Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 146 of 325
Found at i:47051586 original size:26 final size:26
Alignment explanation
Indices: 47051550--47051657 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
47051540 TGAAATGTCC
* *
47051550 ATCATGGAACATTTACCTAAACAAAT
1 ATCATGGAACATTTACCTAAACCATT
* * *
47051576 ATCATGGAACATTTACCCAACCCGTT
1 ATCATGGAACATTTACCTAAACCATT
* *
47051602 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
47051628 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
47051654 ATCA
1 ATCA
47051658 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:47051631 original size:52 final size:52
Alignment explanation
Indices: 47051550--47051657 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
47051540 TGAAATGTCC
*
47051550 ATCATGGAACATTTACCTAAACAAATATCATGGAACATTTACCCAACCCGTT
1 ATCATGGAACATTTACCTAAACAAATATCATGGAACATTTACCCAACCCATT
* * * * *
47051602 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACAAATATCATGGAACATTTACCCAACCCATT
47051654 ATCA
1 ATCA
47051658 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACAAATATCATGGAACATTTACCCAACCCATT
Found at i:47055807 original size:24 final size:25
Alignment explanation
Indices: 47055786--47055840 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
47055776 CCTACAAAAA
47055786 AACCCAACACCCCTAACCCAAATAAT
1 AACCCAA-ACCCCTAACCCAAATAAT
*
47055812 AA-CCAATCCCCTAACCCAAATAAT
1 AACCCAAACCCCTAACCCAAATAAT
47055836 AACCC
1 AACCC
47055841 CAAAACCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.13
Consensus pattern (25 bp):
AACCCAAACCCCTAACCCAAATAAT
Found at i:47056352 original size:7 final size:7
Alignment explanation
Indices: 47056337--47056375 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
47056327 CCCCAAACAC
*
47056337 CACCGTT
1 CACCATT
47056344 CACCATT
1 CACCATT
47056351 CACCATT
1 CACCATT
*
47056358 CACCGTT
1 CACCATT
47056365 CACCATT
1 CACCATT
47056372 CACC
1 CACC
47056376 TCTCATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.23, C:0.46, G:0.05, T:0.26
Consensus pattern (7 bp):
CACCATT
Found at i:47058081 original size:53 final size:54
Alignment explanation
Indices: 47057988--47058206 Score: 192
Period size: 53 Copynumber: 4.1 Consensus size: 54
47057978 TACACGAGTA
* * * * * *
47057988 CCTTTCCTTTTTGAAGTTACCATTTCCATGTCTTGACATGGTCTTACATGGTAT
1 CCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
* * * * *
47058042 CCTTTCCTTAT-GAACTCACCATTGCCATACCTTGGCATGGTCTTACATGGGAT
1 CCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
* ** * * * *
47058095 -CTTTGCCTTATCGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTT
1 CCTTT-CCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
* * * * *
47058150 CC-TGCCTTTTAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTAT
1 CCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
47058203 CCTT
1 CCTT
47058207 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
52 4 0.03
53 76 0.59
54 17 0.13
55 31 0.24
56 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.40
Consensus pattern (54 bp):
CCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
Found at i:47061560 original size:26 final size:26
Alignment explanation
Indices: 47061531--47061580 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
47061521 TATAGAGATC
*
47061531 AAACTAAGTATTTAAGTACTTATTTT
1 AAACTAAGTATTTAAGCACTTATTTT
*
47061557 AAACTAAGTATTTGAGCACTTATT
1 AAACTAAGTATTTAAGCACTTATT
47061581 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (26 bp):
AAACTAAGTATTTAAGCACTTATTTT
Found at i:47068478 original size:19 final size:19
Alignment explanation
Indices: 47068454--47068490 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
47068444 TCCTTTATAC
47068454 AAAATATAAATA-AATTAAA
1 AAAATA-AAATAGAATTAAA
47068473 AAAATAAAATAGAATTAA
1 AAAATAAAATAGAATTAA
47068491 TTGTTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATAAAATAGAATTAAA
Found at i:47071462 original size:16 final size:16
Alignment explanation
Indices: 47071436--47071477 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
47071426 AAAAGTGTAT
47071436 ATAAT-TTAAATAATA
1 ATAATCTTAAATAATA
*
47071451 GTAATCTTAAATAATA
1 ATAATCTTAAATAATA
47071467 ATAATCTTAAA
1 ATAATCTTAAA
47071478 AGGGACGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (16 bp):
ATAATCTTAAATAATA
Found at i:47071762 original size:38 final size:38
Alignment explanation
Indices: 47071711--47071789 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
47071701 ATACCACTTC
47071711 AAAGTACAATCTAATGTTGTTCTCTAGTATCTAGAGGT
1 AAAGTACAATCTAATGTTGTTCTCTAGTATCTAGAGGT
47071749 AAAGTACAATCTAATGTTGTTCTCTAGTATCTAGAGGT
1 AAAGTACAATCTAATGTTGTTCTCTAGTATCTAGAGGT
47071787 AAA
1 AAA
47071790 CTTTTATACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (38 bp):
AAAGTACAATCTAATGTTGTTCTCTAGTATCTAGAGGT
Found at i:47079775 original size:29 final size:29
Alignment explanation
Indices: 47079741--47079799 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
47079731 AAGTTTTAAG
*
47079741 TACAGTAAATTAAAAAATAAACTTAGAAT
1 TACAGTAAATTAAAAAATAAACTTAAAAT
47079770 TACAGTAAATTAAAAAATAAACTTAAAAT
1 TACAGTAAATTAAAAAATAAACTTAAAAT
47079799 T
1 T
47079800 GAGTTTCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (29 bp):
TACAGTAAATTAAAAAATAAACTTAAAAT
Found at i:47080897 original size:69 final size:69
Alignment explanation
Indices: 47080814--47080943 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
47080804 TATATATAAG
47080814 CATTTATTTCATAACT-AATATTAACAGTATCATTAAGTGAATTTATAATATAACTAATATACTT
1 CATTTATTTCATAACTGAA-ATTAACAGTATCATTAAGTGAATTTATAATATAACTAATATACTT
47080878 CTACA
65 CTACA
* * *
47080883 CATTTATTTTATAACTGAAATTAACATTATTATTAAGTGAATTTATAATATAACTAATATA
1 CATTTATTTCATAACTGAAATTAACAGTATCATTAAGTGAATTTATAATATAACTAATATA
47080944 TTTATATCGA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 55 0.96
70 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (69 bp):
CATTTATTTCATAACTGAAATTAACAGTATCATTAAGTGAATTTATAATATAACTAATATACTTC
TACA
Found at i:47086511 original size:29 final size:29
Alignment explanation
Indices: 47086444--47086511 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
47086434 ATTCTTTCAA
* * *
47086444 TTTCTCCCAACATCTTTTTCTTCTCCCAT
1 TTTCTCTCTACATATTTTTCTTCTCCCAT
*
47086473 TTTCTCTCTACATATTTTTCTTCTCTCAT
1 TTTCTCTCTACATATTTTTCTTCTCCCAT
*
47086502 TTTCTTTCTA
1 TTTCTCTCTA
47086512 ACACAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTCTCTCTACATATTTTTCTTCTCCCAT
Found at i:47087783 original size:20 final size:20
Alignment explanation
Indices: 47087760--47087801 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
47087750 TGTCATAGTC
47087760 TACTATAAGTTAAATGCTAG
1 TACTATAAGTTAAATGCTAG
47087780 TACTATAAGTTAAATGCTAG
1 TACTATAAGTTAAATGCTAG
47087800 TA
1 TA
47087802 TATTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TACTATAAGTTAAATGCTAG
Found at i:47095042 original size:8 final size:8
Alignment explanation
Indices: 47095029--47095080 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
47095019 ATTAAATTTT
47095029 AATATTAA
1 AATATTAA
47095037 AATATT-A
1 AATATTAA
47095044 AA-ATTAA
1 AATATTAA
47095051 TGAATATTAA
1 --AATATTAA
47095061 AATATT--
1 AATATTAA
47095067 AATATTAA
1 AATATTAA
47095075 AATATT
1 AATATT
47095081 TTTAAAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 9 0.24
7 4 0.11
8 18 0.47
9 2 0.05
10 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
AATATTAA
Found at i:47095044 original size:14 final size:14
Alignment explanation
Indices: 47095022--47095080 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
47095012 TAATTTAATT
*
47095022 AAATTTTAATATTA
1 AAATATTAATATTA
*
47095036 AAATATTAAAATT-
1 AAATATTAATATTA
*
47095049 --A-ATGAATATTA
1 AAATATTAATATTA
47095060 AAATATTAATATTA
1 AAATATTAATATTA
47095074 AAATATT
1 AAATATT
47095081 TTTAAAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 7 0.19
11 1 0.03
13 1 0.03
14 27 0.75
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:47095058 original size:24 final size:24
Alignment explanation
Indices: 47095029--47095074 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
47095019 ATTAAATTTT
47095029 AATATTAAAATATTAAAATTAATG
1 AATATTAAAATATTAAAATTAATG
*
47095053 AATATTAAAATATTAATATTAA
1 AATATTAAAATATTAAAATTAA
47095075 AATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
AATATTAAAATATTAAAATTAATG
Found at i:47097474 original size:30 final size:29
Alignment explanation
Indices: 47097436--47097508 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
47097426 GGATGACGAT
47097436 GCGGCCCATCAACAACGCCCACACAAGAC
1 GCGGCCCATCAACAACGCCCACACAAGAC
* * * *
47097465 GCGGACCCATCAACAGCGCTCATATAAGAC
1 GCGG-CCCATCAACAACGCCCACACAAGAC
47097495 GCAGGCCCATCAAC
1 GC-GGCCCATCAAC
47097509 GGTGCCCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.11
30 32 0.84
31 2 0.05
ACGTcount: A:0.33, C:0.40, G:0.19, T:0.08
Consensus pattern (29 bp):
GCGGCCCATCAACAACGCCCACACAAGAC
Found at i:47097631 original size:18 final size:18
Alignment explanation
Indices: 47097591--47097625 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47097581 CCAAGTGCGT
*
47097591 ATCCTAGCCCTTATATGC
1 ATCCTAACCCTTATATGC
47097609 ATCCTAACCCTTATATG
1 ATCCTAACCCTTATATG
47097626 TTTCCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
ATCCTAACCCTTATATGC
Found at i:47098165 original size:8 final size:9
Alignment explanation
Indices: 47098149--47098178 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47098139 TGAATAAGGC
47098149 AATATTTTT
1 AATATTTTT
47098158 AATATTTTT
1 AATATTTTT
47098167 -ATATTTTT
1 AATATTTTT
47098175 AATA
1 AATA
47098179 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:47101431 original size:126 final size:126
Alignment explanation
Indices: 47101206--47101723 Score: 785
Period size: 126 Copynumber: 4.1 Consensus size: 126
47101196 CCAGATAGGA
*
47101206 ACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
47101271 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAT
* *
47101332 ACTACTGTAGAAAAAGAGTGTCCACTTGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * *
47101397 TCTTGAAGCGTTTTGGACAGTATTTGTTTAGAAACATCTTCTCAAAGTTATTTTTTTAGAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAT
47101458 ACTACTGTAGAAAAAGAGCT-TCCACGT-AGGAGC-TTTTTCAGTAATTTTGCTGACAGTGCATC
1 ACTACTGTAGAAAAAGAG-TGTCCACGTGA-GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
47101520 CTGCTTGAA-CATTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAAT
64 CTGCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAT
* * *
47101582 ACTATTGTAGAAAAAGAGTGTCCACGTG-GAAGCTTTTTTCAATAATTTTGCTGACAGTACATCC
1 ACTACTGTAGAAAAAGAGTGTCCACGTGAG-AGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * *
47101646 TGCTTGAAGTGTTTTCGACACTATTTGTTTAAAAACGTCTTCTCAAAATTATTTTTTTCAGAT
65 TGCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTTTTTCAGAT
**
47101709 ACTGTTGTAGAAAAA
1 ACTACTGTAGAAAAA
47101724 AAATTTATAT
Statistics
Matches: 356, Mismatches: 28, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
123 2 0.01
124 74 0.21
125 73 0.21
126 182 0.51
127 25 0.07
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGTGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAT
Found at i:47101654 original size:250 final size:253
Alignment explanation
Indices: 47101206--47101723 Score: 830
Period size: 250 Copynumber: 2.1 Consensus size: 253
47101196 CCAGATAGGA
47101206 ACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
47101271 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGATACTA
66 GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTA
* * * *
47101336 CTGTAGAAAAAGAGTGTCCACTTGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTTCTT
131 CTGTAGAAAAAGAGTGTCCACTGGAGAGCTTTTTTCAATAATTTTGCTGACAATACATCCTGCTT
* * * *
47101401 GAAGCGTTTTGGACAGTATTTGTTTAGAAACATCTTCTCAAAGTTATTTTTTT-AGAT
196 GAAGCGTTTTCGACACTATTTGTTTAAAAACATCTTCTCAAAATTATTTTTTTCAGAT
*
47101458 ACTACTGTAGAAAAAGAGCTTCCACGT-AGGAGC-TTTTTCAGTAATTTTGCTGACAGTGCATCC
1 ACTACTGTAGAAAAAGAGCGTCCACGTGA-GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
47101521 TGCTTGAA-CATTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACT
65 TGCTTGAAGCATTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACT
* *
47101585 ATTGTAGAAAAAGAGTGTCCACGTGGA-AGCTTTTTTCAATAATTTTGCTGACAGTACATCCTGC
130 ACTGTAGAAAAAGAGTGTCCAC-TGGAGAGCTTTTTTCAATAATTTTGCTGACAATACATCCTGC
* *
47101649 TTGAAGTGTTTTCGACACTATTTGTTTAAAAACGTCTTCTCAAAATTATTTTTTTCAGAT
194 TTGAAGCGTTTTCGACACTATTTGTTTAAAAACATCTTCTCAAAATTATTTTTTTCAGAT
**
47101709 ACTGTTGTAGAAAAA
1 ACTACTGTAGAAAAA
47101724 AAATTTATAT
Statistics
Matches: 246, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
250 157 0.64
251 59 0.24
252 30 0.12
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (253 bp):
ACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTA
CTGTAGAAAAAGAGTGTCCACTGGAGAGCTTTTTTCAATAATTTTGCTGACAATACATCCTGCTT
GAAGCGTTTTCGACACTATTTGTTTAAAAACATCTTCTCAAAATTATTTTTTTCAGAT
Found at i:47101935 original size:3 final size:3
Alignment explanation
Indices: 47101927--47101957 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
47101917 AAACCCTAAA
*
47101927 AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
47101958 TATAAACTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47104414 original size:14 final size:14
Alignment explanation
Indices: 47104395--47104440 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
47104385 ATCTAATACT
47104395 TAAAATAAATATTA
1 TAAAATAAATATTA
47104409 TAAAATAAA-ATTGA
1 TAAAATAAATATT-A
47104423 -AATAATAAAATATTA
1 TAA-AAT-AAATATTA
47104438 TAA
1 TAA
47104441 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.19
14 13 0.48
15 4 0.15
16 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAAATAAATATTA
Found at i:47105208 original size:28 final size:28
Alignment explanation
Indices: 47105176--47105235 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
47105166 TGATTTTAAT
47105176 TAAAATAAAAAAT-ATATGTTTATTTGAA
1 TAAAATAAAAAATAATAT-TTTATTTGAA
*** *
47105204 TAAAATCTTATATAATATTTTATTTGAA
1 TAAAATAAAAAATAATATTTTATTTGAA
47105232 TAAA
1 TAAA
47105236 TTTTATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (28 bp):
TAAAATAAAAAATAATATTTTATTTGAA
Found at i:47105238 original size:15 final size:15
Alignment explanation
Indices: 47105194--47105242 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
47105184 AAAATATATG
47105194 TTTATTTGAATAAAAT
1 TTTATTTGAAT-AAAT
* *
47105210 CTTATAT-AAT--AT
1 TTTATTTGAATAAAT
47105222 TTTATTTGAATAAAT
1 TTTATTTGAATAAAT
47105237 TTTATT
1 TTTATT
47105243 AATACTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
15 11 0.42
16 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (15 bp):
TTTATTTGAATAAAT
Found at i:47107225 original size:4 final size:4
Alignment explanation
Indices: 47107216--47107250 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
47107206 TTCGAATTTC
47107216 AATT AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
47107251 CAAAAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:47108251 original size:56 final size:58
Alignment explanation
Indices: 47108189--47108345 Score: 171
Period size: 54 Copynumber: 2.7 Consensus size: 58
47108179 TTTTAATAAG
* * * *
47108189 ATTATTATTAAATATAACTTAATAAAAAATAATAAATAATTTAATCATA-TTTTA-A-C
1 ATTATTATTAAATATAA-TTAATAAAAAATAATATATAATTTAATAAAATTTTTAGATA
*
47108245 ATTATTATTAAATACAATT--TAATAAAATAATATATAATTTAATAAAATTTTTAGTATA
1 ATTATTATTAAATATAATTAATAA-AAAATAATATATAATTTAATAAAATTTTTAG-ATA
47108303 ATTATTATTAAAATATGAATTAATAAAAATCATAATATATAAT
1 ATTATTATT-AAATAT-AATTAATAAAAA--ATAATATATAAT
47108346 ATTAGAAAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
53 3 0.04
54 21 0.25
55 7 0.08
56 16 0.19
57 1 0.01
58 9 0.11
59 5 0.06
60 4 0.05
61 3 0.04
62 3 0.04
63 12 0.14
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTATTATTAAATATAATTAATAAAAAATAATATATAATTTAATAAAATTTTTAGATA
Found at i:47108995 original size:19 final size:19
Alignment explanation
Indices: 47108967--47109003 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47108957 ATAATATGGA
*
47108967 TAAAATAAAATTTAAATAC
1 TAAAACAAAATTTAAATAC
47108986 TAAAACAAAATTTAAATA
1 TAAAACAAAATTTAAATA
47109004 ATGGAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAACAAAATTTAAATAC
Found at i:47109338 original size:63 final size:63
Alignment explanation
Indices: 47109239--47109368 Score: 242
Period size: 63 Copynumber: 2.1 Consensus size: 63
47109229 AATATGTTAC
*
47109239 AAGTAGTTCAAATATCAATCAAGTTGAATGTAAACCACTTATTGTGCAGAAAAAGACTGAGCA
1 AAGTAGTTCAAATATCAATCAAGTTGAATGTAAACCACTTATTATGCAGAAAAAGACTGAGCA
*
47109302 AAGTAGTTCAAATATCAATCAAGTTGAATGTAAACCACTTATTATGCATAAAAAGACTGAGCA
1 AAGTAGTTCAAATATCAATCAAGTTGAATGTAAACCACTTATTATGCAGAAAAAGACTGAGCA
47109365 AAGT
1 AAGT
47109369 CCAAATCTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (63 bp):
AAGTAGTTCAAATATCAATCAAGTTGAATGTAAACCACTTATTATGCAGAAAAAGACTGAGCA
Found at i:47109922 original size:25 final size:25
Alignment explanation
Indices: 47109894--47109977 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
47109884 ACAACTAAAC
47109894 AAGTAATTCCTCATTACAAAAATCA
1 AAGTAATTCCTCATTACAAAAATCA
* **
47109919 AAGTAATTCCTAAAAACATAGAAGAATCA
1 AAGTAATTCCTCATTAC--A-AA-AATCA
* * *
47109948 AAGTAAATCCTCATTATAAACATCA
1 AAGTAATTCCTCATTACAAAAATCA
47109973 AAGTA
1 AAGTA
47109978 TCTTACCACT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
25 23 0.50
26 2 0.04
27 2 0.04
28 2 0.04
29 17 0.37
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (25 bp):
AAGTAATTCCTCATTACAAAAATCA
Found at i:47118037 original size:11 final size:10
Alignment explanation
Indices: 47118005--47118041 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
47117995 CATGAGATTT
47118005 TGATAT-ACA
1 TGATATGACA
47118014 TGATATGACA
1 TGATATGACA
47118024 TGATATGCACA
1 TGATATG-ACA
47118035 TGATATG
1 TGATATG
47118042 TTATGAGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:47118037 original size:21 final size:21
Alignment explanation
Indices: 47118011--47118061 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
47118001 ATTTTGATAT
*
47118011 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
** *
47118032 ACATGATATGTTATGAGGTGC
1 ACATGATATGACATGAGATGC
47118053 ACATGATAT
1 ACATGATAT
47118062 ACTCAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:47118166 original size:24 final size:24
Alignment explanation
Indices: 47118109--47118180 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
47118099 AGGAAGTGCA
47118109 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
47118133 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
47118157 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
47118181 GATAAAGCAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:47118439 original size:30 final size:31
Alignment explanation
Indices: 47118372--47118454 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
47118362 TGCTTATAGT
* *
47118372 AAAGGTTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
* *
47118403 AAAGGCTTCGGCCTAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
47118433 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
47118455 TTGAGACTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 4 0.09
30 15 0.33
31 26 0.58
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:47125956 original size:21 final size:21
Alignment explanation
Indices: 47125930--47125980 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
47125920 ATTTTGATAT
*
47125930 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
47125951 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
47125972 ACATGATAT
1 ACATGATAT
47125981 ACTCAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:47126060 original size:25 final size:25
Alignment explanation
Indices: 47126026--47126097 Score: 126
Period size: 25 Copynumber: 2.9 Consensus size: 25
47126016 GTAGGAAGTG
47126026 CAAAAAGGGTTTTGCCCCAGTTTAC
1 CAAAAAGGGTTTTGCCCCAGTTTAC
*
47126051 CAAAAAGGGTTTTGCCCCAGTTTAT
1 CAAAAAGGGTTTTGCCCCAGTTTAC
*
47126076 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGTTTTGCCCCAGTT
47126098 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
CAAAAAGGGTTTTGCCCCAGTTTAC
Found at i:47126110 original size:24 final size:24
Alignment explanation
Indices: 47126028--47126124 Score: 74
Period size: 25 Copynumber: 4.0 Consensus size: 24
47126018 AGGAAGTGCA
* *
47126028 AAAAG-GGTTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
47126052 AAAA-AGGGTTTTGCCCCAGTTTATC
1 AAAAGA-GGCTTTGCCCCAG-TTATC
*
47126077 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
47126101 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
47126125 GATAAAGCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
24 19 0.30
25 45 0.70
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:47126383 original size:30 final size:31
Alignment explanation
Indices: 47126316--47126398 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
47126306 CGCTTATAGT
*
47126316 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
47126347 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
* *
47126377 AAAGGCTTCAGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
47126399 TTGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 4 0.09
30 15 0.32
31 28 0.60
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:47128596 original size:27 final size:27
Alignment explanation
Indices: 47128566--47128624 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
47128556 TATTTACTTA
*
47128566 AAAATGACTAAAATACCCCCA-TAGGAT
1 AAAATGACCAAAATA-CCCCAGTAGGAT
*
47128593 AAAATGACCGAAATACCCCAGTAGGAT
1 AAAATGACCAAAATACCCCAGTAGGAT
47128620 AAAAT
1 AAAAT
47128625 AACTGTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (27 bp):
AAAATGACCAAAATACCCCAGTAGGAT
Found at i:47128634 original size:27 final size:26
Alignment explanation
Indices: 47128576--47128636 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
47128566 AAAATGACTA
*
47128576 AAATACCCCCATAGGATAAAATGACCG
1 AAATA-CCCCATAGGATAAAATAACCG
*
47128603 AAATACCCCAGTAGGATAAAATAACTG
1 AAATACCCCA-TAGGATAAAATAACCG
*
47128630 TAATACC
1 AAATACC
47128637 TGTGTAAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (26 bp):
AAATACCCCATAGGATAAAATAACCG
Found at i:47129063 original size:18 final size:18
Alignment explanation
Indices: 47129034--47129081 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
47129024 ACATACCGTA
*
47129034 ACTGCTACTGTACTATTT
1 ACTGTTACTGTACTATTT
* *
47129052 ACTGTTATTGTACTGTTT
1 ACTGTTACTGTACTATTT
47129070 ACTGTTACTGTA
1 ACTGTTACTGTA
47129082 ATGGGCTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.48
Consensus pattern (18 bp):
ACTGTTACTGTACTATTT
Found at i:47131072 original size:20 final size:20
Alignment explanation
Indices: 47131049--47131086 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47131039 AAGATACATT
47131049 ATATAATCATCAACCTTTTC
1 ATATAATCATCAACCTTTTC
* *
47131069 ATATAATTATGAACCTTT
1 ATATAATCATCAACCTTT
47131087 CCATTAAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATAATCATCAACCTTTTC
Found at i:47136082 original size:26 final size:26
Alignment explanation
Indices: 47136053--47136136 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
47136043 TGATACAAAT
*
47136053 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47136079 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47136105 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47136131 TGATAA
1 TGATAA
47136137 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:47142404 original size:28 final size:28
Alignment explanation
Indices: 47142361--47142461 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
47142351 ATGAAACGAA
47142361 ATCT-GCACACACAGTGCCCACTGACCG
1 ATCTCGCACACACAGTGCCCACTGACCG
* * ** * **
47142388 ATCTCGCACACATAGTGCTCGGTTAAAG
1 ATCTCGCACACACAGTGCCCACTGACCG
47142416 AAT-TCGCACACACAGTGCCCACTGACCG
1 -ATCTCGCACACACAGTGCCCACTGACCG
*
47142444 ATCTCGCACACATAGTGC
1 ATCTCGCACACACAGTGC
47142462 TCGGTTAAAG
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
27 6 0.11
28 48 0.86
29 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (28 bp):
ATCTCGCACACACAGTGCCCACTGACCG
Found at i:47142426 original size:56 final size:56
Alignment explanation
Indices: 47142365--47142490 Score: 243
Period size: 56 Copynumber: 2.2 Consensus size: 56
47142355 AACGAAATCT
47142365 GCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTC
1 GCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTC
47142421 GCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTC
1 GCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTC
*
47142477 ACACACACAGTGCC
1 GCACACACAGTGCC
47142491 TCAATTCATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.18
Consensus pattern (56 bp):
GCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTC
Found at i:47142481 original size:28 final size:28
Alignment explanation
Indices: 47142391--47142489 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
47142381 CTGACCGATC
*
47142391 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
* ** * **
47142419 TCGCACACACAGTGCCCACTGACCG-AT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
*
47142446 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGAAT
*
47142475 TCACACACACAGTGC
1 TCGCACACACAGTGC
47142490 CTCAATTCAT
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 2 0.04
28 49 0.92
29 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTAAAGAAT
Found at i:47142507 original size:25 final size:25
Alignment explanation
Indices: 47142473--47142527 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
47142463 CGGTTAAAGA
*
47142473 ATTCACACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCC-CATATTC
*
47142498 ATTCGCACACATAGTGCCCATATTC
1 ATTCGCACACACAGTGCCCATATTC
47142523 ATTCG
1 ATTCG
47142528 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCCATATTC
Found at i:47142719 original size:41 final size:40
Alignment explanation
Indices: 47142674--47142768 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
47142664 AGGCACGAAG
47142674 GCCCGAATACACATCACCAGCA-GAATGCTCTTCGGGACTTA
1 GCCCGAATACA-A-CACCAGCACGAATGCTCTTCGGGACTTA
* *
47142715 GCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGAATACAACACCAGCACGAATGCTCTTCGGGACTTA
* *
47142755 GCCCGGATATAACA
1 GCCCGAATACAACA
47142769 TACTGAACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
39 8 0.16
40 34 0.67
41 9 0.18
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (40 bp):
GCCCGAATACAACACCAGCACGAATGCTCTTCGGGACTTA
Found at i:47142731 original size:39 final size:40
Alignment explanation
Indices: 47142688--47142768 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
47142678 GAATACACAT
47142688 CACCAGCA-GAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47142727 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47142767 CA
1 CA
47142769 TACTGAACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 8 0.20
40 33 0.80
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:47146237 original size:3 final size:3
Alignment explanation
Indices: 47146223--47146264 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
47146213 AAATTAAGTA
* * *
47146223 AAT AAT AA- AAT AAT AGT AGT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47146265 TTCAACAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47148318 original size:37 final size:37
Alignment explanation
Indices: 47148265--47148367 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
47148255 CGAATAGTCC
* *
47148265 CCACACATAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
47148302 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
47148339 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
47148368 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:47148565 original size:48 final size:48
Alignment explanation
Indices: 47148507--47148999 Score: 914
Period size: 48 Copynumber: 10.3 Consensus size: 48
47148497 ATATACACAC
* *
47148507 ATCTCCTACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47148555 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47148603 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
47148651 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
47148699 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47148747 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47148795 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47148843 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
47148891 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
47148939 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
47148987 ATCACATACATAT
1 ATCTCATACATAT
47149000 ATATTTATCT
Statistics
Matches: 437, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 437 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:47152162 original size:22 final size:22
Alignment explanation
Indices: 47152134--47152255 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
47152124 TTCCACATCC
47152134 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
47152156 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
47152180 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
47152203 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
47152227 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47152250 ATCACA
1 ATCACA
47152256 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47152169 original size:47 final size:47
Alignment explanation
Indices: 47152106--47152409 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
47152096 CCCTTCGGGA
* * *
47152106 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
47152153 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47152200 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
47152247 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
47152294 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
47152341 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47152390 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
47152410 GTACATCAAT
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:47155017 original size:33 final size:33
Alignment explanation
Indices: 47154980--47155047 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
47154970 GTCCCGAAAC
47154980 CACTTTCTGACTAGGGTCACATTAGGGGTGTCA
1 CACTTTCTGACTAGGGTCACATTAGGGGTGTCA
47155013 CACTTTCTGACTAGGGTCACATTAGGGGTGTCA
1 CACTTTCTGACTAGGGTCACATTAGGGGTGTCA
47155046 CA
1 CA
47155048 TTTAAATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (33 bp):
CACTTTCTGACTAGGGTCACATTAGGGGTGTCA
Found at i:47157280 original size:30 final size:30
Alignment explanation
Indices: 47157227--47157360 Score: 110
Period size: 30 Copynumber: 4.5 Consensus size: 30
47157217 CACGAAGTTA
* ** * *
47157227 TTTCATAATTCGATTCCCAAAGCTCTCCCT
1 TTTCATAATTTGATAGCCGAAGCTATCCCT
*
47157257 TTTCATAATTTGATAGCCGAAGCTAT-CCA
1 TTTCATAATTTGATAGCCGAAGCTATCCCT
** * * * * *
47157286 TTTCATAGCTTCATGGTCGTCA-CCATCCCT
1 TTTCATAATTTGATAGCCG-AAGCTATCCCT
* *
47157316 TTTCATAATTTGATAGCTGAAGCTATCCTT
1 TTTCATAATTTGATAGCCGAAGCTATCCCT
47157346 TTTCATAATTTGATA
1 TTTCATAATTTGATA
47157361 TCCCTTTTCA
Statistics
Matches: 78, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
29 20 0.26
30 58 0.74
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTCATAATTTGATAGCCGAAGCTATCCCT
Found at i:47157394 original size:30 final size:30
Alignment explanation
Indices: 47157360--47157431 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
47157350 ATAATTTGAT
* *
47157360 ATCCCTTTTCATTGTTCAATGGTTGTAACC
1 ATCCCTTTTCATTGTTCAATGGTCGCAACC
** *
47157390 ATCCCTTTTCATTGTTTGATGGTCGCCACC
1 ATCCCTTTTCATTGTTCAATGGTCGCAACC
47157420 ATCCCTTTTCAT
1 ATCCCTTTTCAT
47157432 AATTTGATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATTGTTCAATGGTCGCAACC
Found at i:47159898 original size:18 final size:17
Alignment explanation
Indices: 47159877--47159931 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
47159867 ACAATTCTTT
47159877 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
47159895 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
47159912 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
47159929 TCT
1 TCT
47159932 ATAGCCGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:47160701 original size:16 final size:15
Alignment explanation
Indices: 47160675--47160706 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
47160665 ACTAGATCGG
47160675 CAAAAGTCGAAAAGT
1 CAAAAGTCGAAAAGT
47160690 CAAAATGTCGAAAAGT
1 CAAAA-GTCGAAAAGT
47160706 C
1 C
47160707 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.16
Consensus pattern (15 bp):
CAAAAGTCGAAAAGT
Found at i:47160983 original size:26 final size:26
Alignment explanation
Indices: 47160954--47161012 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
47160944 ATTTACTAAA
*
47160954 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCTAAG-ATGCAAAATGACCATT
* *
47160980 ATACCCTTAGGTGCAAAATGACCATT
1 ATACCCTAAGATGCAAAATGACCATT
47161006 ATACCCT
1 ATACCCT
47161013 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (26 bp):
ATACCCTAAGATGCAAAATGACCATT
Found at i:47161156 original size:27 final size:27
Alignment explanation
Indices: 47161118--47161233 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
47161108 TGGAGGAAGC
47161118 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
47161145 GTTCTGGTGGCTTTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
47161172 GTTTCTGGTGGCCCTACCACAATTATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCT
* * *
47161200 GTATCTGGTGACTTTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
47161227 GTTCTGG
1 GTTCTGG
47161234 CAGCCATGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.07
27 36 0.47
28 35 0.46
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:47161191 original size:28 final size:28
Alignment explanation
Indices: 47161119--47161233 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
47161109 GGAGGAAGCG
47161119 TTCTGGTGGCTCTGCCACAAATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
47161146 TTCTGGTGGCTTTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
47161174 TTCTGGTGGCCCTACCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * *
47161202 ATCTGGTGACTTTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
47161228 TTCTGG
1 TTCTGG
47161234 CAGCCATGTT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 33 0.45
28 36 0.49
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:47161224 original size:55 final size:54
Alignment explanation
Indices: 47161118--47161233 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
47161108 TGGAGGAAGC
* * *
47161118 GTTCTGGTGGCTCTGCCACAAATATCTGTTCTGGTGGCTTTGCCACAAATATCT
1 GTTCTGGTGGCCCTACCACAAATATCTGTTCTGGTGACTTTGCCACAAATATCT
* *
47161172 GTTTCTGGTGGCCCTACCACAATTATCTGTATCTGGTGACTTTGTCAC-AATATCT
1 G-TTCTGGTGGCCCTACCACAAATATCTGT-TCTGGTGACTTTGCCACAAATATCT
47161227 GTTCTGG
1 GTTCTGG
47161234 CAGCCATGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 7 0.13
55 33 0.60
56 15 0.27
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCCCTACCACAAATATCTGTTCTGGTGACTTTGCCACAAATATCT
Found at i:47163701 original size:39 final size:39
Alignment explanation
Indices: 47163647--47163725 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
47163637 GAAATTTCAA
*
47163647 TGGATGTTCGGTTAGTATACTCATGTGCAAAAGTACCCG
1 TGGATGTTCAGTTAGTATACTCATGTGCAAAAGTACCCG
47163686 TGGATGTTCAGTTAGTATACTCATGTGCAAAAGTACCCG
1 TGGATGTTCAGTTAGTATACTCATGTGCAAAAGTACCCG
47163725 T
1 T
47163726 TAGGGTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
TGGATGTTCAGTTAGTATACTCATGTGCAAAAGTACCCG
Found at i:47165049 original size:5 final size:5
Alignment explanation
Indices: 47165039--47165075 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
47165029 GATGCCAACC
47165039 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
47165076 TTTATTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:47170580 original size:34 final size:34
Alignment explanation
Indices: 47170534--47170620 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
47170524 TTGAACAGTC
* ** *
47170534 TGGGCCTAAGCCCATTTCAGTCGCAATGTTAGTG
1 TGGGCCTTAGCCCATTTCAGTAACAATATTAGTG
* *
47170568 TGGGCCTTAGCCCCA-TACAGTAACAGTATTAGTG
1 TGGGCCTTAG-CCCATTTCAGTAACAATATTAGTG
*
47170602 TGGGCCTTAGACCATTTCA
1 TGGGCCTTAGCCCATTTCA
47170621 ATATAGTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
33 3 0.07
34 36 0.84
35 4 0.09
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAATATTAGTG
Found at i:47173712 original size:6 final size:6
Alignment explanation
Indices: 47173694--47173793 Score: 80
Period size: 6 Copynumber: 16.3 Consensus size: 6
47173684 AAGAAACATT
* * *
47173694 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACATA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
47173743 ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
47173792 AT
1 AT
47173794 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
5 4 0.05
6 64 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:47173742 original size:43 final size:42
Alignment explanation
Indices: 47173688--47173793 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
47173678 CAGAATAAGA
* *
47173688 AACATTATCAGAACTAGAATCAGAATCAGAATCAGAATTAGGT
1 AACATAATCAGAA-TAGAATCAGAATCAGAATCAGAATCAGGT
* *
47173731 GACATAATCAGAATCAGAATCAGAATCAGAATCAGTATCAGGT
1 AACATAATCAGAAT-AGAATCAGAATCAGAATCAGAATCAGGT
* *
47173774 AACAGAATCAAAATTAGAAT
1 AACATAATCAGAA-TAGAAT
47173794 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 52 0.96
44 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (42 bp):
AACATAATCAGAATAGAATCAGAATCAGAATCAGAATCAGGT
Found at i:47174058 original size:27 final size:26
Alignment explanation
Indices: 47174011--47174061 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
47174001 CGAGACTGCT
*
47174011 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
47174037 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
47174062 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:47174335 original size:27 final size:27
Alignment explanation
Indices: 47174306--47174529 Score: 229
Period size: 27 Copynumber: 8.3 Consensus size: 27
47174296 GGGTAAAATG
* * * *
47174306 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTTTACCCTACAGGGGTATTTCA
** *
47174333 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAGGGGTATTTCA
*
47174360 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCA
*
47174387 GT-ATTTCTACCCTACAGGGGTATTTTA
1 GTAATTT-TACCCTACAGGGGTATTTCA
* * * * *
47174414 GTAATTCTACCTTATAAGGGTATTTTA
1 GTAATTTTACCCTACAGGGGTATTTCA
*
47174441 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCA
*
47174468 GT-ATTTCTACCTTACAGGGGTATTTCA
1 GTAATTT-TACCCTACAGGGGTATTTCA
* * *
47174495 GT-ATTTCTACCCTATAAGGGTATTTCG
1 GTAATTT-TACCCTACAGGGGTATTTCA
47174522 GTAATTTT
1 GTAATTTT
47174530 GTAAATCGAG
Statistics
Matches: 166, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 7 0.04
27 152 0.92
28 7 0.04
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACCCTACAGGGGTATTTCA
Found at i:47174353 original size:54 final size:54
Alignment explanation
Indices: 47174306--47174529 Score: 261
Period size: 54 Copynumber: 4.1 Consensus size: 54
47174296 GGGTAAAATG
* * *
47174306 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* *
47174360 GTAATTTTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* * * ** *
47174414 GTAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* * * * * * **
47174468 GT-ATTTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTATAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
47174522 GTAATTTT
1 GTAATTTT
47174530 GTAAATCGAG
Statistics
Matches: 147, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
53 3 0.02
54 140 0.95
55 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
Found at i:47174435 original size:81 final size:81
Alignment explanation
Indices: 47174309--47174529 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 81
47174299 TAAAATGGTA
* * * * * * *
47174309 ATTT-TACCCCACAAGGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTTTACCCT
1 ATTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTTAGTAATTTTACCCT
*
47174373 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCAGT
* * *
47174389 ATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTTAGTAATTTTACCCT
47174454 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* * **
47174470 ATTTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTATAAGGGTATTTCGGTAATTTT
1 ATTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTTAGTAATTTT
47174530 GTAAATCGAG
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
80 4 0.03
81 118 0.97
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
ATTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTTAGTAATTTTACCCT
ACAGGGGTATTTCAGT
Found at i:47174541 original size:27 final size:27
Alignment explanation
Indices: 47174511--47175031 Score: 210
Period size: 27 Copynumber: 19.3 Consensus size: 27
47174501 CTACCCTATA
*
47174511 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** * *
47174538 AGGGTAAAAT-GATAATTCTATAAATC-
1 AGGGT-ATTTCGGTAATTTTATAAATCG
* *
47174564 AGGGGTAATTT-GGTAATTTTACAAGTCG
1 A-GGGT-ATTTCGGTAATTTTATAAATCG
** **
47174592 AGGGTATTTCAATAATTTTATAGGTCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
47174619 AGGGTATTTCAGTAATTTCACAAAT-T
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
47174645 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * * *
47174672 AGGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTATAAATCG
* *
47174699 AGGGGTATTTTGGTAATTTT-TCAAA-CC
1 A-GGGTATTTCGGTAATTTTAT-AAATCG
* *
47174726 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTCGGTAATTTTATAAATC-G
* ** * *
47174754 ATGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
47174780 AGGGGTATTTTGGTGATTTTATAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * *
47174808 AGGGTA-TTCTAGTAATTTTACAAA-CC
1 AGGGTATTTC-GGTAATTTTATAAATCG
* * *
47174834 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
*** * *
47174862 AGGGTATTTTACTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
47174888 AGGGGTATTTTGGTGATTTTATAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * * *
47174916 AGGGTATTTTGATAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
47174942 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * *
47174970 AGGGTA-TTCTAGTAATTTTACAAA-CC
1 AGGGTATTTC-GGTAATTTTATAAATCG
* * * *
47174996 AGAGGTATTTTGGTGATTTTATAAACCA
1 AG-GGTATTTCGGTAATTTTATAAATCG
47175024 AGGGTATT
1 AGGGTATT
47175032 CTAGTAATTT
Statistics
Matches: 399, Mismatches: 72, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
26 20 0.05
27 359 0.90
28 20 0.05
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:47174678 original size:81 final size:81
Alignment explanation
Indices: 47174563--47175064 Score: 519
Period size: 81 Copynumber: 6.2 Consensus size: 81
47174553 TTCTATAAAT
* ** ** * ** *
47174563 CAGGGGTAATTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTATAGGTCGA-GGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGATAATTTTACA-AACAAGGGGTAT
* * *
47174626 TTCAGTAATTTCACAAAT
64 TTTAGTAATTTTACAAAC
* * *
47174644 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACAAGGGGTATTT
* *
47174709 TGGTAATTTTTCAAAC
66 TAGTAATTTTACAAAC
* * ** *
47174725 CAGGGGTATTTTGGTAATTTTATAAACAAATGGTATTTT-AGTAATTTTACAAACTAGGGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA-TAATTTTACAAACAAGGGGTATT
* * *
47174789 TTGGTGATTTTATAAAC
65 TTAGTAATTTTACAAAC
* * * * *
47174806 CAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA-GGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAA-CAAGGGGTATT
*
47174870 TTACTAATTTTACAAAC
65 TTAGTAATTTTACAAAC
* * * *
47174887 CAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACAAGGGGTATTT
* *
47174952 TGGTAATTTTATAAAC
66 TAGTAATTTTACAAAC
* * * * * * *
47174968 CAAGGGTATTCTAGTAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCAA-GGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAA-CAAGGGGTATT
*
47175032 CTAGTAATTTTACAAAC
65 TTAGTAATTTTACAAAC
47175049 CAGGGGTATTTTGGTA
1 CAGGGGTATTTTGGTA
47175065 GTTTGGTAAA
Statistics
Matches: 346, Mismatches: 68, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
80 5 0.01
81 336 0.97
82 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACAAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:47175075 original size:27 final size:27
Alignment explanation
Indices: 47174620--47175064 Score: 557
Period size: 27 Copynumber: 16.5 Consensus size: 27
47174610 TATAGGTCGA
** * **
47174620 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47174647 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47174674 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47174701 GGGTATTTTGGTAATTTTTCAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
47174728 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
47174755 TGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
47174782 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47174809 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47174836 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
47174863 GGGTATTTTACTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
47174890 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47174917 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47174944 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47174971 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
47174998 AGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47175025 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
47175052 GGGTATTTTGGTA
1 GGGTATTTTGGTA
47175065 GTTTGGTAAA
Statistics
Matches: 352, Mismatches: 66, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 352 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:47175075 original size:54 final size:54
Alignment explanation
Indices: 47174647--47175064 Score: 658
Period size: 54 Copynumber: 7.7 Consensus size: 54
47174637 CACAAATTAG
* * * * *
47174647 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
47174701 GGGTATTTTGGTAATTTTTCAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
47174755 TGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
*
47174809 GGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* *
47174863 GGGTATTTTACTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
47174917 GGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
47174971 GGGTATTCTAGTAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
*
47175025 GGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTA
47175065 GTTTGGTAAA
Statistics
Matches: 336, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
54 335 1.00
55 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:47178849 original size:35 final size:37
Alignment explanation
Indices: 47178778--47178875 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
47178768 ATAATCTTCA
47178778 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
47178816 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
47178851 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
47178876 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:47178875 original size:17 final size:19
Alignment explanation
Indices: 47178778--47178868 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
47178768 ATAATCTTCA
47178778 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
47178797 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
47178816 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
47178833 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
47178851 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
47178869 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:47178904 original size:21 final size:23
Alignment explanation
Indices: 47178847--47178904 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
47178837 TTGCAATCTT
* *
47178847 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
47178869 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
47178891 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
47178905 GATACCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:47179181 original size:18 final size:19
Alignment explanation
Indices: 47179158--47179193 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47179148 TTTCCCTGAT
*
47179158 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
47179176 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
47179194 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:47186235 original size:24 final size:24
Alignment explanation
Indices: 47186206--47186253 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
47186196 TCATAGCACA
47186206 TAAATAATCATTCTTAAATTCATT
1 TAAATAATCATTCTTAAATTCATT
47186230 TAAATAATCATTCTTAAATTCATT
1 TAAATAATCATTCTTAAATTCATT
47186254 CATTCTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAATAATCATTCTTAAATTCATT
Found at i:47186248 original size:14 final size:14
Alignment explanation
Indices: 47186206--47186248 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
47186196 TCATAGCACA
47186206 TAAATAATCATTCT
1 TAAATAATCATTCT
47186220 TAAAT--TCA-T-T
1 TAAATAATCATTCT
47186230 TAAATAATCATTCT
1 TAAATAATCATTCT
47186244 TAAAT
1 TAAAT
47186249 TCATTCATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 6 0.24
11 1 0.04
12 6 0.24
13 1 0.04
14 11 0.44
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATAATCATTCT
Found at i:47186252 original size:12 final size:12
Alignment explanation
Indices: 47186213--47186254 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
47186203 ACATAAATAA
47186213 TCATTCTTAAAT
1 TCATTCTTAAAT
47186225 TCA-T-TTAAAT
1 TCATTCTTAAAT
47186235 AATCATTCTTAAAT
1 --TCATTCTTAAAT
47186249 TCATTC
1 TCATTC
47186255 ATTCTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 6 0.23
11 1 0.04
12 12 0.46
13 1 0.04
14 6 0.23
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (12 bp):
TCATTCTTAAAT
Found at i:47190988 original size:45 final size:45
Alignment explanation
Indices: 47190738--47191612 Score: 332
Period size: 45 Copynumber: 20.1 Consensus size: 45
47190728 GATCCAAGAT
*
47190738 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * ** * *
47190785 TATCTGACCT-TCATGTGTTTACATC--AAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
47190830 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATC-AGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA-AGATAACA
* *
47190875 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
47190919 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** * * * * *
47190964 GATTTGGCATCTCCATATTCGACGGAGAGTAGATCAAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* ** * ** ** * * *
47191011 GATCTAACCT-TCGGATGT-TTTCACATTGAAGTAGATCCAAGAT----
1 GATTTGGCATCTC---TGTATTAGAC-GGGGAGCAGATCGAAGATAACA
** ** *
47191054 GATTTGGCATC-CTTGCGTT-GACAAGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * *
47191100 GATTTGGCTTTCACGTGT-TT--ACGCTGAAGCAAATCTAAGAT----
1 GATTTGGC-ATCTC-TGTATTAGACG-GGGAGCAGATCGAAGATAACA
* * * * * * *
47191141 GATTTGGCATCTCTGTACT-GTCAGAGAACAAATAGAAGA-AACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** * ** *
47191184 GATTTGGCATCTCCATATTTGACGTAGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * *
47191231 TATCT-G-A-C-CT-TCATT-GA-----AGCAGATCCAAGAT----
1 GATTTGGCATCTCTGT-ATTAGACGGGGAGCAGATCGAAGATAACA
* *
47191262 GATTTGACATCTCTGTATTAGAAGGGGAGCAGATCGAAGACATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* *
47191309 GA-TTGG-A-C-CTTTATT-GA-----AGCAGATCCAAGAT----
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
47191340 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
47191387 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * *
47191432 GATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
47191477 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
47191521 GATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
47191565 GATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
47191610 GAT
1 GAT
47191613 ATCGCCTTCC
Statistics
Matches: 615, Mismatches: 135, Indels: 158
0.68 0.15 0.17
Matches are distributed among these distances:
31 5 0.01
32 4 0.01
33 2 0.00
34 2 0.00
35 15 0.02
36 5 0.01
37 22 0.04
39 3 0.00
40 25 0.04
41 34 0.06
42 9 0.01
43 54 0.09
44 115 0.19
45 188 0.31
46 26 0.04
47 77 0.13
48 15 0.02
49 14 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:47191318 original size:78 final size:78
Alignment explanation
Indices: 47191210--47191400 Score: 312
Period size: 78 Copynumber: 2.4 Consensus size: 78
47191200 ATTTGACGTA
*
47191210 GAGCAGATCGAAGACATAGCATATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTC
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTC
47191275 TGTATTAGAAGGG
66 TGTATTAGAAGGG
* * *
47191288 GAGCAGATCGAAGACATAACAGAT-TGGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGACATCT
*
47191352 CTGTATTAGACGGG
65 CTGTATTAGAAGGG
*
47191366 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAT
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
47191401 GTGTTTACAT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
77 1 0.01
78 101 0.98
79 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTC
TGTATTAGAAGGG
Found at i:47191582 original size:88 final size:89
Alignment explanation
Indices: 47191430--47191595 Score: 271
Period size: 88 Copynumber: 1.9 Consensus size: 89
47191420 TCCAAGATGA
*
47191430 CAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTTTGTAT
1 CAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
47191495 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * * * *
47191519 CAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
47191583 TAGACGGGGAGCA
66 TAGACGGGGAGCA
47191596 AATCAAAGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 48 0.68
89 23 0.32
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (89 bp):
CAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:47191984 original size:14 final size:15
Alignment explanation
Indices: 47191965--47192018 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
47191955 AATCTTCAAT
47191965 GATATG-CAATCTTA
1 GATATGACAATCTTA
47191979 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
47191996 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
47192014 GATAT
1 GATAT
47192019 AATACGCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
17 14 0.41
18 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:47191991 original size:17 final size:17
Alignment explanation
Indices: 47191971--47192034 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
47191961 CAATGATATG
47191971 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
47191988 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
47192006 CAATCTTAGATATAATA
1 CAATCTTAGATATGATA
47192023 CGCAATCTTAGA
1 --CAATCTTAGA
47192035 AGATATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 16 0.39
18 15 0.37
19 10 0.24
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:47192009 original size:35 final size:37
Alignment explanation
Indices: 47191963--47192041 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
47191953 ATAATCTTCA
*
47191963 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATAATACCAATCTTAGAT
47191999 ATGAT-TGCAATCTTAGATATAATACGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATAATAC-CAATCTTAGAT
47192035 A-GATATG
1 ATGATATG
47192042 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATAATACCAATCTTAGAT
Found at i:47192348 original size:18 final size:19
Alignment explanation
Indices: 47192325--47192360 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47192315 TTTCCCTGAT
*
47192325 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
47192343 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
47192361 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:47195875 original size:37 final size:37
Alignment explanation
Indices: 47195817--47195924 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
47195807 GCTCAGACGA
* *
47195817 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
47195854 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
47195891 AATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47195925 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:47196220 original size:47 final size:47
Alignment explanation
Indices: 47196129--47196320 Score: 275
Period size: 47 Copynumber: 4.1 Consensus size: 47
47196119 TATATATATT
* * *
47196129 TCACATTGACCATTCGG-CTT-TGC-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTAT-CACACATATGCATGCTCACATTCA
47196174 -CAACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TC-ACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
47196221 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
47196268 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
47196315 TCACAT
1 TCACAT
47196321 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
44 1 0.01
45 14 0.10
46 4 0.03
47 115 0.85
48 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:47196247 original size:22 final size:22
Alignment explanation
Indices: 47196220--47196295 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
47196210 GCTCACATTC
47196220 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
47196242 ATCACATATATG-CATGCTC-ACATTT
1 ATCACAT-T-GGCCAT--TCGGC-CTT
47196267 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
47196289 ATCACAT
1 ATCACAT
47196296 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47199207 original size:23 final size:23
Alignment explanation
Indices: 47199181--47199227 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47199171 CACATACCTG
47199181 TCAAATTTTCTCATTCATCACAC
1 TCAAATTTTCTCATTCATCACAC
47199204 TCAAATTTTCTCATTCATCACAC
1 TCAAATTTTCTCATTCATCACAC
47199227 T
1 T
47199228 TACCAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (23 bp):
TCAAATTTTCTCATTCATCACAC
Found at i:47199954 original size:30 final size:30
Alignment explanation
Indices: 47199909--47199968 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47199899 ATTTAATACG
*
47199909 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
47199939 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
47199969 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:47211816 original size:28 final size:28
Alignment explanation
Indices: 47211776--47211865 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
47211766 GGAGGAAGCA
47211776 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
47211804 TTCTTGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
47211832 TT-TGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
47211858 ATCTGGTG
1 TTCTGGTG
47211866 ACTCTATCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 10 0.18
27 18 0.32
28 29 0.51
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:47211847 original size:27 final size:26
Alignment explanation
Indices: 47211779--47211885 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 26
47211769 GGAAGCATTC
47211779 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCAC-AATATCTGTTT
*
47211806 CTTGTGGCTATGCCACAAATATCTGTTT
1 -TGGTGGCTATGCCAC-AATATCTGTTT
* *
47211834 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TT
* * **
47211861 TGGTGACTCTATCACAATATCTGTT
1 TGGTGGCTATGCCACAATATCTGTT
47211886 CTGGAAACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
26 10 0.14
27 35 0.49
28 26 0.37
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTT
Found at i:47217165 original size:8 final size:8
Alignment explanation
Indices: 47217137--47217177 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
47217127 TAACACAGAG
47217137 TAAGCATT
1 TAAGCATT
47217145 TAAGC-TT
1 TAAGCATT
47217152 AGTAAGCATT
1 --TAAGCATT
47217162 TAAGCATT
1 TAAGCATT
47217170 TAAGCATT
1 TAAGCATT
47217178 CAAGTAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 2 0.07
8 21 0.70
9 5 0.17
10 2 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (8 bp):
TAAGCATT
Found at i:47217632 original size:26 final size:25
Alignment explanation
Indices: 47217563--47217669 Score: 144
Period size: 25 Copynumber: 4.2 Consensus size: 25
47217553 TATGATCACC
*
47217563 CGAGCTATAGATC-AGTATGCTCTTA
1 CGAGCTATAAATCGA-TATGCTCTTA
* *
47217588 CGAGCTATAAATTGATATGCTTTTA
1 CGAGCTATAAATCGATATGCTCTTA
47217613 CGAGCTATAAAATCGATATGCTCTTA
1 CGAGCTAT-AAATCGATATGCTCTTA
* *
47217639 CGAGCTATAAATCGGTATGCTCTCA
1 CGAGCTATAAATCGATATGCTCTTA
47217664 CGAGCT
1 CGAGCT
47217670 GTGGAGTATC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 49 0.67
26 24 0.33
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (25 bp):
CGAGCTATAAATCGATATGCTCTTA
Found at i:47221674 original size:34 final size:34
Alignment explanation
Indices: 47221636--47221702 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
47221626 AGTAACAGTC
*
47221636 CAGTATCAGT-TAGGGTCTTAGCCCAATACAGTAG
1 CAGTATCAGTGT-GGGCCTTAGCCCAATACAGTAG
* *
47221670 CAGTATTAGTGTGGGCCTTAGCCCAATTCAGTA
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAGTA
47221703 ACAATAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCAATACAGTAG
Found at i:47223188 original size:25 final size:25
Alignment explanation
Indices: 47223135--47223250 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
47223125 TATGTACATT
* * *
47223135 TATGCTCAT-ACGAGCTGTGAATCGG
1 TATGCTC-TCACGAGCTATAAATCAG
* * * *
47223160 TATGCTCACTCGAGCTATAGATCAA
1 TATGCTCTCACGAGCTATAAATCAG
* * *
47223185 TATGTTCTCACGAGTTATAAATCGG
1 TATGCTCTCACGAGCTATAAATCAG
*
47223210 TATGCTCTTACGAGCTATAAATCAG
1 TATGCTCTCACGAGCTATAAATCAG
47223235 TATGCTCTCACGAGCT
1 TATGCTCTCACGAGCT
47223251 GTGGAGCATC
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
25 71 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCAG
Found at i:47223224 original size:50 final size:50
Alignment explanation
Indices: 47223154--47223248 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
47223144 ACGAGCTGTG
* *
47223154 AATCGGTATGCTCACTCGAGCTATAGATCAATATGTTCTCACGAGTTATA
1 AATCGGTATGCTCACTCGAGCTATAAATCAATATGCTCTCACGAGTTATA
* *
47223204 AATCGGTATGCTC-TTACGAGCTATAAATCAGTATGCTCTCACGAG
1 AATCGGTATGCTCACT-CGAGCTATAAATCAATATGCTCTCACGAG
47223249 CTGTGGAGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCGGTATGCTCACTCGAGCTATAAATCAATATGCTCTCACGAGTTATA
Found at i:47225679 original size:25 final size:24
Alignment explanation
Indices: 47225651--47225719 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
47225641 ATTCTGACCC
47225651 ACAGCTCGTGAGAGCATACTGATCT
1 ACAGCTCGTGAGAGCATACT-ATCT
* * *
47225676 ACAGCTCGAGTGAGCATACCTATTT
1 ACAGCTCGTGAGAGCATA-CTATCT
*
47225701 ACAGATCGT-ATGAGCATAC
1 ACAGCTCGTGA-GAGCATAC
47225720 ATGTACATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (24 bp):
ACAGCTCGTGAGAGCATACTATCT
Found at i:47237953 original size:30 final size:30
Alignment explanation
Indices: 47237917--47237976 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
47237907 TACACTCAAG
47237917 GTGTATAAGTTTATAATCAAGGATGTACAT
1 GTGTATAAGTTTATAATCAAGGATGTACAT
47237947 GTGTATAAGTTTATAATCAAGGATGTACAT
1 GTGTATAAGTTTATAATCAAGGATGTACAT
47237977 ACTCATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (30 bp):
GTGTATAAGTTTATAATCAAGGATGTACAT
Found at i:47238792 original size:6 final size:6
Alignment explanation
Indices: 47238783--47238834 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
47238773 GGCCCATTGT
* *
47238783 AGTAAC AGTAAAC AGT-GC AGTAAT AGTAAC AGTAAC AGT-AC AGTAAC
1 AGTAAC AGT-AAC AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC
47238830 AGTAA
1 AGTAA
47238835 ACAATATGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.23
6 24 0.62
7 6 0.15
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGTAAC
Found at i:47238826 original size:23 final size:24
Alignment explanation
Indices: 47238782--47238834 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
47238772 TGGCCCATTG
*
47238782 TAGTAACAGTAAACAGTGCAGTAA
1 TAGTAACAGTAAACAGTACAGTAA
47238806 TAGTAACAGT-AACAGTACAGTAA
1 TAGTAACAGTAAACAGTACAGTAA
*
47238829 CAGTAA
1 TAGTAA
47238835 ACAATATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (24 bp):
TAGTAACAGTAAACAGTACAGTAA
Found at i:47238834 original size:17 final size:17
Alignment explanation
Indices: 47238783--47238833 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
47238773 GGCCCATTGT
*
47238783 AGTAACAGTAAACAGTGC
1 AGTAACAGT-AACAGTAC
*
47238801 AGTAATAGTAACAGTAAC
1 AGTAACAGTAACAGT-AC
47238819 AGT-ACAGTAACAGTA
1 AGTAACAGTAACAGTA
47238834 AACAATATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 1 0.03
17 16 0.55
18 12 0.41
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (17 bp):
AGTAACAGTAACAGTAC
Found at i:47239189 original size:27 final size:27
Alignment explanation
Indices: 47239154--47239247 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
47239144 ACATAGGGGT
* * *
47239154 AAAACAGTCATCTTACCATAAAAGGTC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
47239181 AAAATAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
47239208 AAAACATTCATTTTACCTTATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
*
47239235 AAAATAGTCATTT
1 AAAACAGTCATTT
47239248 CAGTCAATCA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATATAAGGGC
Found at i:47239202 original size:54 final size:54
Alignment explanation
Indices: 47239143--47239247 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
47239133 AAACATACAT
* * *
47239143 CACATAGGGGTAAAACAGTCATCTTACCATAAAAGGTCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTACCATAAAAGGGCAAAATAGTCATTTTAC
* * * *
47239197 CACATAAGGGCAAAACATTCATTTTACCTTATAAGGGCAAAATAGTCATTT
1 CACATAAGGGCAAAACAGTCATCTTACCATAAAAGGGCAAAATAGTCATTT
47239248 CAGTCAATCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCATCTTACCATAAAAGGGCAAAATAGTCATTTTAC
Found at i:47243833 original size:27 final size:27
Alignment explanation
Indices: 47243538--47243887 Score: 415
Period size: 27 Copynumber: 13.0 Consensus size: 27
47243528 TAAAAAACTG
*
47243538 TCGATTTGTAAAATTATCGAGATACCC
1 TCGATTTGTAAAATTATCGAAATACCC
* *
47243565 TCGATTTGTGAAATTA-CTGAAACACCC
1 TCGATTTGTAAAATTATC-GAAATACCC
47243592 TCGATTTGTAAAATTATCGAAATACCC
1 TCGATTTGTAAAATTATCGAAATACCC
* *
47243619 TCAATTTGTAAAATTATTGAAATACCC
1 TCGATTTGTAAAATTATCGAAATACCC
* *
47243646 TTGA-TTGTGAAATT-TCTGAAATACCC
1 TCGATTTGTAAAATTATC-GAAATACCC
47243672 TCGATTTGTAAAATT-TCTGAAATACCC
1 TCGATTTGTAAAATTATC-GAAATACCC
* * *
47243699 CCGATTTGTGAAATTATCGAAACACCC
1 TCGATTTGTAAAATTATCGAAATACCC
* * *
47243726 TTGATTTGAAAAATTATTGAAATACCC
1 TCGATTTGTAAAATTATCGAAATACCC
47243753 TCGATTTGTAAAATTATCGAAATACCC
1 TCGATTTGTAAAATTATCGAAATACCC
* *
47243780 TCGATTTGTAAAATTACCGAAACACCC
1 TCGATTTGTAAAATTATCGAAATACCC
*
47243807 TCGATTTGTAAAATTATCAAAATACCC
1 TCGATTTGTAAAATTATCGAAATACCC
* *
47243834 TTG-TAGTGTAAAATTATCGAAATACCC
1 TCGAT-TTGTAAAATTATCGAAATACCC
* * * *
47243861 TTG-TAGTGTAAAATGATCGACATACCC
1 TCGAT-TTGTAAAATTATCGAAATACCC
47243888 CTGTAAGGTA
Statistics
Matches: 282, Mismatches: 35, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
25 1 0.00
26 23 0.08
27 255 0.90
28 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (27 bp):
TCGATTTGTAAAATTATCGAAATACCC
Found at i:47247540 original size:50 final size:50
Alignment explanation
Indices: 47247424--47247617 Score: 246
Period size: 50 Copynumber: 3.9 Consensus size: 50
47247414 CCAAACTATT
* * * * *
47247424 TGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACC-AATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
*
47247473 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
* * * *
47247523 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATC
* * * *
47247574 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
47247618 GCTACATATA
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
49 37 0.30
50 48 0.38
51 40 0.32
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
Found at i:47247635 original size:101 final size:99
Alignment explanation
Indices: 47247433--47247617 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
47247423 TTGGTACGCA
* * ** *
47247433 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATAGGGTACACATAGTAGCCTGCACTTA
47247498 GTACTACACACGTGACCTAACTATCTGATACACG
66 GTACTACACACGTGACCTAACTATCTGATACACG
* * *
47247532 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATAGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATAGGGTACACATAGTAGCCTGCACT
*
47247597 TAGTACTACACATGTGACCTA
64 TAGTACTACACACGTGACCTA
47247618 GCTACATATA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATAGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACTATCTGATACACG
Found at i:47248427 original size:30 final size:30
Alignment explanation
Indices: 47248393--47248453 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
47248383 TCCTTAACTC
*
47248393 AAACTTTTGCAAATTTATAATTTTGCCCCT
1 AAACTTTTGCAAATTTACAATTTTGCCCCT
* *
47248423 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAATTTACAATTTTGCCCCT
47248453 A
1 A
47248454 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAATTTACAATTTTGCCCCT
Found at i:47250379 original size:28 final size:28
Alignment explanation
Indices: 47250321--47250384 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
47250311 TGGGAAGTAG
* * **
47250321 TTGGGCCTGATGGGCCCTATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAAA
* *
47250349 TTGGGCCTGATGGGGCATGTGAACGAAA
1 TTGGGCCTGATGGGCCATATGAACGAAA
47250377 TTGGGCCT
1 TTGGGCCT
47250385 AAAGAGGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAAA
Found at i:47250756 original size:27 final size:27
Alignment explanation
Indices: 47250718--47251012 Score: 297
Period size: 27 Copynumber: 11.0 Consensus size: 27
47250708 GAAATATTCT
* *
47250718 GATTTGTAAAATTACCGAAAAACCCCC
1 GATTTGTAAAATTACCGAAATACCCTC
* * * *
47250745 GATTTGTGAAATTATCGAAACACCCTT
1 GATTTGTAAAATTACCGAAATACCCTC
* *
47250772 GATTTGTAAAATTATCGAAATACCCCC
1 GATTTGTAAAATTACCGAAATACCCTC
47250799 GATTTGTAAAATTACCGAAATACCCTC
1 GATTTGTAAAATTACCGAAATACCCTC
* * *
47250826 GA-TTGTGAAATTACTGAAATACCTTC
1 GATTTGTAAAATTACCGAAATACCCTC
* * * *
47250852 GATTTTTAACATTATCAAAATACCC-C
1 GATTTGTAAAATTACCGAAATACCCTC
* * *
47250878 TGATTTGTGAAATTACCGAAACACCCTT
1 -GATTTGTAAAATTACCGAAATACCCTC
* * **
47250906 AATTTTTAAAATTACTTAAATACCCTC
1 GATTTGTAAAATTACCGAAATACCCTC
* *
47250933 GATTTGTAAAATTATCGAAATACCTTC
1 GATTTGTAAAATTACCGAAATACCCTC
* * *
47250960 GATTTGTAAAATTACCAAAACACCCCC
1 GATTTGTAAAATTACCGAAATACCCTC
* * *
47250987 GATTTGTAAAATGATCGACATACCCT
1 GATTTGTAAAATTACCGAAATACCCT
47251013 ATAAGATAAA
Statistics
Matches: 213, Mismatches: 52, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
26 24 0.11
27 189 0.89
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (27 bp):
GATTTGTAAAATTACCGAAATACCCTC
Found at i:47250962 original size:134 final size:134
Alignment explanation
Indices: 47250699--47250974 Score: 371
Period size: 134 Copynumber: 2.1 Consensus size: 134
47250689 ATAATAAAGA
* *
47250699 GAAATTATTGAAATATTCTGATTTGTAAAATTACCGAAAAACCCCCGATTTGTGAAATTATCGAA
1 GAAATTACTGAAATATTCTGATTTGTAAAATTACCGAAAAACCCCCGATTTGTGAAATTACCGAA
*
47250764 ACACCCTTGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA-
66 ACACCCTTAATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGAT
47250828 TTGT
131 TTGT
* * * *
47250832 GAAATTACTGAAATACCTTC-GATTTTTAACATTATC-AAAATACCCCTGATTTGTGAAATTACC
1 GAAATTACTGAAATA--TTCTGATTTGTAAAATTACCGAAAA-ACCCCCGATTTGTGAAATTACC
* * * * *
47250895 GAAACACCCTTAATTTTTAAAATTA-CTTAAATACCCTCGATTTGTAAAATTATCGAAATACCTT
63 GAAACACCCTTAATTTGTAAAATTATC-GAAATACCCCCGATTTGTAAAATTACCGAAATACCCT
47250959 CGATTTGT
127 CGATTTGT
*
47250967 AAAATTAC
1 GAAATTAC
47250975 CAAAACACCC
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
133 19 0.15
134 92 0.74
135 14 0.11
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (134 bp):
GAAATTACTGAAATATTCTGATTTGTAAAATTACCGAAAAACCCCCGATTTGTGAAATTACCGAA
ACACCCTTAATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGAT
TTGT
Found at i:47256455 original size:26 final size:26
Alignment explanation
Indices: 47256313--47256456 Score: 182
Period size: 26 Copynumber: 5.5 Consensus size: 26
47256303 AACACGTCTA
* *
47256313 GAAAGAAAGCCTTTGTGGCATAATAT
1 GAAAGAAAGCTTTTGTGGCGTAATAT
* * *
47256339 GAAACAAAGCCTTTGTGGAGTAATAT
1 GAAAGAAAGCTTTTGTGGCGTAATAT
*
47256365 GAAAGAAAG-TCTTTGTGGCATAATAT
1 GAAAGAAAGCT-TTTGTGGCGTAATAT
*
47256391 GAAAGAAAGCTTTTGTGGTGTAATAT
1 GAAAGAAAGCTTTTGTGGCGTAATAT
* *
47256417 GAAAGAAAACTTTTGTGGTGTAATAT
1 GAAAGAAAGCTTTTGTGGCGTAATAT
*
47256443 GAAAGAATGCTTTT
1 GAAAGAAAGCTTTT
47256457 CAGGAAAATT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 103 0.99
27 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (26 bp):
GAAAGAAAGCTTTTGTGGCGTAATAT
Found at i:47257158 original size:22 final size:21
Alignment explanation
Indices: 47257109--47257159 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
47257099 TTAGTTTTAA
* *
47257109 ATGTTATTTAGTCTTTAAATGC
1 ATGTT-TTTAGCCATTAAATGC
*
47257131 AAGTTTTTAGCCATTAAATTGC
1 ATGTTTTTAGCCATTAAA-TGC
47257153 ATGTTTT
1 ATGTTTT
47257160 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (21 bp):
ATGTTTTTAGCCATTAAATGC
Found at i:47258493 original size:39 final size:38
Alignment explanation
Indices: 47258376--47258494 Score: 150
Period size: 39 Copynumber: 3.1 Consensus size: 38
47258366 AACATGTTTT
* *
47258376 TGAGTATTGTGATATATGCTGAAATGTTATGAGATTAAA
1 TGAGTATTGTGATATATGCTG-AATGTTATGTGATTATA
* *
47258415 TGTA-TATTGTGAAATATGCATGAATGTTATGTGACTATA
1 TG-AGTATTGTGATATATGC-TGAATGTTATGTGATTATA
*
47258454 TGAGTATTGTGATATATGCTTGAATGTTAGGTGATTATA
1 TGAGTATTGTGATATATGC-TGAATGTTATGTGATTATA
47258493 TG
1 TG
47258495 TGTAATAGGA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 65 0.94
40 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (38 bp):
TGAGTATTGTGATATATGCTGAATGTTATGTGATTATA
Found at i:47258507 original size:39 final size:39
Alignment explanation
Indices: 47258376--47258513 Score: 111
Period size: 39 Copynumber: 3.5 Consensus size: 39
47258366 AACATGTTTT
* * * * *
47258376 TGAGTATTGTGATATATGC-TGAAATGTTATGAGATTAAA
1 TGAGTATAGTGATATATGCTTG-AATGTTAGGTGACTATA
* * * *
47258415 TGTA-TATTGTGAAATATGCATGAATGTTATGTGACTATA
1 TG-AGTATAGTGATATATGCTTGAATGTTAGGTGACTATA
* *
47258454 TGAGTATTGTGATATATGCTTGAATGTTAGGTGATTATA
1 TGAGTATAGTGATATATGCTTGAATGTTAGGTGACTATA
* *
47258493 TGTGTAATAG-GATATACGCTT
1 TGAGT-ATAGTGATATATGCTT
47258514 AAAACTAAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 77 0.92
40 6 0.07
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (39 bp):
TGAGTATAGTGATATATGCTTGAATGTTAGGTGACTATA
Done.