Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 135 of 290
Found at i:45755632 original size:22 final size:21
Alignment explanation
Indices: 45755580--45755643 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
45755570 AAAGGATATC
*
45755580 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
45755601 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
45755624 TACATATCATATC-C-AAGAT
1 TACAAATCATATCTCTAAGAT
45755643 T
1 T
45755644 GCATATCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
21 3 0.08
22 18 0.46
23 11 0.28
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:45756025 original size:24 final size:24
Alignment explanation
Indices: 45755975--45756034 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
45755965 TGCCTCGTCG
*
45755975 GAGCACCACCGAAATGGCTCGCTA
1 GAGCACCACCGAAATGGCTCGCCA
**
45755999 GAGCACCACC-AGAATGGCTTTCCA
1 GAGCACCACCGA-AATGGCTCGCCA
*
45756023 GAGCACCTCCGA
1 GAGCACCACCGA
45756035 GAACCTAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.28, C:0.35, G:0.23, T:0.13
Consensus pattern (24 bp):
GAGCACCACCGAAATGGCTCGCCA
Found at i:45761744 original size:53 final size:53
Alignment explanation
Indices: 45761663--45761773 Score: 186
Period size: 53 Copynumber: 2.1 Consensus size: 53
45761653 GCCCAATACT
45761663 TTTCCTATTGATTCATCAAATTCCTAAGTTTACTATTCAAAGCTTTAAGTCTA
1 TTTCCTATTGATTCATCAAATTCCTAAGTTTACTATTCAAAGCTTTAAGTCTA
* * * *
45761716 TTTCCTCTTGATTCATCAAATTCTTAAGTTTACTCTTCAAAGCTTTAAGTCTG
1 TTTCCTATTGATTCATCAAATTCCTAAGTTTACTATTCAAAGCTTTAAGTCTA
45761769 TTTCC
1 TTTCC
45761774 CTCATACGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (53 bp):
TTTCCTATTGATTCATCAAATTCCTAAGTTTACTATTCAAAGCTTTAAGTCTA
Found at i:45765144 original size:94 final size:94
Alignment explanation
Indices: 45764983--45765157 Score: 332
Period size: 94 Copynumber: 1.9 Consensus size: 94
45764973 ATCCCATCTA
45764983 AATGCGAGCACCGTCCTTACAATGCCAAAAGGGTTTAAGGGTCTCGATTGACGAACATGCACGAC
1 AATGCGAGCACCGTCCTTACAATGCCAAAAGGGTTTAAGGGTCTCGATTGACGAACATGCACGAC
* *
45765048 TCCGAATGAGGTTACTAACCTGGGGTCAC
66 TCCAAACGAGGTTACTAACCTGGGGTCAC
45765077 AATGCGAGCACCGTCCTTACAATGCCAAAAGGGTTTAAGGGTCTCGATTGACGAACATGCACGAC
1 AATGCGAGCACCGTCCTTACAATGCCAAAAGGGTTTAAGGGTCTCGATTGACGAACATGCACGAC
45765142 TCCAAACGAGGTTACT
66 TCCAAACGAGGTTACT
45765158 TATAACATTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (94 bp):
AATGCGAGCACCGTCCTTACAATGCCAAAAGGGTTTAAGGGTCTCGATTGACGAACATGCACGAC
TCCAAACGAGGTTACTAACCTGGGGTCAC
Found at i:45766321 original size:20 final size:20
Alignment explanation
Indices: 45766281--45766321 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45766271 TTTTCGAATC
* *
45766281 ATTGTCCTATTCTAAGGGAT
1 ATTGCCCTATTCTAAGAGAT
*
45766301 ATTGCCCTATTCTAATAGAT
1 ATTGCCCTATTCTAAGAGAT
45766321 A
1 A
45766322 CTGTAGGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
ATTGCCCTATTCTAAGAGAT
Found at i:45770569 original size:20 final size:20
Alignment explanation
Indices: 45770546--45770614 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
45770536 TTATGAGGTG
45770546 ATACTAAAAAATACAAGGGA
1 ATACTAAAAAATACAAGGGA
* ** *
45770566 ATACAAAAAAATATGAGGAA
1 ATACTAAAAAATACAAGGGA
45770586 ATA-TCAAAAAATACAAGGGA
1 ATACT-AAAAAATACAAGGGA
*
45770606 TTACTAAAA
1 ATACTAAAA
45770615 GAATGTGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (20 bp):
ATACTAAAAAATACAAGGGA
Found at i:45770573 original size:40 final size:40
Alignment explanation
Indices: 45770529--45770624 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
45770519 ATAAGACTAC
* **
45770529 CAAAAAATTATGAGGTGATA-CTAAAAAATACAAGGGAATA
1 CAAAAAAATATGAGGAAATATC-AAAAAATACAAGGGAATA
*
45770569 CAAAAAAATATGAGGAAATATCAAAAAATACAAGGGATTA
1 CAAAAAAATATGAGGAAATATCAAAAAATACAAGGGAATA
* *
45770609 CTAAAAGAATGTGAGG
1 C-AAAAAAATATGAGG
45770625 GAAAACTCGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 35 0.73
41 13 0.27
ACGTcount: A:0.55, C:0.07, G:0.19, T:0.19
Consensus pattern (40 bp):
CAAAAAAATATGAGGAAATATCAAAAAATACAAGGGAATA
Found at i:45772892 original size:21 final size:19
Alignment explanation
Indices: 45772845--45772926 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
45772835 GGAGGTTACA
* *
45772845 AGAGAATA-CTAAAAAATA
1 AGAGAATACCAAAAAAATG
* *
45772863 AGGGCATACCAAAAAAATG
1 AGAGAATACCAAAAAAATG
*
45772882 AGAGGAAATACCAAAAAAATT
1 AGA-G-AATACCAAAAAAATG
*
45772903 AGAGAATACTAAAAAAATG
1 AGAGAATACCAAAAAAATG
*
45772922 TGAGA
1 AGAGA
45772927 GTATAAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
18 6 0.12
19 27 0.53
20 2 0.04
21 16 0.31
ACGTcount: A:0.60, C:0.09, G:0.17, T:0.15
Consensus pattern (19 bp):
AGAGAATACCAAAAAAATG
Found at i:45772926 original size:19 final size:19
Alignment explanation
Indices: 45772846--45772937 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 19
45772836 GAGGTTACAA
*
45772846 GAGAATACTAAAAAATAAG-
1 GAGAATACTAAAAAA-ATGT
* * *
45772865 G-GCATACCAAAAAAATGA
1 GAGAATACTAAAAAAATGT
*
45772883 GAGGAAATACCAAAAAAAT-T
1 GA-G-AATACTAAAAAAATGT
45772903 AGAGAATACTAAAAAAATGT
1 -GAGAATACTAAAAAAATGT
*
45772923 GAGAGTA-TAAAAAAA
1 GAGAATACTAAAAAAA
45772938 AATATGATGG
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
17 2 0.03
18 20 0.33
19 20 0.33
20 3 0.05
21 15 0.25
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.15
Consensus pattern (19 bp):
GAGAATACTAAAAAAATGT
Found at i:45772927 original size:21 final size:21
Alignment explanation
Indices: 45772868--45772940 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
45772858 AAATAAGGGC
*
45772868 ATACCAAAAAAATGAGAG-GAA
1 ATACCAAAAAAATGTGAGAG-A
45772889 ATACCAAAAAAAT-T-AGAGA
1 ATACCAAAAAAATGTGAGAGA
* *
45772908 ATACTAAAAAAATGTGAGAGT
1 ATACCAAAAAAATGTGAGAGA
*
45772929 ATA-AAAAAAAAT
1 ATACCAAAAAAAT
45772941 ATGATGGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 15 0.33
20 10 0.22
21 20 0.44
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (21 bp):
ATACCAAAAAAATGTGAGAGA
Found at i:45773302 original size:21 final size:20
Alignment explanation
Indices: 45773269--45773311 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
45773259 TAAAAAAAAC
45773269 AAAAAACTATGAGGAAGTACT
1 AAAAAACTATGAGGAA-TACT
*
45773290 AAAAAAC-ACTGAGGGATACT
1 AAAAAACTA-TGAGGAATACT
45773310 AA
1 AA
45773312 TTTTGGTCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.53, C:0.12, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAAAACTATGAGGAATACT
Found at i:45773817 original size:14 final size:14
Alignment explanation
Indices: 45773769--45773818 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
45773759 TAATTTAATG
45773769 TGTAATTATATATA
1 TGTAATTATATATA
*
45773783 TG-AACTT-TAATTTA
1 TGTAA-TTAT-ATATA
45773797 GTGTAATTATATATA
1 -TGTAATTATATATA
45773812 TGTAATT
1 TGTAATT
45773819 CTAATTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 3 0.10
14 15 0.52
15 8 0.28
16 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (14 bp):
TGTAATTATATATA
Found at i:45777053 original size:47 final size:47
Alignment explanation
Indices: 45776984--45777142 Score: 170
Period size: 46 Copynumber: 3.4 Consensus size: 47
45776974 GATGCCGAGC
*
45776984 CCCAGACATGGTCTTACACTGGCTTAT-ATCTC-AGGTCAAAGCCATGT
1 CCCAGACATGGTCTTACACTGGCTTATCATCTCGA-GCCAAAG-CATGT
* *
45777031 CCCAGACATGGTCTTACACTGGC-TATCATCTCGTAGCCGACGCATGT
1 CCCAGACATGGTCTTACACTGGCTTATCATCTCG-AGCCAAAGCATGT
*
45777078 CCCAGACAT-GTCTTACACTGGCTTA-CGTCTCGAGGCCAATA-CATGT
1 CCCAGACATGGTCTTACACTGGCTTATCATCTCGA-GCCAA-AGCATGT
* *
45777124 CTCAAACAT-GTCTTACACT
1 CCCAGACATGGTCTTACACT
45777143 AACACTCGTC
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
45 1 0.01
46 48 0.49
47 44 0.45
48 4 0.04
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CCCAGACATGGTCTTACACTGGCTTATCATCTCGAGCCAAAGCATGT
Found at i:45784845 original size:20 final size:20
Alignment explanation
Indices: 45784820--45784867 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
45784810 ATTCTGTATG
45784820 CACACCTCCTCCACTTGAGT
1 CACACCTCCTCCACTTGAGT
45784840 CACACCTCCTCCACTTGAGT
1 CACACCTCCTCCACTTGAGT
45784860 CACACCTC
1 CACACCTC
45784868 ATTACTAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.48, G:0.08, T:0.23
Consensus pattern (20 bp):
CACACCTCCTCCACTTGAGT
Found at i:45792624 original size:30 final size:30
Alignment explanation
Indices: 45792590--45792650 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45792580 TCCTTAACTC
45792590 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45792620 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45792650 A
1 A
45792651 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:45795557 original size:19 final size:19
Alignment explanation
Indices: 45795533--45795571 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45795523 CGACCAACAC
45795533 GATAATCAAATACACTAAA
1 GATAATCAAATACACTAAA
45795552 GATAATCAAATACACTAAA
1 GATAATCAAATACACTAAA
45795571 G
1 G
45795572 GAATATCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.21
Consensus pattern (19 bp):
GATAATCAAATACACTAAA
Found at i:45796015 original size:18 final size:18
Alignment explanation
Indices: 45795982--45796016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45795972 GAAGATGAAA
*
45795982 CATAAAAATAACAAAAAC
1 CATAAAAAAAACAAAAAC
*
45796000 CATAAAAAAAATAAAAA
1 CATAAAAAAAACAAAAA
45796017 GAGGGATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (18 bp):
CATAAAAAAAACAAAAAC
Found at i:45803623 original size:20 final size:20
Alignment explanation
Indices: 45803591--45803637 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45803581 CGGCAATGTT
*
45803591 TAAGTTGTGAAAGA-CTATGG
1 TAAGTTGTAAAAGATC-ATGG
*
45803611 TATGTTGTAAAAGATCATGG
1 TAAGTTGTAAAAGATCATGG
45803631 TAAGTTG
1 TAAGTTG
45803638 CAAGTGGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (20 bp):
TAAGTTGTAAAAGATCATGG
Found at i:45807015 original size:27 final size:26
Alignment explanation
Indices: 45806985--45807084 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
45806975 GGTGGCTACG
*
45806985 CCACAATTATTTGATCTGGTGGCTCTA
1 CCAC-ATTATCTGATCTGGTGGCTCTA
* *
45807012 CCACATATATCTGTTCTGGTGGCTCTG
1 CCACAT-TATCTGATCTGGTGGCTCTA
* *
45807039 CCACGATTATCTGTATCTGGTGACTCTG
1 CCAC-ATTATCTG-ATCTGGTGGCTCTA
* *
45807067 TCACATTATCTGTTCTGG
1 CCACATTATCTGATCTGG
45807085 CAGCCATGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.11
27 39 0.62
28 17 0.27
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
CCACATTATCTGATCTGGTGGCTCTA
Found at i:45807077 original size:54 final size:54
Alignment explanation
Indices: 45806974--45807084 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
45806964 GGAAGCGTCT
* *
45806974 TGGTGGCTACGCCACAATTATTTGATCTGGTGGCTCTACCACATATATCTGTTC
1 TGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTC
* **
45807028 TGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTTC
45807082 TGG
1 TGG
45807085 CAGCCATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.64
55 17 0.34
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
TGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTC
Found at i:45814114 original size:20 final size:19
Alignment explanation
Indices: 45814076--45814114 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45814066 TTTGGATAAC
*
45814076 TTTTTGAAAAACATATTAA
1 TTTTCGAAAAACATATTAA
*
45814095 TTTTCGAAAACACATCTTAA
1 TTTTCGAAAA-ACATATTAA
45814115 ACAGTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTTCGAAAAACATATTAA
Found at i:45818109 original size:26 final size:26
Alignment explanation
Indices: 45818079--45818130 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
45818069 TGAAATGCCC
45818079 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45818105 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45818131 GTCAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45821313 original size:58 final size:58
Alignment explanation
Indices: 45821223--45821334 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
45821213 GTAACGCCCC
* *
45821223 AATTTTTGGGAATCCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAG
1 AATTTTCGAGAATCCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAG
*
45821281 AATTTTCGAGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
1 AATTTTCGAGAATCCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
45821335 TTAAAAGGCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (58 bp):
AATTTTCGAGAATCCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAG
Found at i:45821618 original size:26 final size:26
Alignment explanation
Indices: 45821589--45822490 Score: 1786
Period size: 26 Copynumber: 34.7 Consensus size: 26
45821579 TTAGGTAAAT
45821589 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821615 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821641 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821667 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821693 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821719 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821745 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821771 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821797 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821823 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821849 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821875 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821901 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821927 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821953 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45821979 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822005 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822031 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822057 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822083 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822109 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822135 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822161 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822187 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822213 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822239 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822265 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822291 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822317 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822343 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822369 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822395 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
45822421 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
*
45822447 GTAAATGTTTCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
*
45822473 GTAAATGTTTCATGATAA
1 GTAAATGTTCCATGATAA
45822491 GAATTTCATG
Statistics
Matches: 875, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 875 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
GTAAATGTTCCATGATAATGGGTTAG
Found at i:45824151 original size:27 final size:27
Alignment explanation
Indices: 45824110--45824222 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
45824100 GAGGAACCGT
*
45824110 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
45824137 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
45824164 TCTGGTGGCTCTGCCACGATTATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
45824192 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
45824218 TCTGG
1 TCTGG
45824223 CACCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:45824215 original size:54 final size:54
Alignment explanation
Indices: 45824108--45824222 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
45824098 TGGAGGAACC
*
45824108 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
45824162 GTTCTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
45824216 GTTCTGG
1 GTTCTGG
45824223 CACCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:45825133 original size:47 final size:47
Alignment explanation
Indices: 45825065--45825159 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
45825055 AGAATGGAAA
45825065 TTTTTTTTTTACGTTTTTGATGTGGCATGCCGAATCCGGCCATAACT
1 TTTTTTTTTTACGTTTTTGATGTGGCATGCCGAATCCGGCCATAACT
*
45825112 TTTTTTTTTTACGTTTTTGATGTGGCATGCCGATTCCGGCCATAACT
1 TTTTTTTTTTACGTTTTTGATGTGGCATGCCGAATCCGGCCATAACT
45825159 T
1 T
45825160 CTGGGCTGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (47 bp):
TTTTTTTTTTACGTTTTTGATGTGGCATGCCGAATCCGGCCATAACT
Found at i:45828245 original size:26 final size:26
Alignment explanation
Indices: 45828209--45828318 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
45828199 TGATACAAAT
*
45828209 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
45828235 TGATAATAGGTTAGGTAAATGTTACA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
45828261 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
45828287 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
45828313 TGATAA
1 TGATAA
45828319 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:45829802 original size:28 final size:26
Alignment explanation
Indices: 45829760--45829830 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
45829750 GAAAGTAGCT
* * * *
45829760 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCC--TGGATGCA
*
45829788 AAATTACTGTTATACCCCTGGGTGCA
1 AAATTACTGTTATACCCCTGGATGCA
45829814 AAATTACTGTTATACCC
1 AAATTACTGTTATACCC
45829831 GTAGGGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 22 0.58
28 16 0.42
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTGGATGCA
Found at i:45829979 original size:27 final size:27
Alignment explanation
Indices: 45829938--45830050 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
45829928 GAGGAACCGT
*
45829938 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
45829965 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
45829992 TCTAGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
45830020 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
45830046 TCTGG
1 TCTGG
45830051 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:45830043 original size:54 final size:54
Alignment explanation
Indices: 45829936--45830048 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
45829926 TGGAGGAACC
* *
45829936 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTAGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
45829990 GTTCTAGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTAGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
45830044 GTTCT
1 GTTCT
45830049 GGCAGCCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
GTTCTAGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:45833231 original size:20 final size:20
Alignment explanation
Indices: 45833193--45833233 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45833183 TAAATTTTAA
* **
45833193 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGGTAATT
45833213 AAAGATAAATAAAGGTAATT
1 AAAGATAAATAAAGGTAATT
45833233 A
1 A
45833234 GAATAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGGTAATT
Found at i:45833843 original size:28 final size:28
Alignment explanation
Indices: 45833786--45833847 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
45833776 AATTATAATA
**
45833786 ATTATCTCTTAAATTTAAAATAATTGTT
1 ATTATCTCTTAAATTTAAAATAATCATT
*
45833814 ATTATCTCTTAAAATTTTAAA-AATCATT
1 ATTATCTCTT-AAATTTAAAATAATCATT
45833842 ATTATC
1 ATTATC
45833848 ATAAATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTATCTCTTAAATTTAAAATAATCATT
Found at i:45837354 original size:21 final size:20
Alignment explanation
Indices: 45837329--45837367 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
45837319 ATGTAAAACT
*
45837329 ATCATCAACTATTCAAATTCC
1 ATCATCAACCA-TCAAATTCC
45837350 ATCATCAACCATCAAATT
1 ATCATCAACCATCAAATT
45837368 ACTCAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (20 bp):
ATCATCAACCATCAAATTCC
Found at i:45846210 original size:26 final size:26
Alignment explanation
Indices: 45846179--45846284 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
45846169 TGAAATGCCC
*
45846179 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45846205 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45846231 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45846257 ATCATGTAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45846283 AT
1 AT
45846285 TAATTTGTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45847847 original size:29 final size:29
Alignment explanation
Indices: 45847790--45847847 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
45847780 TCAGACATTT
*
45847790 CCCTACAAACTCCGTTACTTCTCGCTTAA
1 CCCTACAAACTCCGTTACTTCTCACTTAA
* *
45847819 CCCTACAAACTCTGTTACTTCTCATTTAA
1 CCCTACAAACTCCGTTACTTCTCACTTAA
45847848 GTCTAGGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.34
Consensus pattern (29 bp):
CCCTACAAACTCCGTTACTTCTCACTTAA
Found at i:45852967 original size:26 final size:26
Alignment explanation
Indices: 45852935--45853042 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
45852925 TGAAATGCCC
45852935 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
45852961 ATAATGGAAGATTTACCT-AACTCGTT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
45852987 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
45853013 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
45853039 ATCA
1 ATCA
45853043 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
25 3 0.04
26 66 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:45853013 original size:52 final size:52
Alignment explanation
Indices: 45852935--45853042 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
45852925 TGAAATGCCC
* * *
45852935 ATCATGGAACATTTACCTAAACCATTATAATGGAAGATTTACCTAACTCGTT
1 ATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCATT
* * *
45852987 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCATT
45853039 ATCA
1 ATCA
45853043 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:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCATT
Found at i:45856723 original size:94 final size:94
Alignment explanation
Indices: 45856524--45856931 Score: 286
Period size: 94 Copynumber: 4.4 Consensus size: 94
45856514 TGATTTGTGC
* * * * *
45856524 GCCAGTGTAAGA-CATGTATGGGACAT-GCTTCGGC-CACATTATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACACA-GACGAGGGCCAGTGTAAGA-CAT
* * * *
45856586 GTCTAGGACATGGCATCGGCATC-CAGACGA-A
64 GTCTGGGACAT-GAATCAGCCTCACAGA-GATA
* * *
45856617 GGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCATC-CAGACGAGGGCTAGTGTAAGACAT
1 -GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CACAGACGAGGGCCAGTGTAAGACAT
* *
45856681 GTGTGGGATATGAATCAGCCAT-ACTA-AGATA
64 GTCTGGGACATGAATCAGCC-TCAC-AGAGATA
* * * * * *
45856712 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGTACAGAGATGAGTGCCAGTGTAAGACATTT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACACAGACGAGGGCCAGTGTAAGACATGT
* *
45856777 CTGGGACATGCATCGGCCTCGACAGAGATA
66 CTGGGACATGAATCAGCCTC-ACAGAGATA
* * * * *
45856807 GCCAGTGTAAGA-CGTGTCTGGGACA-CGCATC-G-ACTA-AGA-GTTGTGCTAGTGTAAGACAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-ACAGACG-AGGGCCAGTGTAAGACAT
* * * * * *
45856866 GTCTAGGACATGCATCAGCACGCATATATGAGA
64 GTCTGGGACATGAATCAGC-CTCACAGA-GATA
* *
45856899 GCCAGAGTAAGACCATGTCTGGAACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
45856932 AGCAATATAT
Statistics
Matches: 253, Mismatches: 43, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
90 1 0.00
91 40 0.16
92 18 0.07
93 18 0.07
94 104 0.41
95 47 0.19
96 22 0.09
97 2 0.01
98 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACACAGACGAGGGCCAGTGTAAGACATGT
CTGGGACATGAATCAGCCTCACAGAGATA
Found at i:45856769 original size:48 final size:45
Alignment explanation
Indices: 45856524--45856931 Score: 194
Period size: 48 Copynumber: 8.7 Consensus size: 45
45856514 TGATTTGTGC
* * * **
45856524 GCCAGTGTAAGACATGTATGGGACAT-GCTTCGGCCACA-TTATGAG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGG-TACAGAGAT-AG
* *
45856569 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCCAGACGA-AG
1 -GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGG--TACAGA-GATAG
* * * *
45856618 GCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCATCCAGACGA-GG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGG--TACAGA-GATAG
* * * * *
45856666 GCTAGTGTAAGACATGTGTGGGATAT-GAATCAGCCATACTA-AGATA-
1 GCCAGTGTAAGACATGTCTGGGACATGGCATC-G--GTAC-AGAGATAG
*
45856712 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGTACAGAGATGAG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGTACAGAGAT-AG
*
45856759 TGCCAGTGTAAGACATTTCTGGGACAT-GCATCGGCCTCGACAGAGATA-
1 -GCCAGTGTAAGACATGTCTGGGACATGGCATCGG--T--ACAGAGATAG
* * * *
45856807 GCCAGTGTAAGACGTGTCTGGGACA-CGCATCGACTA-AGAG-TTG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCG-GTACAGAGATAG
* * * * * *
45856850 TGCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCACGCATATATGAG
1 -GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTA--CAGAGAT-AG
* *
45856898 AGCCAGAGTAAGACCATGTCTGGAACATGGCATC
1 -GCCAGTGTAAGA-CATGTCTGGGACATGGCATC
45856932 AGCAATATAT
Statistics
Matches: 286, Mismatches: 44, Indels: 60
0.73 0.11 0.15
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 29 0.10
45 7 0.02
46 40 0.14
47 82 0.29
48 91 0.32
49 17 0.06
50 13 0.05
51 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTACAGAGATAG
Found at i:45870705 original size:19 final size:18
Alignment explanation
Indices: 45870657--45870708 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
45870647 ATGCACCTTG
45870657 TGTGCCAGATATGCGCTTC
1 TGTGCCAG-TATGCGCTTC
45870676 -GTGACCTAGTATGCGCTTC
1 TGTG-CC-AGTATGCGCTTC
45870695 ATGTGCCAGTATGC
1 -TGTGCCAGTATGC
45870709 TACATTCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 4 0.14
21 3 0.10
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.31
Consensus pattern (18 bp):
TGTGCCAGTATGCGCTTC
Found at i:45872121 original size:21 final size:21
Alignment explanation
Indices: 45872096--45872135 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45872086 CAAAAAGGGC
*
45872096 TTAATCGTGTAAAG-TGAAAAG
1 TTAATAGT-TAAAGATGAAAAG
45872117 TTAATAGTTAAAGATGAAA
1 TTAATAGTTAAAGATGAAA
45872136 GTGCTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (21 bp):
TTAATAGTTAAAGATGAAAAG
Found at i:45872250 original size:21 final size:22
Alignment explanation
Indices: 45872224--45872269 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
45872214 GGACAACCAA
* *
45872224 TATAAAGATT-TTATATTAATT
1 TATAAAGATTATTATAGTAAAT
*
45872245 TATAAAGGTTATTATAGTAAAT
1 TATAAAGATTATTATAGTAAAT
45872267 TAT
1 TAT
45872270 GAATTATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
TATAAAGATTATTATAGTAAAT
Found at i:45876496 original size:35 final size:35
Alignment explanation
Indices: 45876419--45876497 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
45876409 AATCCCTCCA
* * *
45876419 AAACATACCAAATGCTCACAAGAGCTAGTCTAACT
1 AAACATGCCAAATGCTCACAAGAGCTAGTCCAACG
*
45876454 AAGACATGCC-AATGCTCATAAGAGCTAGTCCAACCG
1 AA-ACATGCCAAATGCTCACAAGAGCTAGTCCAA-CG
45876490 AAACATGC
1 AAACATGC
45876498 TAACCAGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 29 0.76
36 9 0.24
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.18
Consensus pattern (35 bp):
AAACATGCCAAATGCTCACAAGAGCTAGTCCAACG
Found at i:45883190 original size:48 final size:48
Alignment explanation
Indices: 45883056--45883235 Score: 176
Period size: 48 Copynumber: 3.9 Consensus size: 48
45883046 GGTTATGTGC
*
45883056 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* **** *
45883104 AATTTTGTGTAAGTCCATAGT-TGGG-CTAT--CA---GCATCGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGAC-ATGGCATTGGCATCGATATGT
* * **
45883147 GATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
45883195 GATCCCATGTAAGGCCATGTCTGGGACATGGCATTGACATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
45883236 CTACCATGTG
Statistics
Matches: 103, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 29 0.28
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 65 0.63
49 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:45884494 original size:20 final size:21
Alignment explanation
Indices: 45884469--45884508 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45884459 CTCTTAAAAT
45884469 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
45884489 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCCCGTGTGG
45884509 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:45885667 original size:49 final size:47
Alignment explanation
Indices: 45885553--45885863 Score: 189
Period size: 47 Copynumber: 6.6 Consensus size: 47
45885543 ATGATCCCGT
* *
45885553 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--TATCAAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-ACT-ATCAATATCAAGCCGA
* * *
45885600 TGCCATGTCCTAGACATGGTCTTACACTCACTATCAAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-ACTATCAATATC-AAGCCGA
* * *
45885649 TGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTA-CTATCA-ATAT-CAAGCCGA
* * *
45885699 TGCCATGTCCCAGACATTGTCTTAC-CTGAC-A-C-ATCTCGTAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-ACTATCAATATC-AAGCCGA
* * * * * * **
45885744 -GGCATGTCCCTGACAT-GTCTTACACTGGCT-T-ACATCTTGAGGTTGA
1 TGCCATGTCCCAGACATGGTCTTACACT-ACTATCA-AT-ATCAAGCCGA
* * * * *
45885790 TG-CATGTCCTAGACAT-GTCTTACACTAGCTCT-AGTCTCAATGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTA-CTATCAATATCAA-GCCGA
45885836 TGCCATGTCCCAGACATGGTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
45885864 GGCTCTCATA
Statistics
Matches: 209, Mismatches: 35, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
43 7 0.03
44 19 0.09
45 10 0.05
46 39 0.19
47 47 0.22
48 14 0.07
49 39 0.19
50 33 0.16
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
TGCCATGTCCCAGACATGGTCTTACACTACTATCAATATCAAGCCGA
Found at i:45885797 original size:46 final size:46
Alignment explanation
Indices: 45885745--45885869 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
45885735 CGTAGCCGAG
** *
45885745 GCATGTCCCTGACATGTCTTACACTGGCT-TACATCTTGAGGTTGAT
1 GCATGTCCCTGACATGTCTTACACTGGCTCTA-ATCTCAAGGCTGAT
* * *
45885791 GCATGT-CCTAGACATGTCTTACACTAGCTCTAGTCTCAATGCTGAT
1 GCATGTCCCT-GACATGTCTTACACTGGCTCTAATCTCAAGGCTGAT
*
45885837 GCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 G-CATGTCCCTGACAT-GTCTTACACTGGCTCT
45885870 CATAATGTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 3 0.05
46 34 0.52
47 12 0.18
48 17 0.26
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (46 bp):
GCATGTCCCTGACATGTCTTACACTGGCTCTAATCTCAAGGCTGAT
Found at i:45885867 original size:94 final size:93
Alignment explanation
Indices: 45885553--45885912 Score: 285
Period size: 94 Copynumber: 3.8 Consensus size: 93
45885543 ATGATCCCGT
* * *
45885553 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TA-TCAAGTCGATGCCATGTCCTAGACA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATTCAGGCCGATGCCATGTCCCAGACA
* *
45885616 TGGTCTTACACT--CACTATCAAAATCGAGGCCGA
65 T-GTCTTACACTAGCTCTATC----TC-ATGCCGA
* * * *
45885649 TGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATATTCAGGCCGATGCCATGTCCCAGAC
* *
45885714 ATTGTCTTAC-CT-GACAC-ATCTCGTAGCCGA
64 A-TGTCTTACACTAG-CTCTATCTCAT-GCCGA
* * * * ** *
45885744 -GGCATGTCCCTGACAT-GTCTTACACTGGCT-TACATCTTGAGGTTGATG-CATGTCCTAGACA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATTCAGGCCGATGCCATGTCCCAGACA
*
45885805 TGTCTTACACTAGCTCTAGTCTCAATGCTGA
65 TGTCTTACACTAGCTCTA-TCTC-ATGCCGA
* ** * *
45885836 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-TATGTCCCATACAT
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTCAGGCCGATGCCATGTCCCAGACAT
45885900 GTCTTACACTAGC
66 GTCTTACACTAGC
45885913 ACACAAATAA
Statistics
Matches: 216, Mismatches: 32, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
89 8 0.04
90 16 0.07
91 13 0.06
92 9 0.04
93 28 0.13
94 62 0.29
95 9 0.04
96 31 0.14
97 1 0.00
98 4 0.02
99 31 0.14
100 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTCAGGCCGATGCCATGTCCCAGACAT
GTCTTACACTAGCTCTATCTCATGCCGA
Found at i:45890943 original size:29 final size:29
Alignment explanation
Indices: 45890901--45890961 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
45890891 GCAAATGAGT
45890901 AAGTCACTGCAGTCCTTATCTAAGAAACC
1 AAGTCACTGCAGTCCTTATCTAAGAAACC
*
45890930 AAGTCACTGCAGTCCTTATCTATGAAACC
1 AAGTCACTGCAGTCCTTATCTAAGAAACC
45890959 AAG
1 AAG
45890962 AGAGTTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGTCACTGCAGTCCTTATCTAAGAAACC
Found at i:45897363 original size:22 final size:22
Alignment explanation
Indices: 45897338--45897393 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
45897328 CTCGTATGAA
* *
45897338 CTTACTGTTCAACTTGA-TAGAG
1 CTTACTGTTCAA-ATCATTAGAG
*
45897360 CTTACCGTTTCAAATCATTAGAG
1 CTTACTG-TTCAAATCATTAGAG
45897383 CTTACTGTTCA
1 CTTACTGTTCA
45897394 TCAACTCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (22 bp):
CTTACTGTTCAAATCATTAGAG
Found at i:45904511 original size:68 final size:68
Alignment explanation
Indices: 45904409--45904539 Score: 253
Period size: 68 Copynumber: 1.9 Consensus size: 68
45904399 AGAAATTCTG
45904409 CACAGCTGGGTTGGGCTTATTTATCTATAAGCAAATTTTGAACAACATTAGTAAGCTTATCAATT
1 CACAGCTGGGTTGGGCTTATTTATCTATAAGCAAATTTTGAACAACATTAGTAAGCTTATCAATT
45904474 CAA
66 CAA
*
45904477 CACAGCTGGGTTGGGCTTATTTATCTATAAGCAAATTTTTAACAACATTAGTAAGCTTATCAA
1 CACAGCTGGGTTGGGCTTATTTATCTATAAGCAAATTTTGAACAACATTAGTAAGCTTATCAA
45904540 CTTTATCTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (68 bp):
CACAGCTGGGTTGGGCTTATTTATCTATAAGCAAATTTTGAACAACATTAGTAAGCTTATCAATT
CAA
Found at i:45907757 original size:14 final size:15
Alignment explanation
Indices: 45907735--45907776 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
45907725 TATACTTTTG
45907735 ATTAAAC-TTAATTA
1 ATTAAACTTTAATTA
*
45907749 ATTACACTTTAATTA
1 ATTAAACTTTAATTA
**
45907764 ACCAAACTTTAAT
1 ATTAAACTTTAAT
45907777 CTTAATTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAAACTTTAATTA
Found at i:45907790 original size:21 final size:20
Alignment explanation
Indices: 45907757--45907796 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45907747 TAATTACACT
45907757 TTAATTAACCAAACTTTAATC
1 TTAATTAACCAAA-TTTAATC
**
45907778 TTAATTAGTCAAATTTAAT
1 TTAATTAACCAAATTTAAT
45907797 GGTTTTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAATTAACCAAATTTAATC
Found at i:45911016 original size:443 final size:443
Alignment explanation
Indices: 45910190--45911078 Score: 1778
Period size: 443 Copynumber: 2.0 Consensus size: 443
45910180 CATTCACACA
45910190 TCAGTTACATGTTATTTTCTATCACATACAACATCTCATACTTATCATCTCAAACCATGCAATAT
1 TCAGTTACATGTTATTTTCTATCACATACAACATCTCATACTTATCATCTCAAACCATGCAATAT
45910255 CCACATCCATGAAGGGCATTGTCATATGTATATATATTTAAGCCAATATTAGCCAATTTCAATGG
66 CCACATCCATGAAGGGCATTGTCATATGTATATATATTTAAGCCAATATTAGCCAATTTCAATGG
45910320 CCATTTACAAAATGAATTATTAACCATTATAAGCCAACACATTTGGCCAAATTGAATATAACACA
131 CCATTTACAAAATGAATTATTAACCATTATAAGCCAACACATTTGGCCAAATTGAATATAACACA
45910385 TAACAAAATGACCAAGTCCTATACATGCCACAACTCAAAATAATGGAATCATAAGTACGCAAAAT
196 TAACAAAATGACCAAGTCCTATACATGCCACAACTCAAAATAATGGAATCATAAGTACGCAAAAT
45910450 GATAATTTGATAGTGTGAATGGATCTCCGACCGTCTTCGATCCCTGAGCTGGCTTGGTGACACTA
261 GATAATTTGATAGTGTGAATGGATCTCCGACCGTCTTCGATCCCTGAGCTGGCTTGGTGACACTA
45910515 TAAGATAAGGAAAAAAAAAGGGGAGTAAGCTTTAAAGCTTAGTAAGTTCCTATGCAAATAATAGG
326 TAAGATAAGGAAAAAAAAAGGGGAGTAAGCTTTAAAGCTTAGTAAGTTCCTATGCAAATAATAGG
45910580 CATTATAAACACACTTTAACATATAATTAACATAAAGTAAATTAACATAAATG
391 CATTATAAACACACTTTAACATATAATTAACATAAAGTAAATTAACATAAATG
45910633 TCAGTTACATGTTATTTTCTATCACATACAACATCTCATACTTATCATCTCAAACCATGCAATAT
1 TCAGTTACATGTTATTTTCTATCACATACAACATCTCATACTTATCATCTCAAACCATGCAATAT
45910698 CCACATCCATGAAGGGCATTGTCATATGTATATATATTTAAGCCAATATTAGCCAATTTCAATGG
66 CCACATCCATGAAGGGCATTGTCATATGTATATATATTTAAGCCAATATTAGCCAATTTCAATGG
45910763 CCATTTACAAAATGAATTATTAACCATTATAAGCCAACACATTTGGCCAAATTGAATATAACACA
131 CCATTTACAAAATGAATTATTAACCATTATAAGCCAACACATTTGGCCAAATTGAATATAACACA
45910828 TAACAAAATGACCAAGTCCTATACATGCCACAACTCAAAATAATGGAATCATAAGTACGCAAAAT
196 TAACAAAATGACCAAGTCCTATACATGCCACAACTCAAAATAATGGAATCATAAGTACGCAAAAT
45910893 GATAATTTGATAGTGTGAATGGATCTCCGACCGTCTTCGATCCCTGAGCTGGCTTGGTGACACTA
261 GATAATTTGATAGTGTGAATGGATCTCCGACCGTCTTCGATCCCTGAGCTGGCTTGGTGACACTA
45910958 TAAGATAAGGAAAAAAAAAGGGGAGTAAGCTTTAAAGCTTAGTAAGTTCCTATGCAAATAATAGG
326 TAAGATAAGGAAAAAAAAAGGGGAGTAAGCTTTAAAGCTTAGTAAGTTCCTATGCAAATAATAGG
45911023 CATTATAAACACACTTTAACATATAATTAACATAAAGTAAATTAACATAAATG
391 CATTATAAACACACTTTAACATATAATTAACATAAAGTAAATTAACATAAATG
45911076 TCA
1 TCA
45911079 TTGTGAATTC
Statistics
Matches: 446, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
443 446 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (443 bp):
TCAGTTACATGTTATTTTCTATCACATACAACATCTCATACTTATCATCTCAAACCATGCAATAT
CCACATCCATGAAGGGCATTGTCATATGTATATATATTTAAGCCAATATTAGCCAATTTCAATGG
CCATTTACAAAATGAATTATTAACCATTATAAGCCAACACATTTGGCCAAATTGAATATAACACA
TAACAAAATGACCAAGTCCTATACATGCCACAACTCAAAATAATGGAATCATAAGTACGCAAAAT
GATAATTTGATAGTGTGAATGGATCTCCGACCGTCTTCGATCCCTGAGCTGGCTTGGTGACACTA
TAAGATAAGGAAAAAAAAAGGGGAGTAAGCTTTAAAGCTTAGTAAGTTCCTATGCAAATAATAGG
CATTATAAACACACTTTAACATATAATTAACATAAAGTAAATTAACATAAATG
Found at i:45911459 original size:41 final size:41
Alignment explanation
Indices: 45911347--45911469 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 41
45911337 TACCATACCA
* * *
45911347 ATGCCATATCCCAAATATGGTCTTACATGAGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA-ATCG
* *
45911389 ATGCCAATAGT-CTAGCTATGGTCTTACACGAAATCTCAATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAAATCTCAATCG
* *
45911431 ATGCCATATCCCAGATATGGTCTAACACGTAATCTCAAT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAT
45911470 TAATCCTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 28 0.41
42 14 0.20
43 25 0.36
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAATCG
Found at i:45916553 original size:40 final size:40
Alignment explanation
Indices: 45916486--45916747 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
45916476 AACCCAAGTA
* *
45916486 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
45916525 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * * *
45916565 TCTTTGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
45916605 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
45916645 CCTTCGGGGCTTAGCCCGGATATAGTCAATAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
45916685 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
45916725 CCTTCGGGACTTATCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
45916748 CATTCGAATA
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.06
40 189 0.93
41 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:45922439 original size:42 final size:43
Alignment explanation
Indices: 45922358--45922448 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 43
45922348 CTTACATGGG
**
45922358 ATCTCATATCGATGCCAATAGCCCAGCTATGGTCTTACACGAA
1 ATCTCATATCGATGCCAATAGCCCAAATATGGTCTTACACGAA
* * *
45922401 ATCTTATATCGATGTC-ATATCCCAAATATGGTCTTACAC-ATA
1 ATCTCATATCGATGCCAATAGCCCAAATATGGTCTTACACGA-A
45922443 ATCTCA
1 ATCTCA
45922449 ACTAACCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 26 0.63
43 14 0.34
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (43 bp):
ATCTCATATCGATGCCAATAGCCCAAATATGGTCTTACACGAA
Found at i:45924444 original size:4 final size:4
Alignment explanation
Indices: 45924435--45924464 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
45924425 ATTGAAAAGC
45924435 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
45924465 ATTGTAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:45929622 original size:3 final size:3
Alignment explanation
Indices: 45929614--45929738 Score: 64
Period size: 3 Copynumber: 42.3 Consensus size: 3
45929604 TTTTATTAAT
* * *
45929614 TTA TTA TTA TTA TTA TT- TTCA ATC TTA TTA TTA TT- GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * **
45929658 TCA TTA TTT TTA -TA TTA TTA AAA TTAA TTA TT- TCA ACA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* *
45929702 TTA CTA TTA TTA TTA -TA TT- TGA TATA TTGA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA T
45929739 CATTTGTGTT
Statistics
Matches: 90, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
2 9 0.10
3 72 0.80
4 9 0.10
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:45929665 original size:20 final size:20
Alignment explanation
Indices: 45929640--45929677 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45929630 TTTCAATCTT
*
45929640 ATTATTATTGTATTATTATC
1 ATTATTATTATATTATTATC
*
45929660 ATTATTTTTATATTATTA
1 ATTATTATTATATTATTA
45929678 AAATTAATTA
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:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
ATTATTATTATATTATTATC
Found at i:45929683 original size:20 final size:20
Alignment explanation
Indices: 45929640--45929689 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
45929630 TTTCAATCTT
* **
45929640 ATTATTATTGTATTATTATC
1 ATTATTATTATATTATTAAA
*
45929660 ATTATTTTTATATTATTAAA
1 ATTATTATTATATTATTAAA
45929680 ATTAATTATT
1 ATT-ATTATT
45929690 TCAACATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTATTATTATATTATTAAA
Found at i:45929919 original size:26 final size:26
Alignment explanation
Indices: 45929889--45930000 Score: 93
Period size: 26 Copynumber: 4.3 Consensus size: 26
45929879 TTTTACATAG
45929889 TATTTTAAATTGTTTTATATAATGTT
1 TATTTTAAATTGTTTTATATAATGTT
* * *
45929915 TATTTTAAATTGTTTTATTTTAT-AT
1 TATTTTAAATTGTTTTATATAATGTT
* * * * * * *
45929940 CATTTCAAATTATTTCATATATTATC
1 TATTTTAAATTGTTTTATATAATGTT
* *
45929966 TATTTTAAGTT-TTTATATATATTGTT
1 TATTTTAAATTGTTT-TATATAATGTT
45929992 TATTTTAAA
1 TATTTTAAA
45930001 CTTATATATT
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
25 20 0.31
26 45 0.69
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTTTAAATTGTTTTATATAATGTT
Found at i:45929933 original size:15 final size:15
Alignment explanation
Indices: 45929889--45929936 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
45929879 TTTTACATAG
45929889 TATTTTAAATTGTTT
1 TATTTTAAATTGTTT
*
45929904 TA-TAT-AA-TG-TT
1 TATTTTAAATTGTTT
45929915 TATTTTAAATTGTTT
1 TATTTTAAATTGTTT
45929930 TATTTTA
1 TATTTTA
45929937 TATCATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 4 0.15
14 4 0.15
15 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TATTTTAAATTGTTT
Found at i:45930008 original size:26 final size:26
Alignment explanation
Indices: 45929956--45930009 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
45929946 AAATTATTTC
** *
45929956 ATATATTATCTATTTTAAGTTTTTAT
1 ATATATTATCTATTTTAAACTTATAT
* *
45929982 ATATATTGTTTATTTTAAACTTATAT
1 ATATATTATCTATTTTAAACTTATAT
45930008 AT
1 AT
45930010 TATCTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATATTATCTATTTTAAACTTATAT
Found at i:45930138 original size:22 final size:22
Alignment explanation
Indices: 45930092--45930131 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45930082 CACATTATAT
45930092 TTTTTGAATTCATTTGTTATCA
1 TTTTTGAATTCATTTGTTATCA
45930114 TTTTTGAATT-ATTT-TTAT
1 TTTTTGAATTCATTTGTTAT
45930132 TCTATTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (22 bp):
TTTTTGAATTCATTTGTTATCA
Found at i:45935561 original size:20 final size:20
Alignment explanation
Indices: 45935536--45935592 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
45935526 CCTTAAAAAT
45935536 AAAAATAAAAATAAAAAT-AA
1 AAAAAT-AAAATAAAAATAAA
*
45935556 AAAAATAAAAGAAAAATAAA
1 AAAAATAAAATAAAAATAAA
45935576 AAAAATCAAAATAAAAA
1 AAAAAT-AAAATAAAAA
45935593 AGAATAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 10 0.30
20 14 0.42
21 9 0.27
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAAATAAAATAAAAATAAA
Found at i:45935561 original size:26 final size:25
Alignment explanation
Indices: 45935530--45935606 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 25
45935520 TTAAGACCTT
*
45935530 AAAAATAAAAATAAAAATAAAAATAA
1 AAAAATAAAAAGAAAAATAAAAA-AA
45935556 AAAAAT-AAAAGAAAAATAAAAAAA
1 AAAAATAAAAAGAAAAATAAAAAAA
*
45935580 ATCAAAATAAAAAAGAATAAAGAAAAA
1 A--AAAAT-AAAAAGAA-AAATAAAAA
45935607 GGAGAGACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 3 0.07
25 15 0.34
26 11 0.25
28 7 0.16
29 8 0.18
ACGTcount: A:0.83, C:0.01, G:0.04, T:0.12
Consensus pattern (25 bp):
AAAAATAAAAAGAAAAATAAAAAAA
Found at i:45935591 original size:12 final size:11
Alignment explanation
Indices: 45935531--45935592 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 11
45935521 TAAGACCTTA
45935531 AAAATAAAAAT
1 AAAATAAAAAT
45935542 AAAAATAAAAAT
1 -AAAATAAAAAT
45935554 --AA-AAAAAT
1 AAAATAAAAAT
*
45935562 AAAAGAAAAAT
1 AAAATAAAAAT
45935573 -AAA-AAAAAT
1 AAAATAAAAAT
45935582 CAAAATAAAAA
1 -AAAATAAAAA
45935593 AGAATAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.14
9 8 0.18
10 5 0.11
11 9 0.20
12 16 0.36
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:45935606 original size:15 final size:14
Alignment explanation
Indices: 45935530--45935606 Score: 54
Period size: 13 Copynumber: 5.6 Consensus size: 14
45935520 TTAAGACCTT
*
45935530 AAAAATAAA-AATA
1 AAAAAAAAAGAATA
*
45935543 AAAATAAAAATAA-A
1 AAAA-AAAAAGAATA
*
45935557 AAAATAAAAGAA-A
1 AAAAAAAAAGAATA
*
45935570 AATAAAAAA-AATCA
1 AAAAAAAAAGAAT-A
45935584 AAATAAAAAAGAATA
1 AAA-AAAAAAGAATA
*
45935599 AAGAAAAA
1 AAAAAAAA
45935607 GGAGAGACCA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
12 2 0.04
13 18 0.35
14 17 0.33
15 11 0.22
16 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.04, T:0.12
Consensus pattern (14 bp):
AAAAAAAAAGAATA
Found at i:45935607 original size:6 final size:6
Alignment explanation
Indices: 45935529--45935577 Score: 71
Period size: 6 Copynumber: 8.0 Consensus size: 6
45935519 ATTAAGACCT
* *
45935529 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA AATAAAA GAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA
45935578 AAATCAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (6 bp):
TAAAAA
Found at i:45937133 original size:44 final size:44
Alignment explanation
Indices: 45936908--45937505 Score: 195
Period size: 44 Copynumber: 13.5 Consensus size: 44
45936898 AGCTACCAGC
* * * *
45936908 CTTATCTCTCTGAGGTAACAAGAGAGTAGGTTGAAAATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
* * *
45936952 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTGACGATTATAGAT
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTGAAGATTGTAG-T
* * * * * * * * *
45936997 TTTATCTCCCT-AAGTAG-TAGTGGAACAGATCGAAGATGGTGAAT
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGATTGAAGATTGT-AGT
* * * * * ** **** *
45937041 TTTATCT-TCCTGATGTTGCAGGGGAGCAGATTTTAGCCACTAGC
1 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
*
45937085 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
* * *
45937129 CTTAT-TTTCTTGAGGTAGCAAG-GAAGCAGACTGAGGATTGTAGAT
1 CTTATCTCTC-TGAGGTAGCAAGAG-AGCAGATTGAAGATTGTAG-T
* * * * * * * *
45937174 CTTATCTCCCTAAGG-AG-TAGTGGAGCAGACTGAAGATGGCAAAT
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGATTGAAGATTG-TAGT
* * * * ** **** **
45937218 CATATCT-TCCCGATGTAGC-AGGGAAGCAGATTTTAGCCACTAAC
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTGAAGATTGTAGT
*
45937262 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
* *
45937306 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTGAAGATTGTAG-T
* * * * * * * * * *
45937351 TTTATCTC-CTTAAGCAG-TAGCAGAGTAGATCGAAGATGGCAAAT
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGATTGAAGATTG-TAGT
* * ** ***** *
45937395 CTTATCT-TCCCGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGC
1 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
* *
45937439 CTTATCTCTCTGGGGTAGCAAGAGAGCATATTGAAGATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
*
45937483 CTTATCT-TCCTAAGGTAGCAAGA
1 CTTATCTCT-CTGAGGTAGCAAGA
45937506 AAATAGACTG
Statistics
Matches: 388, Mismatches: 130, Indels: 72
0.66 0.22 0.12
Matches are distributed among these distances:
43 15 0.04
44 287 0.74
45 81 0.21
46 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
Found at i:45937161 original size:177 final size:177
Alignment explanation
Indices: 45936862--45937680 Score: 996
Period size: 177 Copynumber: 4.6 Consensus size: 177
45936852 GTGAATTTAG
* * * *
45936862 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGGTTTTAGCTACCAGCCTTATCTCTCTGAGGTAAC
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
* * *
45936927 AAGAGAGTAGGTTGAAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGACGATT-
66 AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * **
45936991 ATAGATTTTATCTCCCTAAGTAGTAGTGGAACAGATCGAAGATGGTGA
131 A-AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAA
* * * *
45937039 ATTTTATCTTCCTGATGTTGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
* * *
45937104 AAGAGAGCAGGTTGAAGATTGTAGTCTTATTTTCTTGAGGTAGCAAGGAAGCAGACTGAGGATTG
66 AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* *
45937169 TAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGA-CTGAAGATGGCAA
131 AAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-GAAGATGGCAA
* * * *
45937216 ATCATATCTTCCCGATGTAGCAGGGAAGCAGATTTTAGCCACTAACCTTATCTCTCTGAGGTAGC
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
45937281 AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
66 AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * ** *
45937346 AAGATTTTATCTCCTTAAGCAGTAGCAGAGTAGATCGAAGATGGCAA
131 AAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAA
* * *
45937393 ATCTTATCTTCCCGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGGGGTAGC
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
** * * **
45937458 AAGAGAGCATATTGAAGATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAATAGACTGAAGATTG
66 AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * * * * * * **
45937523 AAGATCTCATCTCCTTGAGTAGCAATGGGGCAGTTCGAAAATGGTGA
131 AAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAA
** * ** ** * * *
45937570 ATCTTATCTTATCGGGGTAGCAGGGGATTAGATTTTAGCCGTTAGTCTTATTTC-CTTAAGGTAG
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTC-TGAGGTAG
* * * * * * *
45937634 CAAGAAAGTAGGCTGGAGATTGTAGTCTCATTTTCTTGAGGTAGCAA
65 CAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
45937681 AAGAGAAAAC
Statistics
Matches: 553, Mismatches: 85, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
176 2 0.00
177 550 0.99
178 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (177 bp):
ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
AAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAA
Found at i:45939287 original size:15 final size:14
Alignment explanation
Indices: 45939243--45939289 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
45939233 TTTTATTTTA
*
45939243 ATTTTATTTTAATTA
1 ATTTT-TTTTAATTC
*
45939258 ATTTTTTTTCA-TC
1 ATTTTTTTTAATTC
45939271 ATTTTTTTTAGATTC
1 ATTTTTTTTA-ATTC
45939286 ATTT
1 ATTT
45939290 CACATTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 10 0.37
14 6 0.22
15 11 0.41
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (14 bp):
ATTTTTTTTAATTC
Found at i:45943539 original size:49 final size:49
Alignment explanation
Indices: 45943486--45943908 Score: 558
Period size: 49 Copynumber: 8.5 Consensus size: 49
45943476 CTGGTACGCA
* * * *
45943486 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
*
45943535 TAGTAGCCTGCACTTAGTACTACATACGTGACCAATTATCAGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
* ** * *
45943584 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAGGTACACG
*
45943634 TAGTAGCCTGCACTTAGTACTACATACGTGACCAATTATCAGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
* ** * *
45943683 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAGGTACACG
*
45943733 TAGTAGCCTGCACTTAGTACTACATACGTGACCAATTATCAGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
* ** * *
45943782 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAGGTACACG
* * * * *
45943832 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCAGGTACACG
45943883 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
45943909 TGCGACCTCA
Statistics
Matches: 325, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
49 161 0.50
50 128 0.39
51 35 0.11
52 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
Found at i:45943656 original size:99 final size:99
Alignment explanation
Indices: 45943486--45943908 Score: 686
Period size: 99 Copynumber: 4.3 Consensus size: 99
45943476 CTGGTACGCA
* * * * ** * *
45943486 TAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
45943550 AGTACTACATACGTGACCAATTATCAGGTACACG
66 AGTACTACATACGTGACCAATTATCAGGTACACG
45943584 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
45943649 AGTACTACATACGTGACCAATTATCAGGTACACG
66 AGTACTACATACGTGACCAATTATCAGGTACACG
45943683 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
45943748 AGTACTACATACGTGACCAATTATCAGGTACACG
66 AGTACTACATACGTGACCAATTATCAGGTACACG
45943782 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * * * * *
45943847 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
66 AGTACTACATACGTGA-C-CAATTATCAGGTACACG
*
45943883 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCTTGCACTTAGTACTACACA
45943909 TGCGACCTCA
Statistics
Matches: 307, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
98 29 0.09
99 240 0.78
100 1 0.00
101 37 0.12
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACATACGTGACCAATTATCAGGTACACG
Found at i:45952187 original size:21 final size:22
Alignment explanation
Indices: 45952163--45952210 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
45952153 CTAAGTTTAT
45952163 AGATGCCA-TTATACCAAAATA
1 AGATGCCATTTATACCAAAATA
* * *
45952184 AGATTTCTATTTATACCAAAATG
1 AGA-TGCCATTTATACCAAAATA
45952207 AGAT
1 AGAT
45952211 AGTGGATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.14
22 4 0.18
23 15 0.68
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (22 bp):
AGATGCCATTTATACCAAAATA
Found at i:45955419 original size:247 final size:247
Alignment explanation
Indices: 45954983--45955476 Score: 927
Period size: 247 Copynumber: 2.0 Consensus size: 247
45954973 ACTCGAATTT
* *
45954983 GTGGTCCCAAAACAACTGTTCCGACCTAACTGGAATTGGGTTGTTACAACTCTCACCCATTAAAA
1 GTGGTCCCAAAACAACTGTTCCAACCTAACTGGAATTGGGCTGTTACAACTCTCACCCATTAAAA
*
45955048 TTTTCGTCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTTCTTCCTCATTGTATCTCAGG
66 TTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTTCTTCCTCATTGTATCTCAGG
45955113 CTCCTAGGTAGCTTCCTTTAATCCTTTCTGTTTCCAGAGGACTTTTACCAAAGCCACCTTTTTAT
131 CTCCTAGGTAGCTTCCTTTAATCCTTTCTGTTTCCAGAGGACTTTTACCAAAGCCACCTTTTTAT
45955178 TTTTTAGCTCTTTCGTCTCATATACCAGTTTTTTAATCAGTTCCTCATTGTA
196 TTTTTAGCTCTTTCGTCTCATATACCAGTTTTTTAATCAGTTCCTCATTGTA
* *
45955230 GTGGTCCCAAAACAACTGTTCCAATCTCACTGGAATTGGGCTGTTACAACTCTC-CCCTATTAAA
1 GTGGTCCCAAAACAACTGTTCCAACCTAACTGGAATTGGGCTGTTACAACTCTCACCC-ATTAAA
45955294 ATTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTTCTTCCTCATTGTATCTCAG
65 ATTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTTCTTCCTCATTGTATCTCAG
45955359 GCTCCTAGGTAGCTTCCTTTAATCCTTTCTGTTTCCAGAGGACTTTTACCAAAGCCACCTTTTTA
130 GCTCCTAGGTAGCTTCCTTTAATCCTTTCTGTTTCCAGAGGACTTTTACCAAAGCCACCTTTTTA
45955424 TTTTTTAGCTCTTTCGTCTCATATACCAGTTTTTTAATCAGTTCCTCATTGTA
195 TTTTTTAGCTCTTTCGTCTCATATACCAGTTTTTTAATCAGTTCCTCATTGTA
45955477 AGTCATATCA
Statistics
Matches: 241, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
246 3 0.01
247 238 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (247 bp):
GTGGTCCCAAAACAACTGTTCCAACCTAACTGGAATTGGGCTGTTACAACTCTCACCCATTAAAA
TTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTTCTTCCTCATTGTATCTCAGG
CTCCTAGGTAGCTTCCTTTAATCCTTTCTGTTTCCAGAGGACTTTTACCAAAGCCACCTTTTTAT
TTTTTAGCTCTTTCGTCTCATATACCAGTTTTTTAATCAGTTCCTCATTGTA
Found at i:45967495 original size:40 final size:40
Alignment explanation
Indices: 45967458--45967653 Score: 263
Period size: 40 Copynumber: 4.9 Consensus size: 40
45967448 GGGTATAGCT
* *
45967458 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
45967498 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* * *
45967538 ACTCACACAAATGCCTTCGGGACTTAGCCTGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
45967578 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
45967618 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
45967654 CATCCGAATA
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.01
40 132 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:45967598 original size:80 final size:80
Alignment explanation
Indices: 45967465--45967649 Score: 300
Period size: 80 Copynumber: 2.3 Consensus size: 80
45967455 GCTACTCGCT
* * *
45967465 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
45967530 ATTTGGTAACTCACA
66 ATTTGGTAACTCACA
*
45967545 CAAATGCCTTCGGGACTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
**
45967609 GATTTGGTAACTCGTA
65 GATTTGGTAACTCACA
45967625 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
45967650 TTATCATCCG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 96 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTGGTAACTCACA
Found at i:45975454 original size:40 final size:40
Alignment explanation
Indices: 45975408--45975632 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
45975398 CTTGCACAAG
* * *
45975408 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
45975448 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
45975488 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
45975528 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
45975568 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
45975609 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
45975633 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:45975503 original size:80 final size:80
Alignment explanation
Indices: 45975372--45975632 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
45975362 CTCAAGTAAT
* * * * * * *
45975372 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
45975435 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
45975450 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
45975514 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
45975530 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
45975595 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
45975611 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
45975633 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:45978810 original size:43 final size:43
Alignment explanation
Indices: 45978710--45978867 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
45978700 GTTATTGAGA
* * * *
45978710 TGCGATTACATGTAAGACCATGCCTGGGACATTGGCATTGTAT
1 TGCGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAC
* * *
45978753 TGAGATTAT-GTGTAAGACCATGTCTAGGACATTGGCATCGTTAC
1 TGCGATT-TCATGTAAGACCATGTCTGGGACATTGGCATCG-TAC
* * *
45978797 T-CGATTTCATGTAAGACCCTGTCTGGGATAGTGGCATCGATA-
1 TGCGATTTCATGTAAGACCATGTCTGGGACATTGGCATCG-TAC
* ** *
45978839 TGTGATAACATGTAAGACCATATCTGGGA
1 TGCGATTTCATGTAAGACCATGTCTGGGA
45978868 TATAGCATTG
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.02
43 87 0.95
44 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TGCGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAC
Found at i:45985379 original size:30 final size:30
Alignment explanation
Indices: 45985345--45985402 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45985335 GAGTGACACG
* *
45985345 GGCGTGCGGGGACTGGAGCTATCACACATA
1 GGCGTGCAGGAACTGGAGCTATCACACATA
*
45985375 GGCGTGTAGGAACTGGAGCTATCACACA
1 GGCGTGCAGGAACTGGAGCTATCACACA
45985403 CGGACGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.34, T:0.17
Consensus pattern (30 bp):
GGCGTGCAGGAACTGGAGCTATCACACATA
Found at i:45988426 original size:93 final size:93
Alignment explanation
Indices: 45988313--45988484 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45988303 CGCCCATAAG
* *
45988313 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45988378 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
45988406 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45988471 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45988485 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45988481 original size:46 final size:46
Alignment explanation
Indices: 45988306--45988481 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
45988296 TGTAACCCGC
* * *
45988306 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45988352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
45988402 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45988445 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45988482 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45993522 original size:64 final size:63
Alignment explanation
Indices: 45993442--45993569 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 63
45993432 ACACCGTTGG
*
45993442 CACTCAGGTTTAACAAATCTCGAGTTCCCTACATTGGCTGCCGAAGTAGTCCAGGATTTAGGA
1 CACTCAGGTTTAACAAATCTCGAGTTCCCTACACTGGCTGCCGAAGTAGTCCAGGATTTAGGA
* * **
45993505 NCACTCGGGTTTAACAAATCTCGAGTTCCCTACGCTGGCTGCCGAAGTAGTCTGGGATTTAGGA
1 -CACTCAGGTTTAACAAATCTCGAGTTCCCTACACTGGCTGCCGAAGTAGTCCAGGATTTAGGA
45993569 C
1 C
45993570 CCACATTTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 1 0.02
64 58 0.98
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (63 bp):
CACTCAGGTTTAACAAATCTCGAGTTCCCTACACTGGCTGCCGAAGTAGTCCAGGATTTAGGA
Found at i:45995665 original size:93 final size:95
Alignment explanation
Indices: 45995416--45995676 Score: 392
Period size: 93 Copynumber: 2.8 Consensus size: 95
45995406 GCCACATATT
45995416 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
* *
45995481 AGTTC--A-GCCATTCGCATCCATAAGTGA
66 AGTTCGGATGCCATTCACATCCATAAGCGA
45995508 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
*
45995573 AGTTCGGATGCCTAGTT-ACAT-C-TCA-CGA
66 AGTTCGGATGCC-A-TTCACATCCATAAGCGA
* * * *
45995601 ACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
45995666 AGTTCGGATGC
66 AGTTCGGATGC
45995677 TCAACCATCC
Statistics
Matches: 157, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
92 70 0.45
93 74 0.47
94 3 0.02
95 4 0.03
96 4 0.03
97 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (95 bp):
ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCATTCACATCCATAAGCGA
Found at i:45995692 original size:46 final size:46
Alignment explanation
Indices: 45995416--45995670 Score: 374
Period size: 46 Copynumber: 5.5 Consensus size: 46
45995406 GCCACATATT
45995416 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
45995462 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
45995508 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
* * *
45995554 ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGA
1 ACTCGGACTCAACTCAACGAGTTC--A-GCC-A-TTCGCATCCATAAGTGA
* * *
45995601 ACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
*
45995647 ACTCGAACTCAACTCAACGAGTTC
1 ACTCGGACTCAACTCAACGAGTTC
45995671 GGATGCTCAA
Statistics
Matches: 191, Mismatches: 9, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 3 0.02
45 2 0.01
46 142 0.74
47 25 0.13
48 3 0.02
49 4 0.02
50 4 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (46 bp):
ACTCGGACTCAACTCAACGAGTTCAGCCATTCGCATCCATAAGTGA
Found at i:45997391 original size:43 final size:42
Alignment explanation
Indices: 45997266--45997400 Score: 123
Period size: 43 Copynumber: 3.1 Consensus size: 42
45997256 TCTAGGATGT
*
45997266 TGGCATCG-ATTTGATATTTACATATAAGACCATGTCTGGGAC-A
1 TGGCATCGTATTT-A-A-TTACATGTAAGACCATGTCTGGGACAA
* * * *
45997309 TCGACATCGTATTTAATTTCGTGTAAAACTC-TGTCTGGGACAA
1 T-GGCATCGTATTTAATTACATGTAAGAC-CATGTCTGGGACAA
* * *
45997352 TGGCATCGATGTTTGATTACATGTAAGACCATGTCTGGGACAT
1 TGGCATCG-TATTTAATTACATGTAAGACCATGTCTGGGACAA
45997395 TGGCAT
1 TGGCAT
45997401 TGCACGAGCT
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
42 26 0.35
43 37 0.50
44 7 0.09
45 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TGGCATCGTATTTAATTACATGTAAGACCATGTCTGGGACAA
Found at i:46003540 original size:56 final size:56
Alignment explanation
Indices: 46003504--46003763 Score: 448
Period size: 56 Copynumber: 4.6 Consensus size: 56
46003494 GCGACATTGT
* *
46003504 CATCAATATGTGATTCCGATATGTGTGTGTGAGTAAGACCACGTTTAATACGTTGG
1 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
46003560 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
1 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
46003616 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
1 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
46003672 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
1 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
* * * * * *
46003728 CATCAATAGGTGATTTCAATATGTGTTTACGAGTAA
1 CATCGATATGTGATTCCGATATGTGTGTGCGAGTAA
46003764 AACCCTATCT
Statistics
Matches: 196, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 196 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
CATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGG
Found at i:46004380 original size:45 final size:46
Alignment explanation
Indices: 46004330--46004421 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 46
46004320 TAAGCTGTGA
* *
46004330 TAGCTTAGTG-TGTGTATGTTTGCTTCTGTTTTATAGATTTTGGAG
1 TAGCTTAGTGATGTGTATGTTTGCTTCTATTTTATAAATTTTGGAG
46004375 TAGCTTAGTGTATGTGTATGTTTGCTTCTATTTTATAAATTTTGGAG
1 TAGCTTAGTG-ATGTGTATGTTTGCTTCTATTTTATAAATTTTGGAG
46004422 ACTAGTTACG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 10 0.23
47 33 0.77
ACGTcount: A:0.18, C:0.07, G:0.24, T:0.51
Consensus pattern (46 bp):
TAGCTTAGTGATGTGTATGTTTGCTTCTATTTTATAAATTTTGGAG
Found at i:46011198 original size:58 final size:58
Alignment explanation
Indices: 46011134--46011250 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
46011124 CACTTAAAGT
* * *
46011134 CATATTTAAAATCAATAATTAAAGACATATATATATGCTTACTTACTTCATCATATAA
1 CATATTTAAAATCAATAATTAAACACATATATATATACTTACCTACTTCATCATATAA
*
46011192 CATATTTAAAATTAATAATTAAACACATATATATATACTTACCTACTTCATCATATAA
1 CATATTTAAAATCAATAATTAAACACATATATATATACTTACCTACTTCATCATATAA
46011250 C
1 C
46011251 CAAATATCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (58 bp):
CATATTTAAAATCAATAATTAAACACATATATATATACTTACCTACTTCATCATATAA
Found at i:46018771 original size:46 final size:46
Alignment explanation
Indices: 46018721--46018896 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
46018711 TGGTTGAGCA
46018721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46018767 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
46018812 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46018860 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46018897 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46018877 original size:93 final size:93
Alignment explanation
Indices: 46018718--46018889 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46018708 GGATGGTTGA
* *
46018718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46018783 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46018811 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46018876 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46018890 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46026352 original size:46 final size:46
Alignment explanation
Indices: 46026299--46026474 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
46026289 TGGTTGAGCA
46026299 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46026345 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
46026390 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46026438 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46026475 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 28 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46026455 original size:93 final size:93
Alignment explanation
Indices: 46026296--46026467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46026286 GGATGGTTGA
* *
46026296 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
46026361 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46026389 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
46026454 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46026468 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46040823 original size:27 final size:27
Alignment explanation
Indices: 46040789--46041103 Score: 355
Period size: 27 Copynumber: 11.7 Consensus size: 27
46040779 TTTACAAAAT
* * *
46040789 TACTGAAATACCCTTATAAGGTAAAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
*
46040816 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
*
46040843 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* * * *
46040870 CACTGAAATACCCCTATAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
* * * *
46040897 TATTAAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
46040924 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* * *
46040951 TACCGAAATACCCCTATAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* * *
46040978 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
46041005 TACTAAAATAACCC-TGTAGGATAGAAA
1 TACTGAAAT-ACCCTTGTAGGGTAGAAA
* * *
46041032 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
46041059 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
*
46041086 TAC-CAAGATACCCTTGTA
1 TACTGAA-ATACCCTTGTA
46041104 AAAATTCACT
Statistics
Matches: 252, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 6 0.02
27 242 0.96
28 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
TACTGAAATACCCTTGTAGGGTAGAAA
Found at i:46040932 original size:81 final size:81
Alignment explanation
Indices: 46040793--46041103 Score: 428
Period size: 81 Copynumber: 3.8 Consensus size: 81
46040783 CAAAATTACT
* * * * ** * * *
46040793 GAAATACCCTTATAAGGTAAAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTT
1 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTT
* *
46040858 GTAGGGTAGAAACACT
66 GTAGGGTAGAAATACC
*
46040874 GAAATACCCCTATAGGGTAGAATTATTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTT
1 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTT
46040939 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
* *
46040955 GAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTGTAGGGTAGAATTACTAAAATAACCC-
1 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAAT-ACCCT
*
46041019 TGTAGGATAGAAATACC
65 TGTAGGGTAGAAATACC
* * *
46041036 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC-CAAGATACCCT
1 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAA-ATACCCT
46041100 TGTA
65 TGTA
46041104 AAAATTCACT
Statistics
Matches: 207, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
80 6 0.03
81 197 0.95
82 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (81 bp):
GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTT
GTAGGGTAGAAATACC
Found at i:46041714 original size:6 final size:6
Alignment explanation
Indices: 46041683--46041776 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
46041673 TTGCATTCAC
* *
46041683 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
46041732 ATTCTG -TCACCTG ATTCTA ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46041777 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.06
6 59 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:46041774 original size:37 final size:37
Alignment explanation
Indices: 46041683--46041767 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
46041673 TTGCATTCAC
* * *
46041683 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTAATTCTG
*
46041720 ATTCTGATTCTGATTCTGTCACCTGATTCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTAATTCTG
46041757 ATTCTGATTCT
1 ATTCTGATTCT
46041768 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTAATTCTG
Found at i:46043371 original size:22 final size:22
Alignment explanation
Indices: 46043333--46043374 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46043323 AACAACCAAT
*
46043333 AAAACTACTAAATTCCATATTC
1 AAAACTACCAAATTCCATATTC
46043355 AAAACATACCAAA-TCCATAT
1 AAAAC-TACCAAATTCCATAT
46043375 ACCTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAACTACCAAATTCCATATTC
Found at i:46044236 original size:43 final size:43
Alignment explanation
Indices: 46044146--46044266 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
46044136 ATCACATTCG
* * * * * *
46044146 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATCGAGTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAACA
46044189 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAAT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CAATAACA
* * * *
46044232 ATGCCAATGTCCTAAAGATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC
46044267 ACATCTCAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 65 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAACA
Found at i:46045548 original size:12 final size:12
Alignment explanation
Indices: 46045531--46045555 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46045521 CACACGCCCA
46045531 ATTTACAAGGCC
1 ATTTACAAGGCC
46045543 ATTTACAAGGCC
1 ATTTACAAGGCC
46045555 A
1 A
46045556 AAATGCTACC
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ATTTACAAGGCC
Found at i:46050470 original size:40 final size:40
Alignment explanation
Indices: 46050415--46050557 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
46050405 CGGATGATAA
46050415 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
46050455 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
46050495 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
46050535 CCGGGCTATGTCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
46050558 AGTCGAACCC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 91 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:46055782 original size:47 final size:46
Alignment explanation
Indices: 46055682--46055857 Score: 153
Period size: 47 Copynumber: 3.8 Consensus size: 46
46055672 ATACGTACTA
* * * * *
46055682 ATGCATGTCCCATACATGTCTTACACTAGC-A-CAACTCTTA-GCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTC-GACGCCG
* * *
46055726 ATGCGTGTCCCAGACACGTCTTACATTGGCTATCATCGTCGAGGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCTATCATC-TCGACGCCG
* * * *
46055773 ATGCATGTCCTAGACATGTCTTACACTGG-TGCTCATTCTCTACGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCT-ATCA-TCTCGACGCCG
*
46055820 ATGCCATGTCCCAGACAAGGTCTTACACTGGCTATCAT
1 ATG-CATGTCCCAGAC-ACGTCTTACACTGGCTATCAT
46055858 ATTTTGGCTG
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
44 25 0.24
45 1 0.01
46 5 0.05
47 44 0.42
48 14 0.13
49 16 0.15
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTCGACGCCG
Found at i:46055790 original size:91 final size:95
Alignment explanation
Indices: 46055682--46055901 Score: 238
Period size: 95 Copynumber: 2.4 Consensus size: 95
46055672 ATACGTACTA
* *
46055682 ATGCATGTCCCATACATGTCTTACACT-AGCACAACTCT-TA-GCCGATG-CGTGTCCCAGAC-A
1 ATGCATGTCCCAGACATGTCTTACACTGAGCAC-ACTCTCTACGCCGATGCCATGTCCCAGACAA
*
46055742 CGTCTTACATTGGCTATCATCGTCGAGGCCG
65 CGTCTTACACTGGCTATCATCGTCGAGGCCG
* * * *
46055773 ATGCATGTCCTAGACATGTCTTACACTGGTGCTCATTCTCTACGCCGATGCCATGTCCCAGACAA
1 ATGCATGTCCCAGACATGTCTTACACT-GAGCACACTCTCTACGCCGATGCCATGTCCCAGACAA
* * *** *
46055838 GGTCTTACACTGGCTATCAT-ATTTTGGCTG
65 CGTCTTACACTGGCTATCATCGTCGAGGCCG
* *
46055868 ATGTATGTCCCAAACATGTCTTACACTGA-CACAC
1 ATGCATGTCCCAGACATGTCTTACACTGAGCACAC
46055902 AAGTAATCTG
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
91 25 0.24
92 4 0.04
93 8 0.08
94 8 0.08
95 40 0.38
96 19 0.18
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (95 bp):
ATGCATGTCCCAGACATGTCTTACACTGAGCACACTCTCTACGCCGATGCCATGTCCCAGACAAC
GTCTTACACTGGCTATCATCGTCGAGGCCG
Found at i:46062220 original size:55 final size:55
Alignment explanation
Indices: 46062157--46062282 Score: 191
Period size: 55 Copynumber: 2.3 Consensus size: 55
46062147 AGCTCGTATG
46062157 CAACACTGACTTTAAAACACAGCCATGACACACG-CTCGTGTGGCCTACCCATGTA
1 CAACACTGACTTTAAAACACAGCCATGACACACGCCT-GTGTGGCCTACCCATGTA
* * * *
46062212 CACCACTGACTTTAAAACACAGCCATGACACATGCCTGTGTGGCCTGCCCGTGTA
1 CAACACTGACTTTAAAACACAGCCATGACACACGCCTGTGTGGCCTACCCATGTA
*
46062267 CAACACTAACTTTAAA
1 CAACACTGACTTTAAA
46062283 TATTAAGTGC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 62 0.97
56 2 0.03
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (55 bp):
CAACACTGACTTTAAAACACAGCCATGACACACGCCTGTGTGGCCTACCCATGTA
Found at i:46063217 original size:49 final size:46
Alignment explanation
Indices: 46063150--46063264 Score: 133
Period size: 49 Copynumber: 2.4 Consensus size: 46
46063140 CTGATGCGTT
* *
46063150 TCCCAGACACGTCTTACACTGGCGCTCAT-TCTCTACACCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCGATCATAT-TCT-CACCGATG-CATG
* * **
46063198 TCCCAGACATGGTCTTACACTGGCTATCATATTGTGGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCGATCATATTCTCACCGATGCATG
46063245 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
46063265 AACACACAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
46 10 0.17
47 14 0.24
48 15 0.25
49 19 0.32
50 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCGATCATATTCTCACCGATGCATG
Found at i:46084858 original size:46 final size:46
Alignment explanation
Indices: 46084806--46084942 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
46084796 TATATATACA
* * * * *
46084806 CATCTCATACATATCTCACATTAGCCATTTGTCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
46084852 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
46084898 TAACTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
46084943 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:46084976 original size:47 final size:47
Alignment explanation
Indices: 46084916--46085859 Score: 1798
Period size: 47 Copynumber: 20.1 Consensus size: 47
46084906 ACACATTTCG
* * * * **
46084916 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
* * *
46084963 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085010 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085057 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085104 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085151 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085198 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085245 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085292 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085339 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085386 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085433 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085480 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085527 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085574 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085621 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085668 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085715 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085762 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
*
46085809 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
46085856 CATT
1 CATT
46085860 AAAATCCTAA
Statistics
Matches: 889, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 889 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
Found at i:46089175 original size:42 final size:42
Alignment explanation
Indices: 46089115--46089198 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
46089105 AAGACCGAAA
* *
46089115 ATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACTATC
1 ATATCGTATCCACAAGGACTAAAAGTACGAGTAATTACTATC
*
46089157 ATATCGTATCCATAAGGACTAAAAGTACGAGTAATTACTATC
1 ATATCGTATCCACAAGGACTAAAAGTACGAGTAATTACTATC
46089199 TTTTTATTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (42 bp):
ATATCGTATCCACAAGGACTAAAAGTACGAGTAATTACTATC
Found at i:46098082 original size:5 final size:5
Alignment explanation
Indices: 46097990--46098078 Score: 106
Period size: 5 Copynumber: 17.8 Consensus size: 5
46097980 CATACTAGAA
* * * * * *
46097990 CATAT CTTAT CATAT CACAA CGTAT CATAT CATAA CATAT CATAT TATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* *
46098040 CATAT CATAT CATAT CATAT CACAT CATAT CATAA CATA
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
46098079 ACATGTCCTA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:46098792 original size:12 final size:12
Alignment explanation
Indices: 46098775--46098803 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46098765 TACAAAATCA
46098775 CACACGGCCTAC
1 CACACGGCCTAC
46098787 CACACGGCCTAC
1 CACACGGCCTAC
46098799 CACAC
1 CACAC
46098804 AGCCGTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.52, G:0.14, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:46103495 original size:16 final size:17
Alignment explanation
Indices: 46103474--46103514 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
46103464 TTATATTATA
46103474 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
46103490 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
46103507 TAATTATA
1 T-ATTATA
46103515 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:46103520 original size:16 final size:16
Alignment explanation
Indices: 46103483--46103560 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
46103473 ATATTATAAA
46103483 ATTATTTT-ATTATAAGT
1 ATTATTTTAATTAT-A-T
46103500 ATTATTTTAATTATAT
1 ATTATTTTAATTATAT
*
46103516 ATTATTATTACTTATTATGT
1 ATTATT-TTA---ATTATAT
** *
46103536 ATTATTTTTCTTAAAT
1 ATTATTTTAATTATAT
46103552 ATTATTTTA
1 ATTATTTTA
46103561 CATCTCTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 19 0.38
17 12 0.24
18 5 0.10
19 2 0.04
20 12 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTATTTTAATTATAT
Found at i:46103532 original size:20 final size:18
Alignment explanation
Indices: 46103483--46103541 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
46103473 ATATTATAAA
*
46103483 ATTATTTTATTATA-AGT
1 ATTATTTTATTATATATT
46103500 ATTATTTTAATTATATATT
1 ATTATTTT-ATTATATATT
*
46103519 ATTATTACTTATTATGTATT
1 ATTATT--TTATTATATATT
46103539 ATT
1 ATT
46103542 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 8 0.22
20 12 0.33
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTTATTATATATT
Found at i:46103538 original size:36 final size:34
Alignment explanation
Indices: 46103479--46103561 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 34
46103469 TTATATATTA
46103479 TAAA-ATTATTTTA-TTATAAGTATTATTTTAAT
1 TAAATATTATTTTACTTATAAGTATTATTTTAAT
* * **
46103511 TATATATTATTATTACTTATTATGTATTATTTTTCT
1 TAAATATTATT-TTACTTA-TAAGTATTATTTTAAT
46103547 TAAATATTATTTTAC
1 TAAATATTATTTTAC
46103562 ATCTCTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 6 0.14
34 3 0.07
35 7 0.17
36 23 0.55
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (34 bp):
TAAATATTATTTTACTTATAAGTATTATTTTAAT
Found at i:46103540 original size:10 final size:9
Alignment explanation
Indices: 46103483--46103541 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
46103473 ATATTATAAA
46103483 ATTATT-TT
1 ATTATTATT
* *
46103491 ATTATAAGT
1 ATTATTATT
46103500 ATTATT-TT
1 ATTATTATT
46103508 AATTATATATT
1 -ATTAT-TATT
46103519 ATTATTACTT
1 ATTATTA-TT
46103529 ATTATGTATT
1 ATTAT-TATT
46103539 ATT
1 ATT
46103542 TTTCTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 18 0.44
11 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTATTATT
Found at i:46103557 original size:3 final size:3
Alignment explanation
Indices: 46103483--46103541 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
46103473 ATATTATAAA
* *
46103483 ATT ATT -TT ATT ATA AGT ATT ATT -TT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
46103529 ATT ATGT ATT ATT
1 ATT AT-T ATT ATT
46103542 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 11 0.24
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Done.