAGTTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
21966233 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTCTGTACGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * *
21966298 CATATATCAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGATCAAAA
130 CATATATTAATTAAATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGACCAAAA
*
21966363 TTAATTAATATAATTGTTTAGATTAATAAATTCGG-T-A-A-A-GTATGAATCAAATTCATATAT
195 TTAATTAATATAATTGTTTAGATTAATAAATTCGGATAATATATGTATGAATCAAATTCATATAA
21966423 T
260 T
* * * * * *
21966424 AATTGTATTATTTTCAAAAGAATATTAATTTTCATGTATTGTATATTTTGATCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
21966489 TATAACTATTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGGATCAAATT
66 TATAACTGTTTATATTAATAAATTT-GTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * *
21966554 CATATATTAATTAAATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCAAAA
130 CATATATTAATTAAATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGACCAAAA
*
21966619 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGA
195 TTAATTAATATAATTGTTTAGATTAATAAATTCGG------A--T--AA-T-ATA---TGTATGA
21966684 ATCAAATTCATATAAT
245 ATCAAATTCATATAAT
* *
21966700 AATTATATTATTTCCAAAAGAATATTAATTTCCATGCCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * **
21966765 TATAATTGTTGATATTAATAAATTCGGTAAAATATATACAATTAATATTTAATATGAATCAAATT
66 TATAACTGTTTATATTAATAAATT-TGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
21966830 CATATATTAATT
130 CATATATTAATT
21966842 CTATTTATGT
Statistics
Matches: 360, Mismatches: 36, Indels: 24
0.86 0.09 0.06
Matches are distributed among these distances:
256 207 0.57
257 1 0.00
265 1 0.00
268 1 0.00
271 1 0.00
272 1 0.00
276 148 0.41
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (260 bp):
AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTAAATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGACCAAAAT
TAATTAATATAATTGTTTAGATTAATAAATTCGGATAATATATGTATGAATCAAATTCATATAAT
Found at i:21977842 original size:45 final size:44
Alignment explanation
Indices: 21977773--21977931 Score: 153
Period size: 45 Copynumber: 3.6 Consensus size: 44
21977763 TACACGGTGG
* * * *
21977773 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTCGGCGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAAT-GTACTCGGTGAA
* *
21977817 ATCAGCACATAACAACCACCTTTATACTCAATGCTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATG-TACTC-GGTGAA
* * * *
21977862 ATCAGCACATAGCAACCACCTATATAACCATTGGTA-TCCTGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAAT-GTACT-CGGTGAA
*
21977907 ATCAGTACATAGCAACCACCTTTAT
1 ATCAGCACATAGCAACCACCTTTAT
21977932 TTTCATTAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
44 13 0.14
45 81 0.84
46 2 0.02
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (44 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATGTACTCGGTGAA
Found at i:21977955 original size:45 final size:45
Alignment explanation
Indices: 21977814--21977972 Score: 165
Period size: 45 Copynumber: 3.5 Consensus size: 45
21977804 AGTACTCGGC
* * * * *
21977814 GAAATCAGCACATAACAACCACCTTTATACTCAATGCTACCGGGT
1 GAAATCAGCACATAGCAACCACCTTTATAATCATTGATATCGGGT
* * * **
21977859 GAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCCTGT
1 GAAATCAGCACATAGCAACCACCTTTATAATCATTGATATCGGGT
* ** *
21977904 GAAATCAGTACATAGCAACCACCTTTATTTTCATTAATATCGGGT
1 GAAATCAGCACATAGCAACCACCTTTATAATCATTGATATCGGGT
* * *
21977949 GGAATCAGCACAAAGCATCCACCT
1 GAAATCAGCACATAGCAACCACCT
21977973 ATAATTCCAA
Statistics
Matches: 92, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (45 bp):
GAAATCAGCACATAGCAACCACCTTTATAATCATTGATATCGGGT
Found at i:21977990 original size:90 final size:90
Alignment explanation
Indices: 21977814--21977990 Score: 203
Period size: 90 Copynumber: 2.0 Consensus size: 90
21977804 AGTACTCGGC
** *
21977814 GAAATCAGCACATAACAACCACCTTTATACTCAATGCTACCGGGTGAAATCAGCACATAGCAACC
1 GAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACAAAGCAACC
** *
21977879 ACCTATATAACCATTGGTATCCTGT
66 ACCTATATAACCAACGATATCCTGT
* * ** * * * *
21977904 GAAATCAGTACATAGCAACCACCTTTATTTTCATTAATATCGGGTGGAATCAGCACAAAGCATCC
1 GAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACAAAGCAACC
*
21977969 ACCTATA-ATTCCAACGATATCC
66 ACCTATATA-ACCAACGATATCC
21977991 GGCCTATTCC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
89 1 0.01
90 70 0.99
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.25
Consensus pattern (90 bp):
GAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACAAAGCAACC
ACCTATATAACCAACGATATCCTGT
Found at i:21984387 original size:20 final size:20
Alignment explanation
Indices: 21984364--21984434 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
21984354 GTAATCCTGT
21984364 ACAGAGGCACCGTAGTGCAA
1 ACAGAGGCACCGTAGTGCAA
* * * **
21984384 ACAGAGACATCGAAGTGTGA
1 ACAGAGGCACCGTAGTGCAA
* *
21984404 ATAGAGGCACTGTAGTGCAA
1 ACAGAGGCACCGTAGTGCAA
* *
21984424 GCAGATGCACC
1 ACAGAGGCACC
21984435 AAAGTGCAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (20 bp):
ACAGAGGCACCGTAGTGCAA
Found at i:21988575 original size:25 final size:25
Alignment explanation
Indices: 21988510--21988687 Score: 180
Period size: 25 Copynumber: 7.1 Consensus size: 25
21988500 TCATGTACAT
* *
21988510 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * *
21988535 GTATGCCCATT-TGAGCTGA-AGATCG
1 GTATGCTC-TTACGAGCT-ATAAATCG
* * *
21988560 GTATGCTCTCACGAGCTATAAACCA
1 GTATGCTCTTACGAGCTATAAATCG
21988585 GTATGCTCTTACGAGCTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* *
21988610 GTATGCTCTTACGATCTTTAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * *
21988635 TTATGCTCTTACGAGCTTTAAATCA
1 GTATGCTCTTACGAGCTATAAATCG
* * *
21988660 ATATGCTCTTACGAGTTATAAATTG
1 GTATGCTCTTACGAGCTATAAATCG
21988685 GTA
1 GTA
21988688 ACCCTAATGA
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
24 2 0.02
25 120 0.97
26 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCG
Found at i:21988640 original size:75 final size:75
Alignment explanation
Indices: 21988510--21988687 Score: 207
Period size: 75 Copynumber: 2.4 Consensus size: 75
21988500 TCATGTACAT
* * *
21988510 GTATGCTCATACGAGCTATGAATCGGTATGCCCATTTGAGCTGAAGATCGGTATGCTCTCACGAG
1 GTATGCTCTTACGAGCTATAAATCGGTATGCCCATTCGAGCTGAAGATCGGTATGCTCTCACGAG
21988575 CTATAAACCA
66 CTATAAACCA
* * * * *
21988585 GTATGCTCTTACGAGCTATAAATCGGTATGCTC-TTACGATCTTTAA-ATCGTTATGCTCTTACG
1 GTATGCTCTTACGAGCTATAAATCGGTATGCCCATT-CGAGC-TGAAGATCGGTATGCTCTCACG
* *
21988648 AGCTTTAAATCA
64 AGCTATAAACCA
* * *
21988660 ATATGCTCTTACGAGTTATAAATTGGTA
1 GTATGCTCTTACGAGCTATAAATCGGTA
21988688 ACCCTAATGA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 2 0.02
75 83 0.94
76 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (75 bp):
GTATGCTCTTACGAGCTATAAATCGGTATGCCCATTCGAGCTGAAGATCGGTATGCTCTCACGAG
CTATAAACCA
Found at i:21989268 original size:5 final size:5
Alignment explanation
Indices: 21989258--21989309 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
21989248 TGAAGTTTTC
* *
21989258 TCGAA TCGAA TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA -TCGAA TCGAA TCGAA TCGAA TCGAA
21989309 T
1 T
21989310 ATATTTGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 2 0.05
5 33 0.80
6 6 0.15
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:21989309 original size:26 final size:26
Alignment explanation
Indices: 21989258--21989309 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21989248 TGAAGTTTTC
* *
21989258 TCGAATCGAATCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
21989284 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
21989310 ATATTTGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:21989994 original size:30 final size:31
Alignment explanation
Indices: 21989955--21990014 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21989945 GGAGATGGGA
*
21989955 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
21989986 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
21990015 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:21990247 original size:9 final size:9
Alignment explanation
Indices: 21990229--21990265 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21990219 TATAGTTTGA
21990229 TATTCGAAT
1 TATTCGAAT
*
21990238 TATTCAAAT
1 TATTCGAAT
*
21990247 TATTCGAGT
1 TATTCGAAT
21990256 TATTCGAAT
1 TATTCGAAT
21990265 T
1 T
21990266 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21990311 original size:59 final size:60
Alignment explanation
Indices: 21990248--21990363 Score: 139
Period size: 62 Copynumber: 1.9 Consensus size: 60
21990238 TATTCAAATT
*
21990248 ATTCGAGT-TATTCGAAT-TCGAA-AACTCAACTCGATTCGAACTCGAAATTCGAAAAAAAA
1 ATTCGAGTCGATTCGAATATCGAACAACTCAACTCG-TT-GAACTCGAAATTCGAAAAAAAA
* * *
21990307 ATTCGAGTCGATTCGAATAACTCGAACAACTCGATTCGTTTAACTCGAAATTCGAAA
1 ATTCGAGTCGATTCGAAT-A-TCGAACAACTCAACTCGTTGAACTCGAAATTCGAAA
21990364 TTTTTTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
59 8 0.17
60 8 0.17
62 16 0.33
63 7 0.15
64 9 0.19
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (60 bp):
ATTCGAGTCGATTCGAATATCGAACAACTCAACTCGTTGAACTCGAAATTCGAAAAAAAA
Found at i:21998573 original size:12 final size:12
Alignment explanation
Indices: 21998543--21998624 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
21998533 TTCTTCACTC
*
21998543 ATTTCTTTTACA
1 ATTTCTTTTTCA
**
21998555 AACTCTTTTTCA
1 ATTTCTTTTTCA
21998567 ATTTCTTTTTCCA
1 ATTTCTTTTT-CA
*
21998580 CTCTTTCTTTTTC-
1 --ATTTCTTTTTCA
*
21998593 --TTCTCTTTCA
1 ATTTCTTTTTCA
21998603 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
21998615 ATCTCTTTTT
1 ATTTCTTTTT
21998625 GCTTTTCACT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 8 0.15
12 35 0.64
13 2 0.04
14 1 0.02
15 9 0.16
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:21998709 original size:12 final size:12
Alignment explanation
Indices: 21998667--21998708 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
21998657 TTTTCATCTT
21998667 TTTCTTTTTC-A
1 TTTCTTTTTCAA
21998678 TTTC--TTTCAA
1 TTTCTTTTTCAA
21998688 TTTCTTTTTCAA
1 TTTCTTTTTCAA
21998700 TGTTCTTTT
1 T-TTCTTTT
21998709 CTCGCTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:21999382 original size:19 final size:19
Alignment explanation
Indices: 21999358--21999395 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21999348 AGATAGAATA
21999358 AATAGTAAATGAATCTCAC
1 AATAGTAAATGAATCTCAC
21999377 AATAGTAAATGAATCTCAC
1 AATAGTAAATGAATCTCAC
21999396 CAATTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
AATAGTAAATGAATCTCAC
Found at i:21999406 original size:20 final size:19
Alignment explanation
Indices: 21999364--21999406 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
21999354 AATAAATAGT
**
21999364 AAATGAATCTCACAATAGT
1 AAATGAATCTCACAATACA
*
21999383 AAATGAATCTCACCAATTCA
1 AAATGAATCTCA-CAATACA
21999403 AAAT
1 AAAT
21999407 CCTCACCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.26
Consensus pattern (19 bp):
AAATGAATCTCACAATACA
Found at i:21999767 original size:13 final size:12
Alignment explanation
Indices: 21999749--21999791 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
21999739 GAACTCCCAC
21999749 TTTTTTTTTGAT
1 TTTTTTTTTGAT
21999761 TTTTTTTTTGAAT
1 TTTTTTTTTG-AT
*
21999774 TTTTTTCTTGAT
1 TTTTTTTTTGAT
21999786 TTTTTT
1 TTTTTT
21999792 AATGCTGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAT
Found at i:22006308 original size:51 final size:51
Alignment explanation
Indices: 22006230--22006408 Score: 247
Period size: 52 Copynumber: 3.5 Consensus size: 51
22006220 ACAGATACCT
* *
22006230 AGTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTACCTTCTTCACAA
* *
22006281 AGTGGCCTTCACATGGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTA-CCTTCTTCACAA
* * *
22006333 AGTGGCCTTCACATAGTACCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTCTTCACAA
*
22006382 AGTGGCCGTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
22006409 AGTCACTAGT
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 34 0.29
51 40 0.34
52 42 0.36
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTCTTCACAA
Found at i:22006396 original size:49 final size:51
Alignment explanation
Indices: 22006230--22006408 Score: 256
Period size: 51 Copynumber: 3.5 Consensus size: 51
22006220 ACAGATACCT
* * *
22006230 AGTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAA
*
22006281 AGTGGCCTTCACATGGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAA
* *
22006333 AGTGGCCTTCACATAGTACCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
*
22006382 AGTGGCCGTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
22006409 AGTCACTAGT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 34 0.29
51 43 0.36
52 41 0.35
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
Found at i:22010518 original size:26 final size:26
Alignment explanation
Indices: 22010489--22010550 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
22010479 TACCTACAGT
22010489 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
22010515 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
22010541 AGTTTCAGAA
1 AGTTTCAGAA
22010551 CACTTACAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:22012321 original size:16 final size:16
Alignment explanation
Indices: 22012300--22012332 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22012290 CATTTTGATG
22012300 AAACTAGACTCAATAA
1 AAACTAGACTCAATAA
22012316 AAACTAGACTCAATAA
1 AAACTAGACTCAATAA
22012332 A
1 A
22012333 CCATTCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (16 bp):
AAACTAGACTCAATAA
Found at i:22015649 original size:13 final size:13
Alignment explanation
Indices: 22015631--22015661 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22015621 ACCCACATAC
*
22015631 ATAAAATAATAAA
1 ATAAAATAAAAAA
22015644 ATAAAATAAAAAA
1 ATAAAATAAAAAA
22015657 ATAAA
1 ATAAA
22015662 TCTCCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:22017054 original size:16 final size:16
Alignment explanation
Indices: 22017035--22017066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22017025 TCATATATAC
*
22017035 ATTCTTTAATATTTTT
1 ATTCTATAATATTTTT
22017051 ATTCTATAATATTTTT
1 ATTCTATAATATTTTT
22017067 CTTTAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTCTATAATATTTTT
Found at i:22023539 original size:55 final size:55
Alignment explanation
Indices: 22023455--22023563 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
22023445 TCGACTAGCT
22023455 TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATTG
1 TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATTG
* *
22023510 TGAGAAAATGATGAAAATGCTTAGATTTCAATTTATGAGTTTAATGATTAAATT
1 TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATT
22023564 TTGAAAGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (55 bp):
TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATTG
Found at i:22036175 original size:20 final size:20
Alignment explanation
Indices: 22036150--22036198 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
22036140 GAACCACTCA
*
22036150 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTTCCATTCC
22036170 ATTTACTTACTTTCCATTCC
1 ATTTACTTACTTTCCATTCC
22036190 ATTTACTTA
1 ATTTACTTA
22036199 GTATAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTTCCATTCC
Found at i:22038059 original size:23 final size:22
Alignment explanation
Indices: 22038033--22038075 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
22038023 AAATGGTTTA
22038033 TTTA-CCATTTAAGTCCATTTACC
1 TTTATCCA-TTAAG-CCATTTACC
*
22038056 TTTATTCATTAAGCCATTTA
1 TTTATCCATTAAGCCATTTA
22038076 ATCACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTACC
Found at i:22044259 original size:23 final size:23
Alignment explanation
Indices: 22044190--22044264 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
22044180 ATTTATCTTA
22044190 GGCTTGAGCTCAAATTGATTTTG
1 GGCTTGAGCTCAAATTGATTTTG
* * *
22044213 GGCTTGAAAGCT--TATTTATCTTG
1 GGCTTG--AGCTCAAATTGATTTTG
22044236 GGCTTGAGCTCAAATTGATTTTG
1 GGCTTGAGCTCAAATTGATTTTG
22044259 GGCTTG
1 GGCTTG
22044265 GAAGGTTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 4 0.10
23 34 0.81
25 4 0.10
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (23 bp):
GGCTTGAGCTCAAATTGATTTTG
Found at i:22052359 original size:21 final size:21
Alignment explanation
Indices: 22052333--22052381 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
22052323 GAAGTTGATA
22052333 TGTTGTTTTCAATACTTAAGG
1 TGTTGTTTTCAATACTTAAGG
22052354 TGTTGTTTTCAATACTTAAGG
1 TGTTGTTTTCAATACTTAAGG
22052375 TGCTTGT
1 TG-TTGT
22052382 AATCAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (21 bp):
TGTTGTTTTCAATACTTAAGG
Found at i:22052387 original size:22 final size:21
Alignment explanation
Indices: 22052341--22052387 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22052331 TATGTTGTTT
**
22052341 TCAATACTTAAGGTGTTGTTT
1 TCAATACTTAAGGTGTTGTAA
22052362 TCAATACTTAAGGTGCTTGTAA
1 TCAATACTTAAGGTG-TTGTAA
22052384 TCAA
1 TCAA
22052388 ACATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (21 bp):
TCAATACTTAAGGTGTTGTAA
Found at i:22054900 original size:22 final size:20
Alignment explanation
Indices: 22054851--22054889 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
22054841 TTATATATAT
22054851 ATTTAAAACAATATTGATAA
1 ATTTAAAACAATATTGATAA
22054871 ATTTAAAAC-ATATTGATAA
1 ATTTAAAACAATATTGATAA
22054890 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTTAAAACAATATTGATAA
Found at i:22063449 original size:19 final size:21
Alignment explanation
Indices: 22063417--22063466 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
22063407 TATATATATT
22063417 TTTAAAACAATATTGAT-A-AA
1 TTTAAAA-AATATTGATAATAA
22063437 TTTAAAAAATATTGATAATAA
1 TTTAAAAAATATTGATAATAA
22063458 TTTAAAAAA
1 TTTAAAAAA
22063467 ATAATGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.32
20 8 0.29
21 11 0.39
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
TTTAAAAAATATTGATAATAA
Found at i:22063467 original size:22 final size:20
Alignment explanation
Indices: 22063417--22063469 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
22063407 TATATATATT
*
22063417 TTTAAAACAATATTGATAAA
1 TTTAAAAAAATATTGATAAA
22063437 TTT-AAAAAATATTGATAATAA
1 TTTAAAAAAATATTGAT-A-AA
22063458 TTTAAAAAAATA
1 TTTAAAAAAATA
22063470 ATGTATTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 5 0.17
22 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
TTTAAAAAAATATTGATAAA
Found at i:22067602 original size:46 final size:46
Alignment explanation
Indices: 22067535--22067638 Score: 163
Period size: 46 Copynumber: 2.3 Consensus size: 46
22067525 ATTCTGATTC
* *
22067535 TGATTCGTATATTAAGTATGCCACTTTGTTAAACCAAAAATAAAGA
1 TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
* *
22067581 TGATTCGCATGTTAAGTATGCCACTGTGTTAAACCAAAAATAAATA
1 TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
*
22067627 TGATTCACATAT
1 TGATTCGCATAT
22067639 AAAGACTGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (46 bp):
TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
Found at i:22070291 original size:16 final size:15
Alignment explanation
Indices: 22070272--22070301 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22070262 TTAATTTCAT
22070272 TTGCATTTAGATTAAC
1 TTGCATTTAG-TTAAC
22070288 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
22070302 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:22071619 original size:28 final size:28
Alignment explanation
Indices: 22071580--22071699 Score: 145
Period size: 28 Copynumber: 4.3 Consensus size: 28
22071570 CTATTCAGTG
* *
22071580 ACAGT-ACAGTGTAGGCCTTAGCCTAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
22071607 ACAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
22071635 ATATTAACAGTGTGGGCCTTAGCCCAAA
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
22071663 ATAG-AATCAGTGTGGGTCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
22071691 ACAGTAACA
1 ACAGTAACA
22071700 ATGTAGTGCA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 7 0.09
28 70 0.89
29 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:22071658 original size:56 final size:56
Alignment explanation
Indices: 22071585--22071705 Score: 161
Period size: 56 Copynumber: 2.2 Consensus size: 56
22071575 CAGTGACAGT
* * *
22071585 ACAGTGTAGGCCTTAGCCTAATACAGTATCAGTGTGGGCCTTAGCCCAATATATTA
1 ACAGTGTAGGCCTTAGCCCAAAACAGAATCAGTGTGGGCCTTAGCCCAATATATTA
* * * * *
22071641 ACAGTGTGGGCCTTAGCCCAAAATAGAATCAGTGTGGGTCTTAGCCCAATACAGTA
1 ACAGTGTAGGCCTTAGCCCAAAACAGAATCAGTGTGGGCCTTAGCCCAATATATTA
*
22071697 ACAATGTAG
1 ACAGTGTAG
22071706 TGCAATAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (56 bp):
ACAGTGTAGGCCTTAGCCCAAAACAGAATCAGTGTGGGCCTTAGCCCAATATATTA
Found at i:22072111 original size:27 final size:27
Alignment explanation
Indices: 22072062--22072476 Score: 415
Period size: 27 Copynumber: 15.4 Consensus size: 27
22072052 GGCCATAACA
* * *
22072062 GTCATTTGA-CCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
22072088 GTCATTTCACCCTATAAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
22072115 GTCATTTTGCCCTATAGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
22072142 ATCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
22072169 GTCATTTTACCCTATGGGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
22072196 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
22072223 GTTA-TTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
22072249 GTCATTTTATCCTATGGGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
22072276 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
22072303 GTGATTTTACCCTATGGGGCTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
22072330 GTTATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
22072357 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
22072384 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * ** *
22072411 ATCATTTT-CATCTATTAGGGGTAAAAT-A
1 GTCATTTTAC-CCTA-TGGGGGT-ATTTCG
* * *
22072439 GTCATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
22072466 GTCATTTTACC
1 GTCATTTTACC
22072477 TATTTTGGGG
Statistics
Matches: 321, Mismatches: 61, Indels: 13
0.81 0.15 0.03
Matches are distributed among these distances:
26 34 0.11
27 269 0.84
28 15 0.05
29 3 0.01
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:22075319 original size:26 final size:26
Alignment explanation
Indices: 22075269--22075349 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
22075259 TACAGTTTCC
* * **
22075269 GTGATTAATGTCTCAACAAACTATCT
1 GTGATTAATGTCCCAGCGGACTATCT
* * *
22075295 GTGATTAGTGTCTCAGCGGATTATC-
1 GTGATTAATGTCCCAGCGGACTATCT
*
22075320 CT-ATTAATGTCCCAGCGGACTATCT
1 GTGATTAATGTCCCAGCGGACTATCT
22075345 GTGAT
1 GTGAT
22075350 GCCAGAGTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 19 0.44
25 2 0.05
26 22 0.51
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (26 bp):
GTGATTAATGTCCCAGCGGACTATCT
Found at i:22075330 original size:24 final size:24
Alignment explanation
Indices: 22075298--22075343 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22075288 ACTATCTGTG
* * *
22075298 ATTAGTGTCTCAGCGGATTATCCT
1 ATTAATGTCCCAGCGGACTATCCT
22075322 ATTAATGTCCCAGCGGACTATC
1 ATTAATGTCCCAGCGGACTATC
22075344 TGTGATGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
ATTAATGTCCCAGCGGACTATCCT
Found at i:22085890 original size:26 final size:26
Alignment explanation
Indices: 22085815--22085891 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
22085805 ACACCAATAT
* *
22085815 CGCAGCAAAGCTGCCAGTAATAATAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * *
22085841 CGCAGCAAGGCTACCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
22085867 CGCAACAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
22085892 TATGTGGCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:22086091 original size:27 final size:27
Alignment explanation
Indices: 22086042--22086160 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
22086032 TCATGCATAA
* *
22086042 CAGTCATTTTACCCTAT-GGGGGTATTT
1 CAGTCATTTTACACT-TCGAGGGTATTT
* **
22086069 CGGTCATTTTACACTTTAAGGGTATTT
1 CAGTCATTTTACACTTCGAGGGTATTT
*
22086096 CAGTCATTTTATC-CTTCGGGGGTATTT
1 CAGTCATTTTA-CACTTCGAGGGTATTT
*
22086123 CGGTCATTTTACACTTCGAGGGTATTT
1 CAGTCATTTTACACTTCGAGGGTATTT
*
22086150 CAATCATTTTA
1 CAGTCATTTTA
22086161 AGCCCATTAC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.03
27 74 0.96
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACACTTCGAGGGTATTT
Found at i:22086124 original size:54 final size:54
Alignment explanation
Indices: 22086042--22086160 Score: 186
Period size: 54 Copynumber: 2.2 Consensus size: 54
22086032 TCATGCATAA
*
22086042 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTTAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTCAAGGGTATTT
* *
22086096 CAGTCATTTTATCCT-TCGGGGGTATTTCGGTCATTTTACACTTCGAGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACACTTCAAGGGTATTT
*
22086150 CAATCATTTTA
1 CAGTCATTTTA
22086161 AGCCCATTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTCAAGGGTATTT
Found at i:22094898 original size:20 final size:20
Alignment explanation
Indices: 22094873--22094912 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22094863 ATATTGGAGG
22094873 TGGGAGTTTCTCAATAACAT
1 TGGGAGTTTCTCAATAACAT
22094893 TGGGAGTTTCTCAATAACAT
1 TGGGAGTTTCTCAATAACAT
22094913 CTACCTGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (20 bp):
TGGGAGTTTCTCAATAACAT
Found at i:22104411 original size:139 final size:138
Alignment explanation
Indices: 22103911--22104466 Score: 787
Period size: 139 Copynumber: 4.1 Consensus size: 138
22103901 AGAGAACATA
* * *
22103911 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTAT
1 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * * *
22103976 TAATATAAAAAATTATATTAATTAATTTTGATCAAAATATAAAAG-ACATGGAAATTAATATTCT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAC-TGGAAATTAATATTCT
22104040 TTTGGAAAG
130 TTTGGAAAG
*
22104049 AATATAATTAATATATGAATTTG--------AAAATATTAATTGTATATATTTTATCGAATTTAT
1 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * *
22104106 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATA-TGAAAATTAACATT-A
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGA-ACTGGAAATTAATATTCT
*
22104169 TTTGGAAAT
130 TTTGGAAAG
* *
22104178 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTAT
1 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
*
22104243 TAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGAACTGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAACTGGAAATTAATATTCTT
22104308 TTGGAAA-
131 TTGGAAAG
*
22104315 AATATAATTAATATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTT
1 AATATAATTAATATAT-T-AATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTT
* * * *
22104380 ATTAATATAAACAGTTATATCAATTACTTTCGGTCCAAATATAAAAG-ACATAGAAATTAATATT
64 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAC-TGGAAATTAATATT
*
22104444 CTTGTGGAAAG
128 CTTTTGGAAAG
22104455 AATATAATTAAT
1 AATATAATTAAT
22104467 TTTTCTAACT
Statistics
Matches: 376, Mismatches: 26, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
129 30 0.08
130 85 0.23
132 1 0.00
136 1 0.00
137 105 0.28
138 34 0.09
139 108 0.29
140 12 0.03
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (138 bp):
AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAACTGGAAATTAATATTCTT
TTGGAAAG
Found at i:22106716 original size:53 final size:53
Alignment explanation
Indices: 22106659--22106766 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
22106649 TTAGGCATCC
* * *
22106659 ATAACACCAAACATGTTCTTAATTAGCCATTTCAATAGCTAATCATTAGCCAT
1 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
22106712 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
1 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
22106765 AT
1 AT
22106767 CATATAAACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
Found at i:22107069 original size:12 final size:12
Alignment explanation
Indices: 22107039--22107077 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22107029 ACTCGCTTCT
* *
22107039 TTACTTATTCAC
1 TTACTTGTTTAC
22107051 TTACTTGTTTAC
1 TTACTTGTTTAC
22107063 TTACTTGTTTAC
1 TTACTTGTTTAC
22107075 TTA
1 TTA
22107078 AATAACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGTTTAC
Found at i:22107406 original size:50 final size:50
Alignment explanation
Indices: 22107347--22107459 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 50
22107337 TATCCCAAAT
** * * * *
22107347 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATACCATGTCCTAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGATGCCAACACCATGTCCCAGAC
** * * *
22107397 ATGGTCTTACGGGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGATGCCAACACCATGTCCCAGAC
22107447 ATGGTCTTACATG
1 ATGGTCTTACATG
22107460 GGATCTCATT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATATCGATGCCAACACCATGTCCCAGAC
Found at i:22111726 original size:15 final size:16
Alignment explanation
Indices: 22111706--22111750 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
22111696 ATGAGTTGTT
22111706 ATATTTAAAATTA-AA
1 ATATTTAAAATTATAA
*
22111721 ATATTTATAATTTATAA
1 ATATTTA-AAATTATAA
22111738 A-ATTTAAAATTAT
1 ATATTTAAAATTAT
22111751 TTGAATTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 10 0.38
17 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTAAAATTATAA
Found at i:22111748 original size:16 final size:16
Alignment explanation
Indices: 22111706--22111748 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
22111696 ATGAGTTGTT
22111706 ATATTTAAAA-TTAAA
1 ATATTTAAAATTTAAA
*
22111721 ATATTTATAATTTATAA
1 ATATTTAAAATTTA-AA
22111738 A-ATTTAAAATT
1 ATATTTAAAATT
22111749 ATTTGAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 12 0.50
17 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTAAAATTTAAA
Found at i:22111757 original size:25 final size:24
Alignment explanation
Indices: 22111711--22111757 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
22111701 TTGTTATATT
*
22111711 TAAAATTAAAATATTTATAATTTA
1 TAAAATTAAAATATTTAGAATTTA
22111735 TAAAATTTAAAATTATTT-GAATT
1 TAAAA-TTAAAA-TATTTAGAATT
22111758 CGTCAGGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAATTAAAATATTTAGAATTTA
Found at i:22114360 original size:12 final size:11
Alignment explanation
Indices: 22114337--22114369 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
22114327 ATACCTTATC
22114337 AAAAAA-TTTT
1 AAAAAACTTTT
22114347 AAAAACACTTTT
1 AAAAA-ACTTTT
22114359 AAAAAACTTTT
1 AAAAAACTTTT
22114370 TTTAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 7 0.33
12 9 0.43
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAAACTTTT
Found at i:22115355 original size:3 final size:3
Alignment explanation
Indices: 22115347--22115373 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22115337 ATTCAATCTT
22115347 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
22115374 GGGAGATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:22119475 original size:81 final size:81
Alignment explanation
Indices: 22119383--22119544 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
22119373 TTTTCTTCAG
*
22119383 TTTGTCGTATCAAATCAACATCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
1 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
22119448 AACACTTTTGACCATA
66 AACACTTTTGACCATA
*
22119464 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAACGGAGTTC
1 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
*
22119529 GACACTTTTGACCATA
66 AACACTTTTGACCATA
22119545 CAAAGCTTTA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (81 bp):
TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
AACACTTTTGACCATA
Found at i:22124177 original size:16 final size:15
Alignment explanation
Indices: 22124152--22124181 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22124142 TCTCACTCAA
22124152 TTTTCTTTCACTTTG
1 TTTTCTTTCACTTTG
22124167 TTTTCCTTTCACTTT
1 TTTT-CTTTCACTTT
22124182 TCCTCCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.23, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCACTTTG
Found at i:22130488 original size:26 final size:26
Alignment explanation
Indices: 22130396--22130484 Score: 126
Period size: 26 Copynumber: 3.5 Consensus size: 26
22130386 TTTACATCAT
22130396 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
22130422 TGC-CACACGAGCTGTGACATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
* * * *
22130447 TTCTGACACGAGTTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
22130473 TGCTCACACGAG
1 TGCTCACACGAG
22130485 TTGTAGGTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
25 23 0.43
26 31 0.57
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.21
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Done.