Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 60 of 211
Found at i:18313556 original size:16 final size:16
Alignment explanation
Indices: 18313519--18313560 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18313509 TTAATCATAT
*
18313519 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18313535 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18313550 TTAAAATATAT
1 TTAAAATATAT
18313561 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18313567 original size:14 final size:15
Alignment explanation
Indices: 18313528--18313569 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18313518 TTTAAACATA
*
18313528 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18313543 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18313557 A-TATAATTTAATA
1 ATTATAATTAAATA
18313570 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18313678 original size:16 final size:16
Alignment explanation
Indices: 18313635--18313680 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18313625 ACTATAAAAG
*
18313635 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
18313651 ATTATT-AAATATATT
1 ATAATTAAAATATATT
18313666 ATAATTAAAATATAT
1 ATAATTAAAATATAT
18313681 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:18313687 original size:14 final size:15
Alignment explanation
Indices: 18313635--18313689 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
18313625 ACTATAAAAG
18313635 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
18313651 ATTATTAAATATATT
1 ATAATTAAATATATT
18313666 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
18313679 ATAATTTAATA
1 ATAATTAAATA
18313690 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:18313735 original size:120 final size:121
Alignment explanation
Indices: 18313517--18313793 Score: 477
Period size: 120 Copynumber: 2.3 Consensus size: 121
18313507 ATTTAATCAT
18313517 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
18313582 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
18313638 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
18313702 ATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
* * *
18313758 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAA
18313794 TATTAAATAA
Statistics
Matches: 149, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 143 0.96
121 6 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
Found at i:18313752 original size:61 final size:61
Alignment explanation
Indices: 18313567--18313754 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
18313557 ATATAATTTA
* * *
18313567 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
** * * * * * * * *
18313628 ATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT
18313686 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
18313748 ATAAAAT
1 ATAAAAT
18313755 ATAATTTGAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 32 0.34
60 14 0.15
61 41 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:18317066 original size:16 final size:16
Alignment explanation
Indices: 18317033--18317066 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18317023 TTTTATTAAG
**
18317033 TTAAATTAAAATTTTT
1 TTAAATTAAAATAATT
18317049 TTAAATTAAAATAATT
1 TTAAATTAAAATAATT
18317065 TT
1 TT
18317067 TTTGTCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAATTAAAATAATT
Found at i:18317068 original size:21 final size:21
Alignment explanation
Indices: 18317020--18317069 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
18317010 AATTTTCGTT
* * *
18317020 ATTTTTTATTAAGTTAAATTA
1 ATTTTTTTTTAAATTAAAATA
**
18317041 AAATTTTTTTAAATTAAAATA
1 ATTTTTTTTTAAATTAAAATA
18317062 ATTTTTTT
1 ATTTTTTT
18317070 GTCATTATAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTTTTTAAATTAAAATA
Found at i:18325436 original size:42 final size:42
Alignment explanation
Indices: 18325390--18325548 Score: 171
Period size: 42 Copynumber: 3.8 Consensus size: 42
18325380 GAAAAAAACG
** * *
18325390 CCGCTAAAGGTCATGTTCTTTGGCGGCGTTTT-TTCCTAAGCC
1 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTT-CTAAGCC
*
18325432 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCTAAGCG
1 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCTAAGCC
* * *
18325474 CCGCTAAAGAACATGATTTTTAGTGGCGATTTT-TAT-TAAGCG
1 CCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCT-TCTAAGCC
* *
18325516 CTGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 CCGCTAAAGAACATGATCTTTAGCGGCG-TTTT
18325549 ATACAAAAAC
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 95 0.93
43 7 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
CCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCTAAGCC
Found at i:18325507 original size:84 final size:85
Alignment explanation
Indices: 18325388--18325548 Score: 209
Period size: 84 Copynumber: 1.9 Consensus size: 85
18325378 TAGAAAAAAA
** * * *
18325388 CGCCGCTAAAGGTCATGTTCTTTGGCGGCGTTTTTTCCTAAGCCCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTACTAAGCCCCGCTAAAGAACATGATCTTT
18325453 AGCGGCG-TTTTCTTCTAAG
66 AGCGGCGCTTTTCTTCTAAG
* * * * *
18325472 CGCCGCTAAAGAACATGATT-TTTAGTGGCGATTTTTATTAAGCGCTGCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATG-TTCTTTAGCGGCGATTTTTACTAAGCCCCGCTAAAGAACATGATCTT
18325536 TAGCGGCGCTTTT
65 TAGCGGCGCTTTT
18325549 ATACAAAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 59 0.91
85 6 0.09
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (85 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTACTAAGCCCCGCTAAAGAACATGATCTTT
AGCGGCGCTTTTCTTCTAAG
Found at i:18325999 original size:21 final size:21
Alignment explanation
Indices: 18325930--18325987 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
18325920 CTTTTGAACA
18325930 TCTGCTTCTCTCGCTGTAGCC
1 TCTGCTTCTCTCGCTGTAGCC
18325951 TCTGCTTCTCTCGCTGTAGCC
1 TCTGCTTCTCTCGCTGTAGCC
* *
18325972 TTTGCTTCCCTCGCTG
1 TCTGCTTCTCTCGCTG
18325988 CCACCTCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.03, C:0.38, G:0.19, T:0.40
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGTAGCC
Found at i:18331547 original size:9 final size:9
Alignment explanation
Indices: 18331508--18331776 Score: 270
Period size: 9 Copynumber: 30.9 Consensus size: 9
18331498 TATGTATTAA
*
18331508 GTAAATTAT
1 GTAAGTTAT
18331517 GTAAGTTAT
1 GTAAGTTAT
*
18331526 GTACGTGTA-
1 GTAAGT-TAT
*
18331535 -TAAGTTAC
1 GTAAGTTAT
18331543 GTAAGTTAT
1 GTAAGTTAT
*
18331552 GT-A-TTAA
1 GTAAGTTAT
*
18331559 GTAAGCTAT
1 GTAAGTTAT
18331568 GTAAGTTAT
1 GTAAGTTAT
18331577 GTAAGTTAT
1 GTAAGTTAT
** *
18331586 CAAAGTAAT
1 GTAAGTTAT
18331595 GTAAGTTAT
1 GTAAGTTAT
** *
18331604 CAAAGTAAT
1 GTAAGTTAT
*
18331613 GTATGTTAT
1 GTAAGTTAT
18331622 GTAAGTTAT
1 GTAAGTTAT
18331631 GTAAGTTAT
1 GTAAGTTAT
*
18331640 TTAAGTTAT
1 GTAAGTTAT
*
18331649 GTAAGTTCT
1 GTAAGTTAT
18331658 GT-A-TTAT
1 GTAAGTTAT
18331665 GTAAGTTAT
1 GTAAGTTAT
*
18331674 GTAAGTTAC
1 GTAAGTTAT
*
18331683 GTACGTTAT
1 GTAAGTTAT
*
18331692 TTAAGTTAT
1 GTAAGTTAT
*
18331701 TTAAGTTAT
1 GTAAGTTAT
*
18331710 GTAAGTTTT
1 GTAAGTTAT
18331719 GT-A-TTAT
1 GTAAGTTAT
18331726 GTAAGTTAT
1 GTAAGTTAT
*
18331735 TTAAGTTAT
1 GTAAGTTAT
*
18331744 GTAAGTTCT
1 GTAAGTTAT
18331753 GT-A-TTAT
1 GTAAGTTAT
18331760 GTAAGTTAT
1 GTAAGTTAT
18331769 GTAAGTTA
1 GTAAGTTA
18331777 ATATGCAAGT
Statistics
Matches: 211, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
7 22 0.10
8 12 0.06
9 175 0.83
10 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:18331702 original size:61 final size:61
Alignment explanation
Indices: 18331543--18331775 Score: 258
Period size: 61 Copynumber: 3.9 Consensus size: 61
18331533 TATAAGTTAC
* * * ** **
18331543 GTAAGTTATGT-A-TTAAGTAAGCTATGTAAGTTATGTAAGTTATCAAAGTAATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTCTGT-A-TTAT
** * *
18331604 CAAAGTAATGTATGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTCTGTATTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTCTGTATTAT
* * * *
18331665 GTAAGTTATGTAAGTTACGTACGTTATTTAAGTTATTTAAGTTATGTAAGTTTTGTATTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTCTGTATTAT
* * *
18331726 GTAAGTTATTTAAGTTATGTAAGTTCTGT-A-TTATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTT
18331776 AATATGCAAG
Statistics
Matches: 145, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
59 19 0.13
60 1 0.01
61 89 0.61
62 1 0.01
63 35 0.24
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (61 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTCTGTATTAT
Found at i:18331786 original size:12 final size:12
Alignment explanation
Indices: 18331766--18331798 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18331756 TTATGTAAGT
18331766 TATGTAAGTTAA
1 TATGTAAGTTAA
*
18331778 TATGCAAGTTAA
1 TATGTAAGTTAA
18331790 TATGTAAGT
1 TATGTAAGT
18331799 AATGTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (12 bp):
TATGTAAGTTAA
Found at i:18334651 original size:103 final size:103
Alignment explanation
Indices: 18334447--18334659 Score: 356
Period size: 103 Copynumber: 2.1 Consensus size: 103
18334437 TTACCATAAT
18334447 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
* * *
18334512 CTCGTATTAATCCTTAAACTCTAAGCTACACCCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
* *
18334550 CTTAAACCCTAAAATATAAAATTTAGACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
*
18334615 CCCATATTAATCCCTAAACTCTAAGCTACTA-GCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTAC-ACCCTAAAC
18334653 CCTAAAC
1 CCTAAAC
18334660 AATAAACAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 101 0.99
104 1 0.01
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (103 bp):
CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
Found at i:18334687 original size:103 final size:103
Alignment explanation
Indices: 18334447--18334688 Score: 319
Period size: 103 Copynumber: 2.3 Consensus size: 103
18334437 TTACCATAAT
** *
18334447 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACAATAAAATATAAAATATAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
* * *
18334512 CTCGTATTAATCCTTAAACTCTAAGCTACACCCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
* ** * *
18334550 CTTAAACCCTAAAATATAAAATTTAGACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACAATAAAATATAAAATATAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
*
18334615 CCCATATTAATCCCTAAACTCTAAGCTACTA-GCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTAC-ACCCTAAAC
*
18334653 CCTAAACAATAAACA-ATAAACA-ATAAACCATAAACC
1 CCTAAACAATAAA-ATATAAA-ATATAAACCCTAAACC
18334689 CACACCCTAC
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
103 121 0.98
104 3 0.02
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.25
Consensus pattern (103 bp):
CCTAAACAATAAAATATAAAATATAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
Found at i:18334688 original size:7 final size:7
Alignment explanation
Indices: 18334655--18334687 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
18334645 AGCTAAACCC
18334655 TAAACAA
1 TAAACAA
18334662 TAAACAA
1 TAAACAA
18334669 TAAACAA
1 TAAACAA
*
18334676 TAAACCA
1 TAAACAA
18334683 TAAAC
1 TAAAC
18334688 CCACACCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACAA
Found at i:18334750 original size:7 final size:7
Alignment explanation
Indices: 18334738--18334884 Score: 68
Period size: 7 Copynumber: 20.9 Consensus size: 7
18334728 CTGCATACTT
18334738 TAAACCA
1 TAAACCA
18334745 TAAACC-
1 TAAACCA
* *
18334751 TACACCG
1 TAAACCA
*
18334758 TAAACCG
1 TAAACCA
18334765 TAAA-CA
1 TAAACCA
**
18334771 CTAAACTG
1 -TAAACCA
18334779 TAAACCAA
1 TAAACC-A
* *
18334787 TAACCCT
1 TAAACCA
* *
18334794 TAGACCC
1 TAAACCA
*
18334801 TAAGCCGA
1 TAAACC-A
18334809 T-AACC-
1 TAAACCA
*
18334814 TAAACCCC
1 TAAA-CCA
*
18334822 TAAACCC
1 TAAACCA
*
18334829 TAAACCT
1 TAAACCA
*
18334836 TAAACCC
1 TAAACCA
18334843 TAAACCA
1 TAAACCA
18334850 TAAACCA
1 TAAACCA
*
18334857 TAAACCT
1 TAAACCA
*
18334864 TAAACCTC
1 TAAACC-A
*
18334872 TAAAGCA
1 TAAACCA
18334879 TAAACC
1 TAAACC
18334885 TTTAAACCCC
Statistics
Matches: 107, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
5 1 0.01
6 8 0.07
7 83 0.78
8 15 0.14
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:18334783 original size:21 final size:20
Alignment explanation
Indices: 18334738--18334869 Score: 95
Period size: 21 Copynumber: 6.3 Consensus size: 20
18334728 CTGCATACTT
*
18334738 TAAACCATAAACCTACACCG
1 TAAACCATAAACCTAAACCG
* *
18334758 TAAACCGTAAACACTAAACTG
1 TAAACCATAAAC-CTAAACCG
* * *
18334779 TAAACCAATAACCCTTAGACCC
1 TAAACC-ATAAACC-TAAACCG
* *
18334801 TAAGCCGAT-AACCTAAACCCC
1 TAAACC-ATAAACCTAAA-CCG
* *
18334822 TAAACCCTAAACCTTAAACCC
1 TAAACCATAAACC-TAAACCG
*
18334843 TAAACCATAAACCATAAACCT
1 TAAACCATAAACC-TAAACCG
18334864 TAAACC
1 TAAACC
18334870 TCTAAAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
20 15 0.17
21 55 0.62
22 19 0.21
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAACCATAAACCTAAACCG
Found at i:18334825 original size:8 final size:7
Alignment explanation
Indices: 18334812--18334898 Score: 75
Period size: 7 Copynumber: 11.9 Consensus size: 7
18334802 AAGCCGATAA
18334812 CCTAAACC
1 CCTAAA-C
18334820 CCTAAAC
1 CCTAAAC
18334827 CCTAAAC
1 CCTAAAC
*
18334834 CTTAAAC
1 CCTAAAC
18334841 CCTAAAC
1 CCTAAAC
*
18334848 CATAAAC
1 CCTAAAC
*
18334855 CATAAAC
1 CCTAAAC
*
18334862 CTTAAAC
1 CCTAAAC
*
18334869 CTCTAAAG
1 C-CTAAAC
*
18334877 CATAAAC
1 CCTAAAC
*
18334884 CTTTAAACC
1 C-CTAAA-C
18334893 CCTAAA
1 CCTAAA
18334899 TTATAAACTC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
7 45 0.68
8 19 0.29
9 2 0.03
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:18334839 original size:14 final size:14
Alignment explanation
Indices: 18334737--18334875 Score: 88
Period size: 14 Copynumber: 9.9 Consensus size: 14
18334727 ACTGCATACT
*
18334737 TTAAACCATAAACC
1 TTAAACCCTAAACC
* *
18334751 -TACACCGTAAACC
1 TTAAACCCTAAACC
* *
18334764 GTAAACACTAAA-C
1 TTAAACCCTAAACC
* *
18334777 TGTAAACCAATAACCC
1 T-TAAACC-CTAAACC
* *
18334793 TTAGACCCTAAGCC
1 TTAAACCCTAAACC
*
18334807 -GATAA-CCTAAACCC
1 TTA-AACCCTAAA-CC
*
18334821 CTAAACCCTAAACC
1 TTAAACCCTAAACC
18334835 TTAAACCCTAAACC
1 TTAAACCCTAAACC
* *
18334849 ATAAACCATAAACC
1 TTAAACCCTAAACC
18334863 TTAAACCTCTAAA
1 TTAAACC-CTAAA
18334876 GCATAAACCT
Statistics
Matches: 95, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
13 18 0.19
14 56 0.59
15 19 0.20
16 2 0.02
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.19
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:18334904 original size:23 final size:23
Alignment explanation
Indices: 18334822--18334933 Score: 76
Period size: 21 Copynumber: 4.9 Consensus size: 23
18334812 CCTAAACCCC
*
18334822 TAAA-CCCTAAACCT-TAAACC-C
1 TAAACCCCTAAA-CTATAAACCTT
* *
18334843 TAAA-CCATAAACCATAAACC-T
1 TAAACCCCTAAACTATAAACCTT
*
18334864 TAAACCTCTAAAGC-ATAAACCTT
1 TAAACCCCTAAA-CTATAAACCTT
*
18334887 TAAACCCCTAAATTATAAACTCTTGAT
1 TAAACCCCTAAACTATAAAC-C-T--T
18334914 TAAA-CCCTAAACTATAAACC
1 TAAACCCCTAAACTATAAACC
18334934 ACTAACCCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.01
21 20 0.27
22 12 0.16
23 19 0.26
24 1 0.01
25 2 0.03
26 14 0.19
27 5 0.07
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAACCCCTAAACTATAAACCTT
Found at i:18334983 original size:22 final size:21
Alignment explanation
Indices: 18334935--18334983 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
18334925 CTATAAACCA
*
18334935 CTAACCCATAGACCCTAAGCC
1 CTAACCCATAAACCCTAAGCC
*
18334956 CATAACCCCTAAACCCTAAGCTC
1 C-TAACCCATAAACCCTAAGC-C
18334979 CTAAC
1 CTAAC
18334984 GTTACACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.88
23 2 0.08
ACGTcount: A:0.35, C:0.43, G:0.06, T:0.16
Consensus pattern (21 bp):
CTAACCCATAAACCCTAAGCC
Found at i:18335395 original size:114 final size:114
Alignment explanation
Indices: 18335189--18335639 Score: 609
Period size: 114 Copynumber: 4.0 Consensus size: 114
18335179 TACAACTATT
* * * * * *
18335189 TGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAGGTTCAGAAAACGACATAGT
1 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGT
*
18335254 TGGGCTTAGATTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
66 TGGGCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
* * ***
18335303 CGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGTGTCGT
1 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGT
* * * *
18335368 AGGTCTTAGGTTTTTTTGCGGCACTTCCTCAAAAACGCCGCTAAAGCCA
66 TGGGCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
* *
18335417 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCTGAAAACTCAGAAAACGACATCGT
1 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGT
* * * *
18335482 TGGGCTTAGGTTTTTTTGTGGCGCTTTCTCAAAAATGTCGCTAAAGCCC
66 TGGGCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
* * *
18335531 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCCGAAAACGGCGTCGT
1 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGT
** * * **
18335596 TGGTATTAGG--TTTTTGCAGCGCTTTCTGGAAAACGCCGCTAAAG
66 TGGGCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAG
18335640 ATTATTTTCA
Statistics
Matches: 295, Mismatches: 42, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
112 28 0.09
114 267 0.91
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (114 bp):
TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGT
TGGGCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
Found at i:18335588 original size:228 final size:228
Alignment explanation
Indices: 18335189--18335610 Score: 673
Period size: 228 Copynumber: 1.9 Consensus size: 228
18335179 TACAACTATT
* * ***
18335189 TGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAGGTTCAGAAAACGACATAGT
1 TGAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGACATAGT
18335254 TGGGCTTAGATTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGC
66 TGGGCTTAGATTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGC
* * *
18335319 TCTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGTGTCGTAGGTCTTAGGTTTTTT
131 TCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTAGGTATTAGGTTTTTT
18335384 TGCGGCACTTCCTCAAAAACGCCGCTAAAGCCA
196 TGCGGCACTTCCTCAAAAACGCCGCTAAAGCCA
* * *
18335417 TGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAAATCCCTGAAAACTCAGAAAACGACATCGT
1 TGAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGACATAGT
* * * * * *
18335482 TGGGCTTAGGTTTTTTTGTGGCGCTTTCTCAAAAATGTCGCTAAAGCCCTGAGCATTAGTGGCGC
66 TGGGCTTAGATTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGC
* *
18335547 TCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCCGAAAACGGCGTCGTTGGTATTAGGTTTTT
131 TCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTAGGTATTAGGTTTTT
18335611 GCAGCGCTTT
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
228 175 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (228 bp):
TGAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGACATAGT
TGGGCTTAGATTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGC
TCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTAGGTATTAGGTTTTTT
TGCGGCACTTCCTCAAAAACGCCGCTAAAGCCA
Found at i:18335723 original size:12 final size:12
Alignment explanation
Indices: 18335706--18335731 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18335696 TTTGTTATCC
18335706 AAACGCCGCTAA
1 AAACGCCGCTAA
18335718 AAACGCCGCTAA
1 AAACGCCGCTAA
18335730 AA
1 AA
18335732 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:18341936 original size:19 final size:19
Alignment explanation
Indices: 18341908--18341946 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18341898 TTTATGGTTT
18341908 TAAATAATTTTTGGGTAAAA
1 TAAATAA-TTTTGGGTAAAA
*
18341928 TAAAT-ATTTTGGGTTAAA
1 TAAATAATTTTGGGTAAAA
18341946 T
1 T
18341947 TGAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 1 0.06
20 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAATAATTTTGGGTAAAA
Found at i:18349866 original size:13 final size:13
Alignment explanation
Indices: 18349848--18349873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18349838 ATTTTTCAAG
18349848 TCATTTTCATTTT
1 TCATTTTCATTTT
18349861 TCATTTTCATTTT
1 TCATTTTCATTTT
18349874 GGAGAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:18349915 original size:50 final size:52
Alignment explanation
Indices: 18349857--18349960 Score: 158
Period size: 50 Copynumber: 2.0 Consensus size: 52
18349847 GTCATTTTCA
*
18349857 TTTTTCATTTTCATTTTGGAGAAAACAACATTCATTT-CAAATGATT-CCAT
1 TTTTTCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCCAT
* * *
18349907 TTTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCCAT
1 TTTTTCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCCAT
18349959 TT
1 TT
18349961 CTCTATTTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 34 0.71
51 8 0.17
52 6 0.12
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (52 bp):
TTTTTCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCCAT
Found at i:18351724 original size:17 final size:18
Alignment explanation
Indices: 18351683--18351717 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18351673 CTCAAACACA
18351683 TACATC-AACCAATTCAT
1 TACATCAAACCAATTCAT
*
18351700 TACATCAAACCGATTCAT
1 TACATCAAACCAATTCAT
18351718 ATATCAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TACATCAAACCAATTCAT
Found at i:18357653 original size:9 final size:9
Alignment explanation
Indices: 18357639--18358192 Score: 508
Period size: 9 Copynumber: 63.2 Consensus size: 9
18357629 TTTTTATGTA
18357639 TTATGTAAG
1 TTATGTAAG
18357648 TTATGTACTAAG
1 TTATG---TAAG
18357660 TTATGT-A-
1 TTATGTAAG
18357667 TTATGTAAG
1 TTATGTAAG
18357676 TTATGTAAG
1 TTATGTAAG
*
18357685 TTGTGT-A-
1 TTATGTAAG
*
18357692 TTATGTGAG
1 TTATGTAAG
* *
18357701 TTTTGTAGG
1 TTATGTAAG
*
18357710 TTGTGT-A-
1 TTATGTAAG
18357717 TTATGTAAG
1 TTATGTAAG
*
18357726 TTA-GGAAGG
1 TTATGTAA-G
18357735 TTATGT-A-
1 TTATGTAAG
18357742 TTATGTAAG
1 TTATGTAAG
*
18357751 TTATTTAAG
1 TTATGTAAG
18357760 TTATGTAAG
1 TTATGTAAG
*
18357769 TTGTGTAAG
1 TTATGTAAG
*
18357778 TTATTTAA-
1 TTATGTAAG
18357786 -TATGTAAG
1 TTATGTAAG
18357794 TTATGTAAG
1 TTATGTAAG
* *
18357803 TTATTTAAT
1 TTATGTAAG
18357812 TTATGTAAG
1 TTATGTAAG
18357821 TTATGTAAG
1 TTATGTAAG
18357830 TTATGTAAG
1 TTATGTAAG
18357839 TTATGTAAG
1 TTATGTAAG
* *
18357848 TTATTTAAT
1 TTATGTAAG
18357857 TTATGTAAG
1 TTATGTAAG
18357866 TTATGTAAG
1 TTATGTAAG
* *
18357875 TTATTTAAT
1 TTATGTAAG
18357884 TTATGTAAG
1 TTATGTAAG
*
18357893 TTATTTAAG
1 TTATGTAAG
*
18357902 TTATGTAGG
1 TTATGTAAG
**
18357911 CAATGT-A-
1 TTATGTAAG
*
18357918 TTATGTAAA
1 TTATGTAAG
*
18357927 TAATGTAAG
1 TTATGTAAG
*
18357936 TTA-GGAAGG
1 TTATGTAA-G
18357945 TTATGT-A-
1 TTATGTAAG
18357952 TTATGTAAG
1 TTATGTAAG
*
18357961 TTATTTAAG
1 TTATGTAAG
18357970 TTATGTAAG
1 TTATGTAAG
18357979 TTATGTAAG
1 TTATGTAAG
* *
18357988 TTATTTAAT
1 TTATGTAAG
18357997 TTATGTAAG
1 TTATGTAAG
18358006 TTATGTAAG
1 TTATGTAAG
18358015 TTATGTAAG
1 TTATGTAAG
* *
18358024 TTATTTAAT
1 TTATGTAAG
18358033 TTATGTAAG
1 TTATGTAAG
*
18358042 TTAT-TTAG
1 TTATGTAAG
*** *
18358050 --AAAAAAA
1 TTATGTAAG
18358057 TTATGTAAG
1 TTATGTAAG
18358066 TTATGTACTAAG
1 TTATG---TAAG
18358078 TTATGT-A-
1 TTATGTAAG
*
18358085 TTATGTAAA
1 TTATGTAAG
*
18358094 TAATGTAAG
1 TTATGTAAG
*
18358103 TTA-GGAAGG
1 TTATGTAA-G
18358112 TTATGT-A-
1 TTATGTAAG
18358119 TTATGTAAG
1 TTATGTAAG
*
18358128 TTATTTAAG
1 TTATGTAAG
18358137 TTATGTAAG
1 TTATGTAAG
* *
18358146 TTATTTAAT
1 TTATGTAAG
18358155 TTATGTAAG
1 TTATGTAAG
18358164 TTATGTAAG
1 TTATGTAAG
18358173 TTATGTAAG
1 TTATGTAAG
*
18358182 TTATGCAAG
1 TTATGTAAG
18358191 TT
1 TT
18358193 TCTATATATG
Statistics
Matches: 440, Mismatches: 72, Indels: 66
0.76 0.12 0.11
Matches are distributed among these distances:
6 1 0.00
7 51 0.12
8 23 0.05
9 344 0.78
10 3 0.01
12 18 0.04
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18358182 original size:167 final size:173
Alignment explanation
Indices: 18357734--18358210 Score: 616
Period size: 167 Copynumber: 2.8 Consensus size: 173
18357724 AGTTAGGAAG
* * * * * * *
18357734 GTTATGTATTATGTAAGTTATTTAAGTTATGTAA-GTTGTGTAAGTTATTTAA--TATGTAAGTT
1 GTTATGTATTATGTAAATAATGTAAGTTA-GGAAGGTTATGT-A-TTATGTAAGTTATTTAAGTT
18357796 ATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTAT
63 ATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTAT
*** * * *
18357861 GTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATTTAAGTTATGTAG
128 GTAAGTTATGTAAG-TAAAAAAATTATGTAAGTTA-TT-AGTTATCTAA
**
18357910 GCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATG
1 GTTATGTATTATGTAAATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATG
* * * *
18357975 TAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
66 TAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
*
18358040 AGTTAT-TTAG-AAAAAAATTATGTAAGTTA-T-G-TA-CTAA
131 AGTTATGTAAGTAAAAAAATTATGTAAGTTATTAGTTATCTAA
18358077 GTTATGTATTATGTAAATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATG
1 GTTATGTATTATGTAAATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATG
* * *
18358142 TAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGCAAGTT-TCT-ATATATGTA
66 TAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
18358205 AGTTAT
131 AGTTAT
18358211 ATATTGTATG
Statistics
Matches: 269, Mismatches: 29, Indels: 17
0.85 0.09 0.05
Matches are distributed among these distances:
165 14 0.05
166 2 0.01
167 111 0.41
168 2 0.01
169 1 0.00
171 1 0.00
173 15 0.06
174 7 0.03
175 7 0.03
176 109 0.41
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (173 bp):
GTTATGTATTATGTAAATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATG
TAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
AGTTATGTAAGTAAAAAAATTATGTAAGTTATTAGTTATCTAA
Found at i:18358207 original size:16 final size:16
Alignment explanation
Indices: 18358183--18358246 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
18358173 TTATGTAAGT
* *
18358183 TATGCAAGTTTCTATA
1 TATGTAAGTTTATATA
18358199 TATGTAAG-TTATATA
1 TATGTAAGTTTATATA
* *
18358214 T-TGTATG-TTATGTA
1 TATGTAAGTTTATATA
18358228 TTATGTAAGTTTATATA
1 -TATGTAAGTTTATATA
18358245 TA
1 TA
18358247 AGTTATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 11 0.28
15 8 0.21
16 14 0.36
17 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (16 bp):
TATGTAAGTTTATATA
Found at i:18358223 original size:14 final size:14
Alignment explanation
Indices: 18358195--18358257 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
18358185 TGCAAGTTTC
18358195 TATATA-TGTAAGT
1 TATATATTGTAAGT
*
18358208 TATATATTGTATGT
1 TATATATTGTAAGT
*
18358222 TATGTATTATGTAAGT
1 TATATA-T-TGTAAGT
*
18358238 T-TATA-TATAAGT
1 TATATATTGTAAGT
18358250 TATGATAT
1 TAT-ATAT
18358258 ATATTATTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 7 0.18
13 7 0.18
14 14 0.36
15 4 0.10
16 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (14 bp):
TATATATTGTAAGT
Found at i:18358263 original size:33 final size:30
Alignment explanation
Indices: 18358195--18358264 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 30
18358185 TGCAAGTTTC
* *
18358195 TATA-TATGTAAGTTATATATTGTATGTTA
1 TATATTATGTAAGTTATATATAGTATGATA
*
18358224 TGTATTATGTAAGTTTATATATAAGTTATGATA
1 TATATTATGTAAG-TTATATAT-AG-TATGATA
18358257 TATATTAT
1 TATATTAT
18358265 TGATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 8 0.24
31 8 0.24
32 1 0.03
33 13 0.39
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (30 bp):
TATATTATGTAAGTTATATATAGTATGATA
Found at i:18361354 original size:14 final size:14
Alignment explanation
Indices: 18361336--18361368 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18361326 TAGAACATAT
18361336 ATAAACCCTAAATC
1 ATAAACCCTAAATC
*
18361350 CTAAACCCTAAATC
1 ATAAACCCTAAATC
18361364 ATAAA
1 ATAAA
18361369 ACATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAACCCTAAATC
Found at i:18361394 original size:39 final size:40
Alignment explanation
Indices: 18361311--18361395 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 40
18361301 ACCATATTCA
* * * *
18361311 TTAAACCATGAATAATAGAACATATATAAACCCTAAATCC
1 TTAAACCATAAATAATAAAACATATATAAAACATAAATCC
* * *
18361351 -TAAACCCTAAATCATAAAACATATATAAAATATAAA-CC
1 TTAAACCATAAATAATAAAACATATATAAAACATAAATCC
18361389 TTAAACC
1 TTAAACC
18361396 TCAACCCTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAACCATAAATAATAAAACATATATAAAACATAAATCC
Found at i:18373631 original size:11 final size:12
Alignment explanation
Indices: 18373616--18373646 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
18373606 TAAATGATAT
18373616 TTTATTATTTTA
1 TTTATTATTTTA
18373628 -TTATTATTTTA
1 TTTATTATTTTA
18373639 TTTATTAT
1 TTTATTAT
18373647 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:18376301 original size:50 final size:50
Alignment explanation
Indices: 18376246--18376637 Score: 504
Period size: 50 Copynumber: 7.9 Consensus size: 50
18376236 CATTGAGATT
18376246 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
18376296 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
18376346 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
18376396 ATGAGAGGTCCC--GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
18376444 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*** * * * *
18376494 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * * * *
18376544 ATGAGAACTCCCATGTAAGACCATATCTAGGATATGACATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AG
* * ** * * *
18376593 ATAAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
18376638 TGTTATTATC
Statistics
Matches: 303, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
48 47 0.16
49 35 0.12
50 221 0.73
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:18376431 original size:148 final size:149
Alignment explanation
Indices: 18376246--18376627 Score: 493
Period size: 148 Copynumber: 2.6 Consensus size: 149
18376236 CATTGAGATT
*
18376246 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
1 ATGAGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCATG
* * **
18376311 TAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCTATGTAAGACCATGTCTGG
65 TAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCACATAAGACCATGTCTGG
18376376 GACATGGCGTTGGCACCAAG
130 GACATGGCGTTGGCACCAAG
18376396 ATGAGAGGTCCC-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCATGT
1 ATGAGAGGTCCCAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCATGT
* *
18376460 AAGACCATGTCTGGGACATGGCGTTGACACCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGG
66 AAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCACATAAGACCATGTCTGGG
* * * * *
18376525 ACATGACATGGGCACCGAT
131 ACATGGCGTTGGCACCAAG
** * * * * * * * *
18376544 ATGAGAACTCCCATGTAAGACCATATCTAGGATATGACATTGGCA--GTACAT-AAAACATCCCA
1 ATGAGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAA-GTCCCA
*
18376606 TGTAAGACTATGTCTGGGACAT
63 TGTAAGACCATGTCTGGGACAT
18376628 AGCTTTGGCA
Statistics
Matches: 205, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
148 138 0.67
149 29 0.14
150 38 0.19
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (149 bp):
ATGAGAGGTCCCAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCATGT
AAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCACATAAGACCATGTCTGGG
ACATGGCGTTGGCACCAAG
Found at i:18378645 original size:11 final size:12
Alignment explanation
Indices: 18378630--18378660 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
18378620 TAAATGATAT
18378630 TTTATTATTTTA
1 TTTATTATTTTA
18378642 -TTATTATTTTA
1 TTTATTATTTTA
18378653 TTTATTAT
1 TTTATTAT
18378661 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:18382736 original size:41 final size:41
Alignment explanation
Indices: 18382690--18382782 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
18382680 ACCGACTTTT
* *
18382690 AGCCTGCTAGACTTATAGTCCG-A-AATGTATCACCGGAATTA
1 AGCCTGCTAGACGTATAGTCCGAATAAT-T-TCACCGGAATCA
* *
18382731 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATCA
1 AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGAATCA
18382772 AGCCTGCTAGA
1 AGCCTGCTAGA
18382783 AATAAAGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 41 0.89
42 2 0.04
43 3 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGAATCA
Found at i:18382796 original size:41 final size:41
Alignment explanation
Indices: 18382719--18382804 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
18382709 CCGAAATGTA
* ** *
18382719 TCACCGGAATTAAGCCTGCTAGACGTATAGTCTGAATAATT
1 TCACCGGAATCAAGCCTGCTAGAAATAAAGTCTGAATAATT
* * *
18382760 TCACCGGCATCAAGCCTGCTAGAAATAAAGTTTGAATTATT
1 TCACCGGAATCAAGCCTGCTAGAAATAAAGTCTGAATAATT
18382801 TCAC
1 TCAC
18382805 TGACAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
TCACCGGAATCAAGCCTGCTAGAAATAAAGTCTGAATAATT
Found at i:18388671 original size:50 final size:50
Alignment explanation
Indices: 18388546--18388784 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 50
18388536 GATAATAACA
* * ** * * * *
18388546 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* * * **
18388595 TGCAAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* ** ** * * **
18388645 TGCCCATGCCATGTCGTAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* *
18388695 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TC---AG
*
18388751 TGTCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
18388785 GGATCTCATT
Statistics
Matches: 148, Mismatches: 35, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
49 37 0.25
50 77 0.52
53 1 0.01
56 33 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
Found at i:18391688 original size:23 final size:24
Alignment explanation
Indices: 18391658--18391715 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
18391648 TGTCACAAGT
* *
18391658 GAATTAATTCACAAACGA-GTTTA
1 GAATTAATTCAAAAAAGAGGTTTA
*
18391681 GAATTAATTCAAAAAATAGGTTTA
1 GAATTAATTCAAAAAAGAGGTTTA
18391705 GAATTAATTCA
1 GAATTAATTCA
18391716 TCTTGGGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (24 bp):
GAATTAATTCAAAAAAGAGGTTTA
Found at i:18403419 original size:25 final size:25
Alignment explanation
Indices: 18403381--18403463 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
18403371 TCGTATGAAA
* * * *
18403381 TTACCGATACTCAGTTCACATGAGC
1 TTACCGTTATTCAGCTCAGATGAGC
* *
18403406 TTACCGTTATTCAGCTCGGAGGAGC
1 TTACCGTTATTCAGCTCAGATGAGC
18403431 TTACCGTTATTCTA-CTCAGATGAGC
1 TTACCGTTATTC-AGCTCAGATGAGC
18403456 TTACCGTT
1 TTACCGTT
18403464 TATAGCTCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 48 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCAGATGAGC
Found at i:18405563 original size:10 final size:10
Alignment explanation
Indices: 18405540--18405587 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18405530 GAATATGTCA
* *
18405540 AAAATAAATC
1 AAAATTAATT
18405550 AAAATTAATT
1 AAAATTAATT
*
18405560 AAAATGTATTAT
1 AAAAT-TAAT-T
18405572 AAAATTAATT
1 AAAATTAATT
18405582 AAAATT
1 AAAATT
18405588 CAACATGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:18409714 original size:19 final size:19
Alignment explanation
Indices: 18409690--18409800 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
18409680 AATCTTCAGG
18409690 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18409709 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
18409728 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18409747 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
**
18409766 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18409785 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
18409801 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18409740 original size:38 final size:38
Alignment explanation
Indices: 18409697--18409800 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
18409687 AGGGATATGC
18409697 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
18409735 AATCTTAGATATGATATGCAATCCTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
18409773 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
18409801 AGATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:18409826 original size:22 final size:22
Alignment explanation
Indices: 18409779--18409823 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
18409769 ATATAATCTT
*
18409779 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
18409801 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
18409824 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:18410021 original size:46 final size:47
Alignment explanation
Indices: 18409928--18410021 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 47
18409918 CCCTTCATTG
**
18409928 TAAAAAAAAAGAGAGGAGGAATAAAAAAAAGAGAACGATTGGTAGTT
1 TAAAAAAAAAGAGAGGAGGAATAAAAAAAAGAGAACGATTGACAGTT
*
18409975 TAAAGAAAAA-AGAGGAGGAATAAAAAAAAGAGAACGATTGACAGTT
1 TAAAAAAAAAGAGAGGAGGAATAAAAAAAAGAGAACGATTGACAGTT
18410021 T
1 T
18410022 TTTAAAGGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 35 0.80
47 9 0.20
ACGTcount: A:0.57, C:0.03, G:0.24, T:0.15
Consensus pattern (47 bp):
TAAAAAAAAAGAGAGGAGGAATAAAAAAAAGAGAACGATTGACAGTT
Found at i:18410497 original size:24 final size:25
Alignment explanation
Indices: 18410456--18410503 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
18410446 TGTACATATA
18410456 TATATTTTTTAAACGAATATTTTCC
1 TATATTTTTTAAACGAATATTTTCC
*
18410481 TATATTTTTT-AATGAATATTTTC
1 TATATTTTTTAAACGAATATTTTC
18410504 ATATTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATTTTTTAAACGAATATTTTCC
Found at i:18417328 original size:132 final size:132
Alignment explanation
Indices: 18416655--18417302 Score: 1091
Period size: 132 Copynumber: 4.9 Consensus size: 132
18416645 TTGACAGCAA
*
18416655 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
18416720 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
18416785 GG
131 GG
*
18416787 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
18416852 TATACTTCTCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
18416917 GG
131 GG
* *
18416919 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
18416984 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGC
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
18417049 GG
131 GG
* * *
18417051 AGCAGATCGAAGATAGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
18417116 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGC
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
18417181 GG
131 GG
* * *
18417183 AGCAGATCGAAGATAGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAATCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
18417248 TCTACTTCTCTGGGCAGCAGTGGAATAGATTGAAGATTGTGA-ATCCTATCTCCCT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
18417303 TGTCAGTAGT
Statistics
Matches: 492, Mismatches: 23, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
132 490 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
GG
Found at i:18417679 original size:19 final size:19
Alignment explanation
Indices: 18417655--18417765 Score: 179
Period size: 19 Copynumber: 5.8 Consensus size: 19
18417645 AATCTTCAGG
18417655 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18417674 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18417693 AATATAG-AATCTTAGATAT
1 GATAT-GCAATCTTAGATAT
18417712 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
18417731 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18417750 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
18417766 AGATATGATT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
18 1 0.01
19 82 0.98
20 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18417791 original size:22 final size:21
Alignment explanation
Indices: 18417655--18417791 Score: 107
Period size: 19 Copynumber: 6.9 Consensus size: 21
18417645 AATCTTCAGG
*
18417655 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
18417674 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
18417693 AATATAG-AATCTT--AGATAT
1 GATAT-GTAATCTTAGAGATAT
*
18417712 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
18417731 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
18417750 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
18417772 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
18417792 TTAATTTGTA
Statistics
Matches: 104, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.01
19 79 0.76
20 1 0.01
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:18422538 original size:79 final size:81
Alignment explanation
Indices: 18422402--18422586 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
18422392 TTGAATGATG
* *
18422402 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
18422466 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
18422481 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
18422543 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
18422561 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18422587 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:18422600 original size:40 final size:40
Alignment explanation
Indices: 18422403--18422586 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
18422393 TGAATGATGT
* * * *
18422403 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
18422443 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
18422483 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
18422521 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
18422562 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18422587 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:18422608 original size:79 final size:79
Alignment explanation
Indices: 18422455--18422619 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
18422445 GGACTAAGAT
* * **
18422455 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18422520 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18422534 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18422597 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18422613 CCGAAGG
1 CCGAAGG
18422620 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18430590 original size:79 final size:81
Alignment explanation
Indices: 18430454--18430638 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
18430444 TTGAATGATG
* *
18430454 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
18430518 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
18430533 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
18430595 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
18430613 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18430639 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:18430652 original size:40 final size:40
Alignment explanation
Indices: 18430455--18430638 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
18430445 TGAATGATGT
* * * *
18430455 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
18430495 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
18430535 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
18430573 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
18430614 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18430639 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:18430660 original size:79 final size:79
Alignment explanation
Indices: 18430507--18430671 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
18430497 GGACTAAGAT
* * **
18430507 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18430572 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18430586 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18430649 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18430665 CCGAAGG
1 CCGAAGG
18430672 TACGTGAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18432098 original size:16 final size:16
Alignment explanation
Indices: 18432077--18432107 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18432067 ATTTAATTTA
18432077 AATTAATTAATTTTCC
1 AATTAATTAATTTTCC
18432093 AATTAATTAATTTTC
1 AATTAATTAATTTTC
18432108 TCAACCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTAATTTTCC
Found at i:18441578 original size:15 final size:15
Alignment explanation
Indices: 18441558--18441591 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18441548 GTTTAACTAC
*
18441558 AGTTTCATAATCTAT
1 AGTTTCACAATCTAT
*
18441573 AGTTTCACGATCTAT
1 AGTTTCACAATCTAT
18441588 AGTT
1 AGTT
18441592 CCAGTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (15 bp):
AGTTTCACAATCTAT
Found at i:18443612 original size:51 final size:51
Alignment explanation
Indices: 18443536--18443641 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
18443526 GTTTTGAAGC
*
18443536 TTTTAAGTGCACTTAATCACAGGAATCAATAGTGTTAATAGAATTATCTGA
1 TTTTAAGTGCACTTAATCACAGGAATCAAGAGTGTTAATAGAATTATCTGA
*
18443587 TTTTAAGTGCACTTAATCACAGGAATCAAGAGTGTTAGTAGAATTATCTGA
1 TTTTAAGTGCACTTAATCACAGGAATCAAGAGTGTTAATAGAATTATCTGA
18443638 TTTT
1 TTTT
18443642 TCCACTAATC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (51 bp):
TTTTAAGTGCACTTAATCACAGGAATCAAGAGTGTTAATAGAATTATCTGA
Found at i:18456578 original size:27 final size:27
Alignment explanation
Indices: 18456547--18456622 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
18456537 TGGCATCAAA
18456547 GATAGTCTAACG-GAATCTTAAACACGG
1 GATAGTCTAACGAGAAT-TTAAACACGG
* * * *
18456574 GATAGTTTGACGAGACTTTAAACATGG
1 GATAGTCTAACGAGAATTTAAACACGG
* *
18456601 GATAATCTAACGAGACTTTAAA
1 GATAGTCTAACGAGAATTTAAA
18456623 AAATGGATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 38 0.93
28 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (27 bp):
GATAGTCTAACGAGAATTTAAACACGG
Found at i:18456622 original size:54 final size:54
Alignment explanation
Indices: 18456547--18456660 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
18456537 TGGCATCAAA
* * * **
18456547 GATAGTCTAACGGAATCTTAAACACGGGATAGTTTGACGAGACTTTAAACATGG
1 GATAATCTAACGGAATCTTAAAAAAGGGATAGTCAGACGAGACTTTAAACATGG
* * *
18456601 GATAATCTAACGAGACT-TTAAAAAATGGATAGTCAGACGGGACTTTAAACATGG
1 GATAATCTAACG-GAATCTTAAAAAAGGGATAGTCAGACGAGACTTTAAACATGG
*
18456655 GGTAAT
1 GATAAT
18456661 TCATCGGGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 47 0.94
55 3 0.06
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (54 bp):
GATAATCTAACGGAATCTTAAAAAAGGGATAGTCAGACGAGACTTTAAACATGG
Found at i:18456630 original size:27 final size:28
Alignment explanation
Indices: 18456582--18456649 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
18456572 GGGATAGTTT
*
18456582 GACGAGACTTT-AAACATGGGATAATCTA
1 GACGAGACTTTAAAAAATGGGATAATC-A
*
18456610 -ACGAGACTTTAAAAAAT-GGATAGTCA
1 GACGAGACTTTAAAAAATGGGATAATCA
*
18456636 GACGGGACTTTAAA
1 GACGAGACTTTAAA
18456650 CATGGGGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 1 0.03
27 29 0.83
28 5 0.14
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (28 bp):
GACGAGACTTTAAAAAATGGGATAATCA
Found at i:18461845 original size:38 final size:39
Alignment explanation
Indices: 18461802--18461887 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 39
18461792 TGTCCCCAAA
* *
18461802 TTGGAGTGTTTGGATGGACGAGTTAT--GAGAACTCAATT
1 TTGGAGTGTTTAGATGGACAAGTTATAGGA-AACTCAATT
* *
18461840 TTGGAGTGTTTATATGGACAAGTTCTAGGAAACTCAATT
1 TTGGAGTGTTTAGATGGACAAGTTATAGGAAACTCAATT
*
18461879 TTGAAGTGT
1 TTGGAGTGT
18461888 AGCGGTGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 22 0.54
39 17 0.41
40 2 0.05
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (39 bp):
TTGGAGTGTTTAGATGGACAAGTTATAGGAAACTCAATT
Found at i:18464945 original size:30 final size:28
Alignment explanation
Indices: 18464909--18464989 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 28
18464899 ACGCCTGAAT
18464909 TTTTAAATTTAAAAACTAGAAAGATTAAA
1 TTTTAAATTTAAAAA-TAGAAAGATTAAA
** *
18464938 TTCTTAAAAATAAAAATATG-ATGATTAAA
1 TT-TTAAATTTAAAAATA-GAAAGATTAAA
18464967 TTTTAAATATATAAAAAATAGAA
1 TTTTAAAT-T-T-AAAAATAGAA
18464990 TAAATTCGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
28 5 0.12
29 14 0.34
30 14 0.34
31 8 0.20
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (28 bp):
TTTTAAATTTAAAAATAGAAAGATTAAA
Found at i:18467984 original size:19 final size:19
Alignment explanation
Indices: 18467962--18467998 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18467952 CCAATTTTCC
18467962 ATAATTTTATATATTTTTT
1 ATAATTTTATATATTTTTT
* *
18467981 ATAATTTTTTTTATTTTT
1 ATAATTTTATATATTTTT
18467999 CAATTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
ATAATTTTATATATTTTTT
Found at i:18469853 original size:18 final size:18
Alignment explanation
Indices: 18469830--18469882 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
18469820 GATTTTGTAT
18469830 TTTTATAATTTTATATTG
1 TTTTATAATTTTATATTG
* *
18469848 TTTTATACTTTTTGTAATTG
1 TTTTATA-ATTTTAT-ATTG
18469868 -TTT-TAATTTTATATT
1 TTTTATAATTTTATATT
18469883 TTTATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 5 0.17
18 9 0.31
19 8 0.28
20 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTTATAATTTTATATTG
Found at i:18478395 original size:29 final size:28
Alignment explanation
Indices: 18478359--18478436 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
18478349 TCATGAGATT
18478359 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
18478389 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
18478416 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
18478437 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:18478703 original size:173 final size:174
Alignment explanation
Indices: 18478389--18478715 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
18478379 AAATTGTACA
* *
18478389 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
18478454 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
18478519 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
18478563 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
18478628 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
18478692 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
18478716 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:18486555 original size:29 final size:28
Alignment explanation
Indices: 18486519--18486596 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
18486509 TCATGAGATT
18486519 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
18486549 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
18486576 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
18486597 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:18486863 original size:173 final size:174
Alignment explanation
Indices: 18486549--18486875 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
18486539 AAATTGTACA
* *
18486549 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
18486614 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
18486679 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
18486723 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
18486788 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
18486852 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
18486876 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:18497099 original size:26 final size:26
Alignment explanation
Indices: 18497066--18497117 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
18497056 CGAATAGCTT
18497066 CGAAGAGCCAT-TAATCGGGAAGCTCA
1 CGAAGAGCCATATAA-CGGGAAGCTCA
*
18497092 CGAAGAGCCATATAACGGGACGCTCA
1 CGAAGAGCCATATAACGGGAAGCTCA
18497118 TAAGAGCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.35, C:0.25, G:0.27, T:0.13
Consensus pattern (26 bp):
CGAAGAGCCATATAACGGGAAGCTCA
Found at i:18497616 original size:5 final size:5
Alignment explanation
Indices: 18497587--18497625 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
18497577 TAAATTTAAC
* *
18497587 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
18497626 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:18506020 original size:25 final size:26
Alignment explanation
Indices: 18505991--18506065 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
18505981 AGCGAGCCGT
**
18505991 ATCGGGTAGCTC-CGGAGAGCCATTA
1 ATCGGGTAGCTCACAAAGAGCCATTA
* *
18506016 ATCGGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGTAGCTCACAAAGAGCCATTA
*
18506042 ATCAGGTAGCTCA-AGAAGAGCCAT
1 ATCGGGTAGCTCACA-AAGAGCCAT
18506066 ATAACGGTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 12 0.29
26 29 0.71
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.19
Consensus pattern (26 bp):
ATCGGGTAGCTCACAAAGAGCCATTA
Found at i:18506165 original size:24 final size:24
Alignment explanation
Indices: 18506138--18506184 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18506128 GGATGCTCCG
*
18506138 AAGAGCTAT-TAACGGGAAGCTCGC
1 AAGAACTATATAACGGGAA-CTCGC
*
18506162 AAGAACTATATAAGGGGAACTCG
1 AAGAACTATATAACGGGAACTCG
18506185 AGAGGGCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (24 bp):
AAGAACTATATAACGGGAACTCGC
Found at i:18521441 original size:17 final size:18
Alignment explanation
Indices: 18521411--18521444 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18521401 AGATATTTTG
*
18521411 ATAATTTCACATTTAAAA
1 ATAATTTCAAATTTAAAA
18521429 ATAA-TTCAAATTTAAA
1 ATAATTTCAAATTTAAA
18521445 TTGCATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTTCAAATTTAAAA
Found at i:18523946 original size:19 final size:19
Alignment explanation
Indices: 18523922--18523975 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
18523912 AATCTTCAAG
18523922 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18523941 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18523960 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
18523976 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18523951 original size:36 final size:36
Alignment explanation
Indices: 18523911--18523982 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
18523901 TATGGAAACA
18523911 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
18523947 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
18523983 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:18523966 original size:38 final size:40
Alignment explanation
Indices: 18523922--18523998 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
18523912 AATCTTCAAG
18523922 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
18523960 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
18523999 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:18524225 original size:23 final size:23
Alignment explanation
Indices: 18524181--18524225 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18524171 TCTTATTTTG
* *
18524181 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
18524204 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
18524226 CAAATCTCTT
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:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:18524470 original size:13 final size:13
Alignment explanation
Indices: 18524452--18524487 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18524442 ATCTTGTATC
*
18524452 ATTATTATTATTT
1 ATTATTTTTATTT
18524465 ATTATTTTTATTT
1 ATTATTTTTATTT
18524478 -TTATTTTTAT
1 ATTATTTTTAT
18524488 ATTCATGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:18531130 original size:88 final size:88
Alignment explanation
Indices: 18530977--18531682 Score: 1038
Period size: 88 Copynumber: 8.0 Consensus size: 88
18530967 GTGAAGATAA
* * * * * *
18530977 CAGATCTTGCCTTCTTGCACCGGCAGCAAAGCAGATCGAAGACACCAACCTTGCTTCCATGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
18531042 GTAGCGGAGTACGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
18531065 CAGATATTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCGTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
18531130 GCAGCGGAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
18531153 CAGATCTTGCCTTCCTGCACTGACAGCGAATCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
18531218 GCAGCGGAGCAGGTTAAAAATTA-
66 GCAGCGGAGCAGGTTAAAAA-TAG
* *
18531241 CAAATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* **
18531306 ACAGTAGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
18531329 CAGATCTTGCCTTCCTGCACCGACAGCGAAGTAAATCGAAGACACCAACCTTGCCTCTCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
18531394 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
18531417 CATATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
18531482 GCAGCGGAGCAGGTTAAAAATTA-
66 GCAGCGGAGCAGGTTAAAAA-TAG
*
18531505 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
18531570 GCAGCGGAGCAAGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
18531593 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
18531658 GTAGCGGAGCAAGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
18531681 CA
1 CA
18531683 AATCGAAGAC
Statistics
Matches: 559, Mismatches: 55, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
87 4 0.01
88 551 0.99
89 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:18531208 original size:44 final size:44
Alignment explanation
Indices: 18531158--18531652 Score: 162
Period size: 44 Copynumber: 11.2 Consensus size: 44
18531148 AATAGCAGAT
* *
18531158 CTTGCCTTCCTGCACTGACAGCGAATCAGATCGAAGATACCAGC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
** * * ** * * **
18531202 CTTGCCTCCCTAG-GTTG-CAGCGGAGCAGGTTAAAAATTACAAAT
1 CTTGCCTCCCT-GCACTGACAGCGAAGCAGATCGAAGA-TACCAGC
* * * *
18531246 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
** * * * ** * * *
18531290 CTTGCCTCCCTG-GGTTACAG-TAGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCACTGACAGCGA-AGCAGATCGAAGATACCAG-C
* * * * * *
18531334 CTTGCCTTCCTGCACCGACAGCGAAGTAAATCGAAGACACCAAC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
* *** * * * ** * * **
18531378 CTTGCCTCTCTGGGTTG-TAGCGGAGCAGGTTAAAAATAGCATAT
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCA-GC
* * * *
18531422 CTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
*** * * ** * *
18531466 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATTA-CAGAT
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGA-TACCAG-C
* * * *
18531510 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
*** * ** * * *
18531554 CTTGCCTCCCTGGGTTG-CAGCGGAGCA-AGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGA-TCGAAGATACCAG-C
* ** * *
18531598 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAAC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
18531642 CTTGCCTCCCT
1 CTTGCCTCCCT
18531653 AGGTTGTAGC
Statistics
Matches: 290, Mismatches: 143, Indels: 36
0.62 0.30 0.08
Matches are distributed among these distances:
42 2 0.01
43 78 0.27
44 132 0.46
45 76 0.26
46 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGC
Found at i:18531715 original size:57 final size:57
Alignment explanation
Indices: 18531622--18531737 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
18531612 CCAACAGCGA
*
18531622 AGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTGTAGCGGAGCAAGTTAAAAAT
1 AGCAAATCGAAGACACCAACCTTGCCTCCCTAGGTTGTAGCGGAGCAAGTTAAAAAT
* * * *
18531679 AGCAAATCGAAGACACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAAGTTAAAAAT
1 AGCAAATCGAAGACACCAACCTTGCCTCCCTAGGTTGTAGCGGAGCAAGTTAAAAAT
18531736 AG
1 AG
18531738 TAGATCTTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (57 bp):
AGCAAATCGAAGACACCAACCTTGCCTCCCTAGGTTGTAGCGGAGCAAGTTAAAAAT
Found at i:18531837 original size:44 final size:44
Alignment explanation
Indices: 18531787--18531908 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
18531777 TGACCCCAAC
**
18531787 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAA-T
*
18531831 CCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAAT
*
18531875 CCTATCTCCCT-GAGCAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGGA-CAACAGTGGAATAGGTTGAA
18531909 AATAGCAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 1 0.01
44 68 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:18532030 original size:50 final size:50
Alignment explanation
Indices: 18531976--18532079 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 50
18531966 ATCGCTTTGA
* * *
18531976 CGTTGCAATAGAAAATATTGAAGCCACAACGGCGAATCTTATTTCCCTGG
1 CGTTGCAACAGAAAAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGG
* * * ** *
18532026 CGTTGTAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGG
1 CGTTGCAACAGAAAAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGG
18532076 CGTT
1 CGTT
18532080 AAGGCTTGGA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (50 bp):
CGTTGCAACAGAAAAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGG
Found at i:18532568 original size:44 final size:44
Alignment explanation
Indices: 18532489--18532600 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
18532479 GAAGATGGCG
* *
18532489 AATCTTATCTCCTTGAAGTTGCAGTGGAAAAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTAAAACCACA
* *** *
18532532 TAATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTAAAACCACA
* *
18532577 GATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
18532601 AGAGCAGATC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 56 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTAAAACCACA
Found at i:18532741 original size:45 final size:45
Alignment explanation
Indices: 18532618--18532723 Score: 167
Period size: 45 Copynumber: 2.4 Consensus size: 45
18532608 ATCGCATCGG
* * *
18532618 GTCTTATCTCCCTGAAGTTGCAATGGAGTAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAGTTGCAATGGAGAAGACTCAAGAAAGCAA
*
18532663 GTCTTATCTCCCTGAAGTTGCAATGGAGAAGACTCAAGAAATCAA
1 GTCTTATCTCCCTGAAGTTGCAATGGAGAAGACTCAAGAAAGCAA
*
18532708 GTCTTATCCCCCTGAA
1 GTCTTATCTCCCTGAA
18532724 ATTACAGTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAATGGAGAAGACTCAAGAAAGCAA
Found at i:18533316 original size:19 final size:19
Alignment explanation
Indices: 18533292--18533345 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
18533282 AATCTTCAAG
18533292 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18533311 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18533330 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
18533346 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18533322 original size:36 final size:36
Alignment explanation
Indices: 18533281--18533352 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
18533271 TATGAAAACA
18533281 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
18533317 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
18533353 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:18533336 original size:38 final size:40
Alignment explanation
Indices: 18533292--18533368 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
18533282 AATCTTCAAG
18533292 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
18533330 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
18533369 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:18533595 original size:23 final size:23
Alignment explanation
Indices: 18533551--18533595 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18533541 TCTTATTTTG
* *
18533551 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
18533574 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
18533596 CAAATCTCTT
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:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:18533837 original size:10 final size:10
Alignment explanation
Indices: 18533822--18533853 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18533812 TCTTGTATCA
18533822 TTATTATTAT
1 TTATTATTAT
18533832 TTATTATTAT
1 TTATTATTAT
18533842 TT-TTATT-T
1 TTATTATTAT
18533850 TTAT
1 TTAT
18533854 ATTCATGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 6 0.29
10 12 0.57
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTATTAT
Found at i:18535818 original size:18 final size:18
Alignment explanation
Indices: 18535790--18535824 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18535780 CTTCTAGAAT
18535790 TTCTATCATTTTGTTTGCG
1 TTCTATCATTTT-TTTGCG
18535809 TTCT-TCATTTTTTTGC
1 TTCTATCATTTTTTTGC
18535825 ATTTTGGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.09, C:0.17, G:0.11, T:0.63
Consensus pattern (18 bp):
TTCTATCATTTTTTTGCG
Found at i:18536221 original size:42 final size:42
Alignment explanation
Indices: 18536162--18536302 Score: 194
Period size: 42 Copynumber: 3.3 Consensus size: 42
18536152 ACACGGCTAG
* *
18536162 GGACATGGGCATGTGCCCAGGCGGTGTGAGTCATATGGGCAA
1 GGACATGGGCATGTGCCCAGGCCGTGTGAGTCATACGGGCAA
* *
18536204 GGACATGGGCGTGTGCCCAGGCCGTGTGAGTCACACGGGCAA
1 GGACATGGGCATGTGCCCAGGCCGTGTGAGTCATACGGGCAA
* * *
18536246 GGACATGGGCATATGCCCAGGCCGTGAGAG-CCTCACGGGCAA
1 GGACATGGGCATGTGCCCAGGCCGTGTGAGTCAT-ACGGGCAA
18536288 GGACATGGGACATGT
1 GGACATGGG-CATGT
18536303 AACTCACTGT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 82 0.94
43 4 0.05
ACGTcount: A:0.22, C:0.23, G:0.39, T:0.16
Consensus pattern (42 bp):
GGACATGGGCATGTGCCCAGGCCGTGTGAGTCATACGGGCAA
Found at i:18536374 original size:42 final size:42
Alignment explanation
Indices: 18536326--18536415 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
18536316 CGCTTTAGAA
*
18536326 CCACAC-AGCCAAGGACATGAGCGTGTGCCCAGGCCATGTGAG
1 CCACACAAG-CAAGAACATGAGCGTGTGCCCAGGCCATGTGAG
* * * *
18536368 CCACACAAGTAAGAACATGGGCGTGTGCCTAGGCCGTGTGAG
1 CCACACAAGCAAGAACATGAGCGTGTGCCCAGGCCATGTGAG
18536410 CCACAC
1 CCACAC
18536416 GGGAAAGGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.13
Consensus pattern (42 bp):
CCACACAAGCAAGAACATGAGCGTGTGCCCAGGCCATGTGAG
Found at i:18536428 original size:42 final size:42
Alignment explanation
Indices: 18536336--18536436 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
18536326 CCACACAGCC
* *
18536336 AAGGACATGAGCGTGTGCCCAGGCCATGTGAGCCACACAAGT
1 AAGGACATGGGCGTGTGCCCAGGCCATGTGAGCCACACAAGA
* * * **
18536378 AAGAACATGGGCGTGTGCCTAGGCCGTGTGAGCCACACGGGA
1 AAGGACATGGGCGTGTGCCCAGGCCATGTGAGCCACACAAGA
*
18536420 AAGGACATGGGCATGTG
1 AAGGACATGGGCGTGTG
18536437 TCCAAGCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.27, C:0.23, G:0.36, T:0.15
Consensus pattern (42 bp):
AAGGACATGGGCGTGTGCCCAGGCCATGTGAGCCACACAAGA
Found at i:18537437 original size:30 final size:30
Alignment explanation
Indices: 18537401--18537466 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
18537391 TAAAAATACA
* *
18537401 TGCTCTGTTTTGCTCTGTTCTATTCTACT-T
1 TGCTCTGCTATGCTCTGTTCTATTC-ACTAT
* *
18537431 TGCTCTGCTATGTTCTGTTCTGTTCACTAT
1 TGCTCTGCTATGCTCTGTTCTATTCACTAT
18537461 TGCTCT
1 TGCTCT
18537467 ACTCTGTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.08, C:0.24, G:0.15, T:0.53
Consensus pattern (30 bp):
TGCTCTGCTATGCTCTGTTCTATTCACTAT
Found at i:18537475 original size:30 final size:30
Alignment explanation
Indices: 18537414--18537475 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
18537404 TCTGTTTTGC
*
18537414 TCTGTTCTATTCTACTTTGCTCTGCTATGT
1 TCTGTTCTATTCTACTTTGCTCTACTATGT
* *
18537444 TCTGTTCTGTTC-ACTATTGCTCTACTCTGT
1 TCTGTTCTATTCTACT-TTGCTCTACTATGT
18537474 TC
1 TC
18537476 CATCTTGTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.10, C:0.26, G:0.13, T:0.52
Consensus pattern (30 bp):
TCTGTTCTATTCTACTTTGCTCTACTATGT
Found at i:18541274 original size:38 final size:38
Alignment explanation
Indices: 18541229--18541460 Score: 310
Period size: 38 Copynumber: 6.1 Consensus size: 38
18541219 TGTTATACTC
*
18541229 TCTGTTTGGCGATTCGATTGGATCAGCTCTTATGAGCT
1 TCTGTTTGGCGATTCGGTTGGATCAGCTCTTATGAGCT
*
18541267 TCTGTTTGGCGTTTCGGTTGGATCAGCTCTT-TGGAGCT
1 TCTGTTTGGCGATTCGGTTGGATCAGCTCTTAT-GAGCT
*
18541305 TCTGTTTGGC-ATTTCGGTTGGATCAGCTCTGATGAGCT
1 TCTGTTTGGCGA-TTCGGTTGGATCAGCTCTTATGAGCT
* ** * *
18541343 TCTATTTTACGTTTCAGTTGGATCAGCTCTTATGAGCT
1 TCTGTTTGGCGATTCGGTTGGATCAGCTCTTATGAGCT
* *
18541381 GT-TTTTTGGCGATTCGGTTGGATCAGCTC-TGTGAGCT
1 -TCTGTTTGGCGATTCGGTTGGATCAGCTCTTATGAGCT
*
18541418 TCTGTTTGGCGATTCGGTTGGATCAGCTCTTATGAGGT
1 TCTGTTTGGCGATTCGGTTGGATCAGCTCTTATGAGCT
18541456 TCTGT
1 TCTGT
18541461 CTGGTGTGTT
Statistics
Matches: 168, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.01
37 34 0.20
38 131 0.78
39 2 0.01
ACGTcount: A:0.13, C:0.18, G:0.28, T:0.41
Consensus pattern (38 bp):
TCTGTTTGGCGATTCGGTTGGATCAGCTCTTATGAGCT
Found at i:18549340 original size:26 final size:26
Alignment explanation
Indices: 18549310--18549361 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18549300 TTATGAGTCA
18549310 AACATACCAAATTTTCAAGAGCTATG
1 AACATACCAAATTTTCAAGAGCTATG
18549336 AACATACCAAATTTTCAAGAGCTATG
1 AACATACCAAATTTTCAAGAGCTATG
18549362 TATCATGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (26 bp):
AACATACCAAATTTTCAAGAGCTATG
Found at i:18550648 original size:43 final size:43
Alignment explanation
Indices: 18550579--18550660 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
18550569 AAAGGCTCGT
***
18550579 ACAATGCCAACGTCCCAGAGGTGGTCTTAC-CTGTAATCAAATA
1 ACAATGCCAACGTCCCAGACAAGGTCTTACAC-GTAATCAAATA
18550622 ACAATGCC-ACTGTCCCAGACAAGGTCTTACACGTAATCA
1 ACAATGCCAAC-GTCCCAGACAAGGTCTTACACGTAATCA
18550661 TATATGACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.06
43 31 0.91
44 1 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
ACAATGCCAACGTCCCAGACAAGGTCTTACACGTAATCAAATA
Found at i:18551603 original size:8 final size:8
Alignment explanation
Indices: 18551590--18551617 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
18551580 TTTCATACTT
18551590 TTATTTTA
1 TTATTTTA
18551598 TTATTTTA
1 TTATTTTA
18551606 TTATTTTA
1 TTATTTTA
18551614 TTAT
1 TTAT
18551618 CAATTTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:18557006 original size:107 final size:105
Alignment explanation
Indices: 18556868--18557070 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 105
18556858 TGAGATATCC
* * *
18556868 CTTCAAATTCTCAATACTTGTTCTTGATGTCTAATG-ACATC-CTTTCAAAGTC-TCAAGACAAG
1 CTTCAAAGTCTCAAGACTCGTTCTTGATGTCT--TGAACATCTC-TTCAAAGTCTTCAA-ACAAG
18556930 TTGTCTTCTAAC-TATTATAATTTTCAACGATGTCTCAAAACATCA
62 TTGTCTTCTAACAT-TTAT-ATTTTCAACGATGTCTCAAAACATCA
* * **
18556975 CTTCAAAGTCTTAAGACTCGTTCTTGATGTCTTGAAACATCTCTTCAAAGTCTTGAAACATTTTG
1 CTTCAAAGTCTCAAGACTCGTTCTTGATGTCTTG-AACATCTCTTCAAAGTCTTCAAACAAGTTG
*
18557040 TCTTCTAACATTTATATTTTCAATGATGTCT
65 TCTTCTAACATTTATATTTTCAACGATGTCT
18557071 TGACACATCC
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
105 2 0.02
106 15 0.18
107 61 0.73
108 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (105 bp):
CTTCAAAGTCTCAAGACTCGTTCTTGATGTCTTGAACATCTCTTCAAAGTCTTCAAACAAGTTGT
CTTCTAACATTTATATTTTCAACGATGTCTCAAAACATCA
Found at i:18573853 original size:25 final size:25
Alignment explanation
Indices: 18573824--18573872 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18573814 TTGTGCGAAC
18573824 TCATGCTTTACGTCGTTATGCAAAG
1 TCATGCTTTACGTCGTTATGCAAAG
* *
18573849 TCATGCTTTACTTTGTTATGCAAA
1 TCATGCTTTACGTCGTTATGCAAA
18573873 CCTTTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (25 bp):
TCATGCTTTACGTCGTTATGCAAAG
Found at i:18575820 original size:6 final size:6
Alignment explanation
Indices: 18575803--18575831 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18575793 TTAAAATAAG
18575803 TATTAA -ATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA
18575832 AACTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TATTAA
Found at i:18580658 original size:147 final size:147
Alignment explanation
Indices: 18580391--18580686 Score: 486
Period size: 147 Copynumber: 2.0 Consensus size: 147
18580381 ATCAAAACAC
* * *
18580391 ACACGACACTTTTCTCCATACAGATAGTGTCTCCAAATCTTCCATGCTAATACTACGCAGCCAGT
1 ACACGACACTTTTCTCCATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAGT
* * *
18580456 TCCAAATCATGGGTTGGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGTTATAAC
66 TCCAAATCATGGGTTCGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGCTATAAA
*
18580521 CTTGCCCTTCTGCATAA
131 CTTACCCTTCTGCATAA
*
18580538 ACACGACACTTTTCTCTC-TACAGATAGTGTATCCAAATCTTTAATGCCAATACTACGCAGCCAG
1 ACACGACACTTTTCTC-CATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAG
*
18580602 TTCCAAATCATGGGTTCGATAGTTCCTCTCATGTGGTTTGAGTTAGCACGATGCATAAGCTATAA
65 TTCCAAATCATGGGTTCGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGCTATAA
*
18580667 ACTTACCCTTCTTCATAA
130 ACTTACCCTTCTGCATAA
18580685 AC
1 AC
18580687 CCACATCCAA
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
147 137 0.99
148 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (147 bp):
ACACGACACTTTTCTCCATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAGT
TCCAAATCATGGGTTCGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGCTATAAA
CTTACCCTTCTGCATAA
Found at i:18589900 original size:26 final size:25
Alignment explanation
Indices: 18589871--18589938 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
18589861 TATACATAGT
18589871 TGCTCACACAAGCTGTGAAATAGGTA-
1 TGCTCACACAAGCTGTGAAAT-GG-AC
* * *
18589897 TGCTGACACGAGTTGTGAAATGGACC
1 TGCTCACACAAGCTGTGAAATGGA-C
*
18589923 TACTCACACAAGCTGT
1 TGCTCACACAAGCTGT
18589939 AGGTCAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
26 30 0.91
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
TGCTCACACAAGCTGTGAAATGGAC
Found at i:18594520 original size:31 final size:31
Alignment explanation
Indices: 18594482--18594562 Score: 162
Period size: 31 Copynumber: 2.6 Consensus size: 31
18594472 CCAATGTGTA
18594482 GAATCCTAATAAAACTCTTTCAAGAGTAATT
1 GAATCCTAATAAAACTCTTTCAAGAGTAATT
18594513 GAATCCTAATAAAACTCTTTCAAGAGTAATT
1 GAATCCTAATAAAACTCTTTCAAGAGTAATT
18594544 GAATCCTAATAAAACTCTT
1 GAATCCTAATAAAACTCTT
18594563 AAAATTATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (31 bp):
GAATCCTAATAAAACTCTTTCAAGAGTAATT
Found at i:18595385 original size:20 final size:20
Alignment explanation
Indices: 18595360--18595425 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
18595350 TTACCACCTC
18595360 GAACCAACAATTCCCGCATT
1 GAACCAACAATTCCCGCATT
* ** * *
18595380 GAACCACCACTATGAGCCTC-TC
1 GAACCA--ACAAT-TCCCGCATT
18595402 GAACCAACAATTCCCGCATT
1 GAACCAACAATTCCCGCATT
18595422 GAAC
1 GAAC
18595426 ACTTTGGTAA
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
22 11 0.34
23 3 0.09
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.18
Consensus pattern (20 bp):
GAACCAACAATTCCCGCATT
Found at i:18599558 original size:25 final size:24
Alignment explanation
Indices: 18599524--18599577 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 24
18599514 GGTAGGCAAC
18599524 TTTTTTTTTGCGCTTTTTGCTTTT
1 TTTTTTTTTGCGCTTTTTGCTTTT
18599548 TCTTTTTTTTGCGCTTTTTGCTTTT
1 T-TTTTTTTTGCGCTTTTTGCTTTT
18599573 TTTTT
1 TTTTT
18599578 AAGAATAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTGCGCTTTTTGCTTTT
Found at i:18600129 original size:31 final size:31
Alignment explanation
Indices: 18600091--18600183 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
18600081 AGGCAAATTA
18600091 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
18600122 CAAGAGTAATTGAATCCTAGTAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
18600153 CAAAAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
18600184 AAAATTATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:18605245 original size:12 final size:12
Alignment explanation
Indices: 18605228--18605252 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18605218 CCCTAATCCC
18605228 TCAATTTTTCCT
1 TCAATTTTTCCT
18605240 TCAATTTTTCCT
1 TCAATTTTTCCT
18605252 T
1 T
18605253 GCTTATTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCAATTTTTCCT
Found at i:18611972 original size:40 final size:40
Alignment explanation
Indices: 18611930--18612068 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
18611920 TGGATTTCAG
* * *
18611930 GGGTACCAAAGTACAAATAGGGGCACGTATGTACAAATAG
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTACAAACAA
* * *
18611970 GGGTACCAAAGTACAAACAGGGGTACATATGTGCAAACAA
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTACAAACAA
* * * *
18612010 GGGTATCGAAGTGCAAACAAGGGCACGTATGTACAAACAA
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTACAAACAA
**
18612050 GGGTACTGAAGTACAAACA
1 GGGTACCAAAGTACAAACA
18612069 TTCAATAATT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.16
Consensus pattern (40 bp):
GGGTACCAAAGTACAAACAGGGGCACGTATGTACAAACAA
Found at i:18611983 original size:20 final size:20
Alignment explanation
Indices: 18611928--18611995 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
18611918 ATTGGATTTC
18611928 AGGGGTACCAAAGTACAAAT
1 AGGGGTACCAAAGTACAAAT
* ** *
18611948 AGGGGCACGTATGTACAAAT
1 AGGGGTACCAAAGTACAAAT
*
18611968 AGGGGTACCAAAGTACAAAC
1 AGGGGTACCAAAGTACAAAT
18611988 AGGGGTAC
1 AGGGGTAC
18611996 ATATGTGCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.15
Consensus pattern (20 bp):
AGGGGTACCAAAGTACAAAT
Found at i:18612006 original size:20 final size:20
Alignment explanation
Indices: 18611957--18612068 Score: 79
Period size: 20 Copynumber: 5.6 Consensus size: 20
18611947 TAGGGGCACG
* *
18611957 TATGTACAAATAGGGGTACCA
1 TATGTACAAACAAGGGTA-CA
* *
18611978 -AAGTACAAACAGGGGTACA
1 TATGTACAAACAAGGGTACA
*
18611997 TATGTGCAAACAAGGGTATCGA
1 TATGTACAAACAAGGGTA-C-A
* * *
18612019 -A-GTGCAAACAAGGGCACG
1 TATGTACAAACAAGGGTACA
18612037 TATGTACAAACAAGGGTAC-
1 TATGTACAAACAAGGGTACA
*
18612056 TGAAGTACAAACA
1 T-ATGTACAAACA
18612069 TTCAATAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.07
20 67 0.89
21 2 0.03
22 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (20 bp):
TATGTACAAACAAGGGTACA
Done.