Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 48 of 210
Found at i:14740869 original size:2 final size:2
Alignment explanation
Indices: 14740862--14740897 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14740852 GTTCAATTTG
14740862 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14740898 GCTGCCCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14740922 original size:23 final size:24
Alignment explanation
Indices: 14740891--14740947 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
14740881 TATATATATA
*
14740891 TATATATGCTGCCCAA-ATTAGTG
1 TATAAATGCTGCCCAATATTAGTG
* * *
14740914 TATAAATGCTGTCCAATTTTGGTG
1 TATAAATGCTGCCCAATATTAGTG
14740938 TATAAATGCT
1 TATAAATGCT
14740948 ATCCAATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (24 bp):
TATAAATGCTGCCCAATATTAGTG
Found at i:14740962 original size:23 final size:24
Alignment explanation
Indices: 14740912--14740965 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
14740902 CCCAAATTAG
* *
14740912 TGTATAAATGCTGTCCAATTTTGG
1 TGTATAAATGCTATCCAATTTTGA
14740936 TGTATAAATGCTATCCAA-TTTGA
1 TGTATAAATGCTATCCAATTTTGA
14740959 TGTATAA
1 TGTATAA
14740966 GAGCTGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (24 bp):
TGTATAAATGCTATCCAATTTTGA
Found at i:14741182 original size:12 final size:12
Alignment explanation
Indices: 14741165--14741190 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14741155 ATGGTTGAAT
14741165 TTTGAAACATGA
1 TTTGAAACATGA
14741177 TTTGAAACATGA
1 TTTGAAACATGA
14741189 TT
1 TT
14741191 GGTATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTTGAAACATGA
Found at i:14744159 original size:42 final size:42
Alignment explanation
Indices: 14744047--14744159 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
14744037 CTTTCTTGTA
* **
14744047 CACAT-AGTGCATCATCGGATAAATTAAAGCAATCATACTAG
1 CACATAAGTGCATCATCAGATAAATCGAAGCAATCATACTAG
* * ** * * *
14744088 TATATAAGTGCGCCATCAGATAAACCGAAGCAATCATATTGG
1 CACATAAGTGCATCATCAGATAAATCGAAGCAATCATACTAG
14744130 CACATAAGTGCATCATCAGATAAATCGAAG
1 CACATAAGTGCATCATCAGATAAATCGAAG
14744160 TATAAACCCG
Statistics
Matches: 56, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
41 3 0.05
42 53 0.95
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (42 bp):
CACATAAGTGCATCATCAGATAAATCGAAGCAATCATACTAG
Found at i:14745218 original size:15 final size:15
Alignment explanation
Indices: 14745168--14745218 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
14745158 CATGGTTATT
*
14745168 CTTTAATTAATCTTA
1 CTTTAATTATTCTTA
14745183 -TTTAATTATT-TTA
1 CTTTAATTATTCTTA
* *
14745196 GTTATAATTATTCTAA
1 CTT-TAATTATTCTTA
14745212 CTTTAAT
1 CTTTAAT
14745219 GGGCAACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 11 0.37
15 12 0.40
16 4 0.13
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (15 bp):
CTTTAATTATTCTTA
Found at i:14752823 original size:4 final size:4
Alignment explanation
Indices: 14752816--14752950 Score: 270
Period size: 4 Copynumber: 33.8 Consensus size: 4
14752806 TATATATATA
14752816 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14752864 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14752912 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
14752951 TAAAATAACT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 131 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:14756733 original size:30 final size:29
Alignment explanation
Indices: 14756699--14756784 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
14756689 AGAATCAGTC
* * **
14756699 TGGGCCTGAGCCCTATACAGTAGCAGTGTG
1 TGGGCCT-AGCCCAATACAGTAACAAAGTG
14756729 TGGGCCATAGCCCAATACAGTAACAAAGTG
1 TGGGCC-TAGCCCAATACAGTAACAAAGTG
14756759 TGGGCCTTAGCCCAATACAGTAACAA
1 TGGGCC-TAGCCCAATACAGTAACAA
14756785 TGCAAATGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
30 49 0.98
31 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (29 bp):
TGGGCCTAGCCCAATACAGTAACAAAGTG
Found at i:14756921 original size:26 final size:26
Alignment explanation
Indices: 14756892--14756994 Score: 152
Period size: 26 Copynumber: 4.0 Consensus size: 26
14756882 ACACCAATAT
* *
14756892 CGCAACAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
14756918 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * *
14756944 TGCAGCAGAGCTGCCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
14756970 CGCAGCAAAGTTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
14756995 TTTGTGGCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:14757020 original size:52 final size:52
Alignment explanation
Indices: 14756905--14757020 Score: 137
Period size: 52 Copynumber: 2.2 Consensus size: 52
14756895 AACAAAGCTG
* **
14756905 CCAGTAAT-AGTAACGCAGCAAAGCTGCCAGTAACAGTAATGCAGCAGAGCTG
1 CCAGT-ATCAGTAACGCAGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCCA
* * **
14756957 CCAGTATCAGTAACGCAGCAAAGTTGCCAGTAACAGTATTTGTGGCAAAGCCA
1 CCAGTATCAGTAACGCAGCAAAGCTGCCAGTAACAGTA-ATGCAGCAAAGCCA
14757010 CCAGTA-CAGTA
1 CCAGTATCAGTA
14757021 TACTTCCCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.04
52 39 0.71
53 14 0.25
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (52 bp):
CCAGTATCAGTAACGCAGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCCA
Found at i:14757206 original size:27 final size:27
Alignment explanation
Indices: 14757176--14757236 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
14757166 TCATCTCCTA
14757176 GGGGTATAAAAATCATTTTACCCTATG
1 GGGGTATAAAAATCATTTTACCCTATG
***** *
14757203 GGGGTATTTCGGTCATTTTACCCTTTG
1 GGGGTATAAAAATCATTTTACCCTATG
14757230 GGGGTAT
1 GGGGTAT
14757237 TTCAGTCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGGTATAAAAATCATTTTACCCTATG
Found at i:14757237 original size:27 final size:27
Alignment explanation
Indices: 14757186--14757488 Score: 335
Period size: 27 Copynumber: 11.3 Consensus size: 27
14757176 GGGGTATAAA
*
14757186 AATCATTTTACCCTAT-GGGGGTATTTC
1 AATCATTTTACCCT-TCGAGGGTATTTC
** * *
14757213 GGTCATTTTACCCTTTGGGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
* *
14757240 AGTCATTTT-CCCTTCAAGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
*
14757266 AATCATTTTACTCTTCGAGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
** *
14757293 GGTCATTTTACCCTTCGAGGTTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
* * *
14757320 GATCATTCTACCC-TCAAGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
*
14757346 AATCATTTTACCCTTCGAGGGTATTTT
1 AATCATTTTACCCTTCGAGGGTATTTC
* *
14757373 GATCATTTTACCCTTTGAGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
* *
14757400 AGTCATTTTACCCGTCGAGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
* *
14757427 GATCATTTTATCCTTCGAGGGTATTTC
1 AATCATTTTACCCTTCGAGGGTATTTC
** * *
14757454 AGCCATTTTACCCTAT-GGGGGTAATTC
1 AATCATTTTACCCT-TCGAGGGTATTTC
14757481 AATCATTT
1 AATCATTT
14757489 ATCGACCTCT
Statistics
Matches: 232, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 45 0.19
27 186 0.80
28 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (27 bp):
AATCATTTTACCCTTCGAGGGTATTTC
Found at i:14757246 original size:54 final size:54
Alignment explanation
Indices: 14757188--14757467 Score: 377
Period size: 54 Copynumber: 5.2 Consensus size: 54
14757178 GGTATAAAAA
* * * *
14757188 TCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAG
1 TCATTTTACCCT-TCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG
* * * *
14757242 TCATTTT-CCCTTCAAGGGTATTTCAATCATTTTACTCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG
* * * *
14757295 TCATTTTACCCTTCGAGGTTATTTCGATCATTCTACCC-TCAAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG
* *
14757348 TCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG
* *
14757402 TCATTTTACCCGTCGAGGGTATTTCGATCATTTTATCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG
*
14757456 CCATTTTACCCT
1 TCATTTTACCCT
14757468 ATGGGGGTAA
Statistics
Matches: 195, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.01
53 90 0.46
54 104 0.53
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG
Found at i:14757270 original size:80 final size:79
Alignment explanation
Indices: 14757186--14757488 Score: 385
Period size: 80 Copynumber: 3.8 Consensus size: 79
14757176 GGGGTATAAA
* *
14757186 AATCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTC
1 AATCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTC
14757250 CCTTCAAGGGTATTTC
65 CC-TCAAGGGTATTTC
* * * *
14757266 AATCATTTTACTCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGTTATTTC-GATCATTCTA
1 AATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAG-TCATT-TT
14757330 CCCTCAAGGGTATTTC
64 CCCTCAAGGGTATTTC
* *
14757346 AATCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCAGTCATTTTAC
1 AATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTT-C
*
14757411 CCGTCGAGGGTATTTC
65 CC-TCAAGGGTATTTC
* * * * * * * *
14757427 GATCATTTTATCCTTCGAGGGTATTTCAGCCATTTTACCCTATGGGGGTAATTCAATCATTT
1 AATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTT
14757489 ATCGACCTCT
Statistics
Matches: 194, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.02
80 122 0.63
81 69 0.36
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (79 bp):
AATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTCC
CTCAAGGGTATTTC
Found at i:14757718 original size:18 final size:18
Alignment explanation
Indices: 14757695--14757730 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14757685 CATCCATGTG
14757695 GGGCCCACACAGCCCATT
1 GGGCCCACACAGCCCATT
14757713 GGGCCCACACAGCCCATT
1 GGGCCCACACAGCCCATT
14757731 TTAGCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.11
Consensus pattern (18 bp):
GGGCCCACACAGCCCATT
Found at i:14768029 original size:42 final size:41
Alignment explanation
Indices: 14767913--14768029 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 41
14767903 CGAAGCAAAA
* * * * * *
14767913 ATACTAGCACCTAAGTGCATCATCAGTCGAATCGAAGCAATT
1 ATACTAGCACATAAGTGCATCATCGGT-AAACCAAAGCAATC
* *
14767955 ATACTAGCACACATAGTGCATCATTGGATAAACCAAAGCAATC
1 ATACTAGCACATA-AGTGCATCATCGG-TAAACCAAAGCAATC
14767998 ATACTAGCACATAAGTGCATCATCGGCTAAAC
1 ATACTAGCACATAAGTGCATCATCGG-TAAAC
14768030 TGAAGTATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.45
43 33 0.53
44 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.22
Consensus pattern (41 bp):
ATACTAGCACATAAGTGCATCATCGGTAAACCAAAGCAATC
Found at i:14769094 original size:15 final size:15
Alignment explanation
Indices: 14769074--14769102 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14769064 TAATCTTATT
14769074 TAATTATTTTAATTA
1 TAATTATTTTAATTA
14769089 TAATTATTTTAATT
1 TAATTATTTTAATT
14769103 TTAACGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTATTTTAATTA
Found at i:14776788 original size:49 final size:49
Alignment explanation
Indices: 14776707--14776802 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
14776697 AATGTTTCTG
*
14776707 AGTCTATCCAATCTGACACTTCTTTAACTTAGTTTCCATAAGGAAAAAAA
1 AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAA-GAAAAAAA
* * ** *
14776757 AGTCTATCCAATAT-AGAGTTCTTTTGCTTAGTTTCCATCAGAAAAA
1 AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAAGAAAAA
14776803 CAGTAGATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 6 0.15
49 21 0.52
50 13 0.32
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (49 bp):
AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAAGAAAAAAA
Found at i:14779828 original size:13 final size:15
Alignment explanation
Indices: 14779805--14779837 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
14779795 TTTGTTTTGT
14779805 TTTTCTTTCTTTTC-
1 TTTTCTTTCTTTTCA
14779819 TTTT-TTTCTTTTCA
1 TTTTCTTTCTTTTCA
14779833 TTTTC
1 TTTTC
14779838 CTCAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTCTTTTCA
Found at i:14787622 original size:25 final size:25
Alignment explanation
Indices: 14787593--14787641 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14787583 ATTTCTAAAA
14787593 AAATTTATATT-AATATTTTATAATT
1 AAATTTATATTGAAT-TTTTATAATT
*
14787618 AAATTTATATTGAATTTTTTTAAT
1 AAATTTATATTGAATTTTTATAAT
14787642 ATATAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AAATTTATATTGAATTTTTATAATT
Found at i:14787660 original size:21 final size:20
Alignment explanation
Indices: 14787630--14787678 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14787620 ATTTATATTG
* *
14787630 AATTTT-TTTAATATATAAT
1 AATTTTGTTTAAAATAAAAT
14787649 CAATTTTGTTTAAAATAAAAT
1 -AATTTTGTTTAAAATAAAAT
*
14787670 AATATTGTT
1 AATTTTGTT
14787679 CAAATTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
AATTTTGTTTAAAATAAAAT
Found at i:14790517 original size:25 final size:25
Alignment explanation
Indices: 14790489--14790542 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
14790479 TGGGTCACAT
*
14790489 GGCCATATCACACGCCCGTGTGCCA
1 GGCCATATCACACGCCCATGTGCCA
*
14790514 GGCCATGTCACACGCCCATGTGCCA
1 GGCCATATCACACGCCCATGTGCCA
14790539 GGCC
1 GGCC
14790543 GTGTAATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.41, G:0.26, T:0.15
Consensus pattern (25 bp):
GGCCATATCACACGCCCATGTGCCA
Found at i:14792542 original size:24 final size:24
Alignment explanation
Indices: 14792515--14792620 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 24
14792505 AGGCTCTCCG
14792515 GAGCTTCCCGATATTAGCTCGTAT
1 GAGCTTCCCGATATTAGCTCGTAT
* * *
14792539 GAGCTTCCTGA-ATTTGGCTC-TCTT
1 GAGCTTCCCGATA-TTAGCTCGT-AT
*
14792563 AAGCTTCCC-AT-TTATGGCTCGTAT
1 GAGCTTCCCGATATTA--GCTCGTAT
* * * *
14792587 GAGCTTCTCGATAATGGCTCGCAT
1 GAGCTTCCCGATATTAGCTCGTAT
14792611 GAGCTTCCCG
1 GAGCTTCCCG
14792621 TTACATGACT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
22 2 0.03
23 3 0.05
24 52 0.85
25 3 0.05
26 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGATATTAGCTCGTAT
Found at i:14792605 original size:48 final size:50
Alignment explanation
Indices: 14792531--14792656 Score: 125
Period size: 48 Copynumber: 2.6 Consensus size: 50
14792521 CCCGATATTA
* * * *
14792531 GCTCGTATGAGCTTC-CTGA-ATTTGGCTCTCTTAAGCTTCCCATT-TATG
1 GCTCGTATGAGCTTCTC-GATATATGGCTCGCATAAGCTTCCCATTACATG
* *
14792579 GCTCGTATGAGCTTCTCGATA-ATGGCTCGCATGAGCTTCCCGTTACATG
1 GCTCGTATGAGCTTCTCGATATATGGCTCGCATAAGCTTCCCATTACATG
* ** *
14792628 ACTCACATGAGCTTCTCGTTATATGGCTC
1 GCTCGTATGAGCTTCTCGATATATGGCTC
14792657 AAAAGAGCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 35 0.55
49 22 0.34
50 7 0.11
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (50 bp):
GCTCGTATGAGCTTCTCGATATATGGCTCGCATAAGCTTCCCATTACATG
Found at i:14792642 original size:25 final size:25
Alignment explanation
Indices: 14792576--14792686 Score: 91
Period size: 25 Copynumber: 4.5 Consensus size: 25
14792566 CTTCCCATTT
** * *
14792576 ATGGCTCGTATGAGCTTCTCGATA-
1 ATGGCTCACATGAGCTTCCCGTTAC
*
14792600 ATGGCTCGCATGAGCTTCCCGTTAC
1 ATGGCTCACATGAGCTTCCCGTTAC
* * *
14792625 ATGACTCACATGAGCTTCTCGTTAT
1 ATGGCTCACATGAGCTTCCCGTTAC
* * *
14792650 ATGGCTCAAAAGAGCTTTCCGATTAC
1 ATGGCTCACATGAGCTTCCCG-TTAC
*
14792676 AT-GCTCGCATG
1 ATGGCTCACATG
14792687 GGTATACCTG
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
24 21 0.30
25 43 0.62
26 5 0.07
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.31
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCCCGTTAC
Found at i:14792665 original size:50 final size:49
Alignment explanation
Indices: 14792585--14792686 Score: 125
Period size: 50 Copynumber: 2.1 Consensus size: 49
14792575 TATGGCTCGT
** *
14792585 ATGAGCTTCTCGATAATGGCTCGCATGAGCTTCCCG-TTACATGACTCAC
1 ATGAGCTTCTCGATAATGGCTCAAAAGAGCTTCCCGATTACATG-CTCAC
* * *
14792634 ATGAGCTTCTCGTTATATGGCTCAAAAGAGCTTTCCGATTACATGCTCGC
1 ATGAGCTTCTCGATA-ATGGCTCAAAAGAGCTTCCCGATTACATGCTCAC
14792684 ATG
1 ATG
14792687 GGTATACCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
49 14 0.31
50 24 0.53
51 7 0.16
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (49 bp):
ATGAGCTTCTCGATAATGGCTCAAAAGAGCTTCCCGATTACATGCTCAC
Found at i:14797157 original size:22 final size:22
Alignment explanation
Indices: 14797129--14797197 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
14797119 TCTTTCTTGT
14797129 ATGGCTAACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
14797151 ATGGCTAACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
** *
14797173 ATGTTTCACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
14797195 ATG
1 ATG
14797198 TTTGAACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
ATGGCTAACGTACTAAGCTCTC
Found at i:14802340 original size:20 final size:19
Alignment explanation
Indices: 14802315--14802363 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
14802305 ACAACCACTT
14802315 TTTTTATATTAAA-AAATATA
1 TTTTTAT-TTAAATAAA-ATA
14802335 TTTTTACTTTAAATAAAATA
1 TTTTTA-TTTAAATAAAATA
*
14802355 TTATTATTT
1 TTTTTATTT
14802364 TATTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTATTTAAATAAAATA
Found at i:14802880 original size:26 final size:27
Alignment explanation
Indices: 14802840--14802895 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
14802830 GTAATTCAGG
* *
14802840 ATTATGTTATAAATTGTTGTGTTTGTA
1 ATTATGTTATAAATTATTGTGTTAGTA
* *
14802867 ATTATTTTA-AAATTATTTTGTTAGTA
1 ATTATGTTATAAATTATTGTGTTAGTA
14802893 ATT
1 ATT
14802896 TAGGATTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (27 bp):
ATTATGTTATAAATTATTGTGTTAGTA
Found at i:14802891 original size:60 final size:60
Alignment explanation
Indices: 14802796--14802924 Score: 213
Period size: 60 Copynumber: 2.1 Consensus size: 60
14802786 GTAAATTTTT
*
14802796 TTGTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTCAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTCAGGATTATGTTATAAATTG
* * * *
14802856 TTGTGTTTGTAATTATTTTAAAATTATTTTGTTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTCAGGATTATGTTATAAATTG
14802916 TTGTGTTTA
1 TTGTGTTTA
14802925 GTTTAGTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (60 bp):
TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTCAGGATTATGTTATAAATTG
Found at i:14802924 original size:27 final size:27
Alignment explanation
Indices: 14802837--14802925 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 27
14802827 TTAGTAATTC
14802837 AGGATTATGTTATAAATTGTTGTGTTT
1 AGGATTATGTTATAAATTGTTGTGTTT
* * * *
14802864 -GTAATTATTTTAAAATTATTTTGTTAGTAATTT
1 AG-GATTATGTTATAA--A--TTGTT-GT-GTTT
14802897 AGGATTATGTTATAAATTGTTGTGTTT
1 AGGATTATGTTATAAATTGTTGTGTTT
14802924 AG
1 AG
14802926 TTTAGTATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
26 1 0.02
27 15 0.33
28 2 0.04
29 6 0.13
31 6 0.13
32 2 0.04
33 13 0.28
34 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (27 bp):
AGGATTATGTTATAAATTGTTGTGTTT
Found at i:14803356 original size:98 final size:102
Alignment explanation
Indices: 14803117--14803396 Score: 391
Period size: 98 Copynumber: 2.8 Consensus size: 102
14803107 TTATAGTTAT
* * *
14803117 TTATTTTGTTAGTAATTTATGAGATTAGG-T-TACAAATTGTTAGTGTTGAG-TATAGGGTTTTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTG
*
14803179 TGATTTTTTAGGAATGTAATTAAAAAAAAAACAATTTTATAG
64 TGATTTTTTAGTAATGT-ATT--AAAAAAAACAATTTTATAG
14803221 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
* *
14803285 ATTTTTTAGTAATGTATT-TAAAAAA-TA-TTTATAG
66 ATTTTTTAGTAATGTATTAAAAAAAACAATTTTATAG
14803319 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT-TAGTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
14803383 ATTTTTT--TAATGTA
66 ATTTTTTAGTAATGTA
14803397 ATTTTATTTG
Statistics
Matches: 166, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
96 7 0.04
97 1 0.01
98 76 0.46
99 1 0.01
100 6 0.04
102 7 0.04
103 4 0.02
104 61 0.37
105 3 0.02
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
ATTTTTTAGTAATGTATTAAAAAAAACAATTTTATAG
Found at i:14805309 original size:50 final size:50
Alignment explanation
Indices: 14805185--14805426 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 50
14805175 GATAATAACA
* ** * * *
14805185 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
14805234 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
14805284 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
14805334 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
14805390 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14805427 TCTCATCACC
Statistics
Matches: 160, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 83 0.52
53 2 0.01
56 35 0.22
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14810188 original size:43 final size:43
Alignment explanation
Indices: 14810039--14810295 Score: 242
Period size: 42 Copynumber: 6.1 Consensus size: 43
14810029 TAACCCTTAC
* ***
14810039 ACGGTGGAATCAGCACTTAGCAACCACC-TAATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTACAATC-AAGGAT
* * * *
14810082 CCCGGTGGAATCAACACTTAGCAACCACC-TTATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGGAT
* * * * *
14810125 AC-GAGAAATAAGCACATAGCAACC-CCTTTCACAATGAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAAGGAT
* *
14810167 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGGAT
* *
14810209 ACGG-GGAATCAGCACATAGCAACC-CCTTCCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTT-TACAATCAAGGAT
* * *
14810251 ACGGTGGAATCAACACTTAGCAACCACC-TTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGGAT
14810293 ACG
1 ACG
14810296 AGTTCACATA
Statistics
Matches: 174, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
40 4 0.02
41 39 0.22
42 52 0.30
43 44 0.25
44 35 0.20
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGGAT
Found at i:14810192 original size:84 final size:84
Alignment explanation
Indices: 14810084--14810297 Score: 374
Period size: 84 Copynumber: 2.5 Consensus size: 84
14810074 CAAAGGATCC
14810084 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGAAATAAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGAAATAAGCACATAGCAACC
* *
14810149 CCTTTCACAATGAAGGATA
66 CCTTCCACAATCAAGGATA
* * * *
14810168 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGAAATAAGCACATAGCAACC
14810233 CCTTCCACAATCAAGGATA
66 CCTTCCACAATCAAGGATA
14810252 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAG
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAG
14810298 TTCACATAGT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 122 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (84 bp):
CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGAAATAAGCACATAGCAACC
CCTTCCACAATCAAGGATA
Found at i:14810379 original size:26 final size:25
Alignment explanation
Indices: 14810300--14810380 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
14810290 GATACGAGTT
*
14810300 CACATAGTAGCCTACACATAGTACTG
1 CACATAGTAGCCT-CACATAGTACTA
*
14810326 CACAT-GT-GACCATCAC-TA-TCCGATA
1 CACATAGTAG-CC-TCACATAGTAC--TA
14810351 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCT-CACATAGTACTA
14810377 CACA
1 CACA
14810381 CATGATCGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
23 2 0.05
24 3 0.07
25 14 0.33
26 19 0.44
27 3 0.07
28 2 0.05
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (25 bp):
CACATAGTAGCCTCACATAGTACTA
Found at i:14810396 original size:51 final size:50
Alignment explanation
Indices: 14810300--14810481 Score: 170
Period size: 51 Copynumber: 3.6 Consensus size: 50
14810290 GATACGAGTT
* * **
14810300 CACATAGTAGCCTACACATAGTACTGCACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACATGACCA-CACTATCCGATA
* *
14810351 CACATAGTAGCCTGCACATAGTACTACACACATGATCGA-AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACATGA-CCACA-CTATCCGATA
* *** * * ** *
14810402 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTA-TCTTTTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACATGACC-ACACTATCCGATA
*
14810452 CACGTAGTAGCCTGCACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
14810482 TGTGACCATC
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 37 0.33
51 72 0.65
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACATGACCACACTATCCGATA
Found at i:14810510 original size:101 final size:101
Alignment explanation
Indices: 14810297--14810481 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 101
14810287 AATGATACGA
* *
14810297 GTTCACATAGTAGCCTACACATAGTACTGCACATGTGACCATCACTATCCGATACACATAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACATAGTAGC
*
14810362 CTGCACATAGTACTACACACATGATCGAAGCTATCCG
65 CTGCACATAGTACTACACACATGATCCAAGCTATCCG
* * * * ** * *
14810399 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTTTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACATAGTAGC
14810463 CTGCACATAGTACTACACA
65 CTGCACATAGTACTACACA
14810482 TGTGACCATC
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
100 1 0.01
101 36 0.50
102 35 0.49
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACATAGTAGCC
TGCACATAGTACTACACACATGATCCAAGCTATCCG
Found at i:14811655 original size:41 final size:41
Alignment explanation
Indices: 14811594--14811679 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
14811584 CTTTTTAGGG
14811594 ATTT-TCGTCCCCAAAAATCTTACCAGATGGTAGATTAAGA
1 ATTTATCGTCCCCAAAAATCTTACCAGATGGTAGATTAAGA
14811634 ATTTATCGTCCCCAAAAATCTTACCAGATGGTAGATTAAGA
1 ATTTATCGTCCCCAAAAATCTTACCAGATGGTAGATTAAGA
14811675 ATTTA
1 ATTTA
14811680 CTTCCACACA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 41 0.91
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (41 bp):
ATTTATCGTCCCCAAAAATCTTACCAGATGGTAGATTAAGA
Found at i:14816061 original size:84 final size:84
Alignment explanation
Indices: 14815950--14816247 Score: 479
Period size: 84 Copynumber: 3.5 Consensus size: 84
14815940 CAAAGGATCC
* *
14815950 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAACACGTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAACACATAGCAACC
14816015 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * * * *
14816034 CGGTGGAATCATCACTTAGCAACCACCTTAAAATCAATGATACGGGGAATCAACACATAACAAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAACACATAGCAACC
*
14816099 CCTTTCACAATGAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
14816118 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAGTGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAACACATAGCAACC
14816183 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
14816202 CAGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAG
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAG
14816248 TTCACATAGT
Statistics
Matches: 195, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 195 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:14816069 original size:42 final size:42
Alignment explanation
Indices: 14815905--14816245 Score: 336
Period size: 42 Copynumber: 8.1 Consensus size: 42
14815895 TAACCCTTCC
* **
14815905 ACGGTGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAACACTTAGCAACCACCTTATAATC-AAGGAT
* * * *
14815948 CCCGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGAT
1 -ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAAGGAT
* * *
14815991 AC-GAGGAATCAACACGTAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAACACTTAGCAACCACC-TT-ATAATCAAGGAT
* * *
14816033 ACGGTGGAATCATCACTTAGCAACCACCTTAAAATCAATGAT
1 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAAGGAT
* * * * *
14816075 ACGG-GGAATCAACACATAACAAACC-CTTTCACAATGAAGGAT
1 ACGGTGGAATCAACACTTAGC-AACCACCTT-ATAATCAAGGAT
*
14816117 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AGTGAT
1 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAAG-GAT
* * *
14816159 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAACACTTAGCAACCACC-TT-ATAATCAAGGAT
* *
14816201 ACAGTGGAATCAACACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAAGGAT
14816243 ACG
1 ACG
14816246 AGTTCACATA
Statistics
Matches: 243, Mismatches: 40, Indels: 30
0.78 0.13 0.10
Matches are distributed among these distances:
40 4 0.02
41 59 0.24
42 82 0.34
43 64 0.26
44 34 0.14
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (42 bp):
ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAAGGAT
Found at i:14816346 original size:51 final size:49
Alignment explanation
Indices: 14816254--14816439 Score: 192
Period size: 51 Copynumber: 3.7 Consensus size: 49
14816244 CGAGTTCACA
* * *
14816254 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA--ACTATCCGGTACACG
* * * *
14816305 TAGTAGCCTGCACATAGTACTGCACACGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAA-CTATCCGGTACACG
* * * * * *
14816356 TAGTAGCCTGCACATTGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-AACTATCCGGTACACG
* *
14816406 TAGTAGCCTCCACATAGTACTACACACGTAACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
14816440 TCACTTTCAC
Statistics
Matches: 110, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 67 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAACTATCCGGTACACG
Found at i:14816432 original size:101 final size:101
Alignment explanation
Indices: 14816252--14816434 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 101
14816242 TACGAGTTCA
* *
14816252 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTCCA
*
14816317 CATAGTACTGCACACGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * * *
14816354 CATAGTAGCCTGCACATTGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTCCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTCCA
14816418 CATAGTACTACACACGT
65 CATAGTACTACACACGT
14816435 AACCATCACT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 1 0.01
101 39 0.54
102 32 0.44
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCCTCCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:14817956 original size:78 final size:78
Alignment explanation
Indices: 14817872--14818092 Score: 304
Period size: 78 Copynumber: 2.9 Consensus size: 78
14817862 AATAACTTCA
* *
14817872 TATTTATGTAATGAATTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
*
14817937 GTAGTCAACCTTG
66 ATAGTCAACCTTG
* *
14817950 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTGTATGGTTTTTTTTTTGCAATTTAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
**
14818015 ATAGTCAATTTTG
66 ATAGTCAACCTTG
* * * * * *
14818028 TATTTATGTAATGACTTTTTCGCTATTTCAGTTATTAATTTTA--GG-ATTTTTTTGCAATTTAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
14818090 ATA
66 ATA
14818093 AATAAACTTT
Statistics
Matches: 128, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 19 0.15
76 1 0.01
78 108 0.84
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.55
Consensus pattern (78 bp):
TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
ATAGTCAACCTTG
Found at i:14822365 original size:27 final size:27
Alignment explanation
Indices: 14822325--14822409 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
14822315 AAAAATTATG
* **
14822325 CACCAGTCGTGCCTGTCAGATAGGCTC
1 CACCAGTCGCGCCTACCAGATAGGCTC
*
14822352 CACCAGTCGCGCCTACCAGATAGCCTC
1 CACCAGTCGCGCCTACCAGATAGGCTC
* * *
14822379 CACAAGTTGCGCCTACCAGATAGGCGC
1 CACCAGTCGCGCCTACCAGATAGGCTC
14822406 CACC
1 CACC
14822410 TACCTCATAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.16
Consensus pattern (27 bp):
CACCAGTCGCGCCTACCAGATAGGCTC
Found at i:14825647 original size:6 final size:6
Alignment explanation
Indices: 14825604--14825645 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
14825594 TCTTGTTTGC
* * *
14825604 AGTTTT AGTTTT AGTTTT AGTTTC GGTTTT AGTTTT TGTTTT
1 AGTTTT AGTTTT AGTTTT AGTTTT AGTTTT AGTTTT AGTTTT
14825646 TGGGTAGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.12, C:0.02, G:0.19, T:0.67
Consensus pattern (6 bp):
AGTTTT
Found at i:14828294 original size:41 final size:41
Alignment explanation
Indices: 14828249--14828694 Score: 488
Period size: 41 Copynumber: 10.8 Consensus size: 41
14828239 TTGTACTAGT
* *
14828249 GCCGCTAATGATC-GTGGTTTTAGCGGTGTTTT-TGAGAAAGC
1 GCCGCTAATGCTCTG-GGTTTTAGCGGCGTTTTCTGA-AAAGC
* * **
14828290 GCCGCT-ATGGCTCTGGGTTTTAGTGGCGTTTT-TGGGAGTGC
1 GCCGCTAAT-GCTCTGGGTTTTAGCGGCGTTTTCT-GAAAAGC
* * * *
14828331 GCCACTAATGCTCTGGGTTTTAACGACGTTTTCTGAAAAGT
1 GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAAAGC
* * *
14828372 GCCGCTAATGCTTTGCGTTTTAGCGGCGTTTTCTGAAAAGT
1 GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAAAGC
* *
14828413 ACCGCTAATGCTCTGCGTTTTAGCGGCGTTTTCTGAAAAGC
1 GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAAAGC
* *
14828454 GCCGCTAATGCTCTGCGTTTTAGCGGCACTTTT-TGAAAAGC
1 GCCGCTAATGCTCTGGGTTTTAGCGGC-GTTTTCTGAAAAGC
* * * * *
14828495 GCCGTTAATGATCTGGGTTTTAGCAGCGTTTTCTGAAAGGT
1 GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAAAGC
*
14828536 GCCGCTAATGCTCTGGGGGGTTTTAGCGGCGTTTTCTAAAAAGC
1 GCCGCTAATGCTCT---GGGTTTTAGCGGCGTTTTCTGAAAAGC
*
14828580 GCCGCTAATGCTCTAGGGGTTTAGCGGCGTTTTCTGAAAAGC
1 GCCGCTAATGCTCT-GGGTTTTAGCGGCGTTTTCTGAAAAGC
* * **
14828622 GCCGCTAATGCTTTAGGTTTTAGCGGCGTTTTCTGAATTGC
1 GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAAAGC
* ** *
14828663 GCCACTAATGCTAGGGGTTTTAGTGGCGTTTT
1 GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTT
14828695 TATTAAAGCG
Statistics
Matches: 345, Mismatches: 50, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
40 6 0.02
41 255 0.74
42 47 0.14
44 37 0.11
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (41 bp):
GCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAAAGC
Found at i:14829768 original size:14 final size:14
Alignment explanation
Indices: 14829749--14829813 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
14829739 CAGGATTTAA
14829749 GGGTTAGGGATTAG
1 GGGTTAGGGATTAG
*
14829763 GGGTTAGGGGTTAG
1 GGGTTAGGGATTAG
** *
14829777 ATGTTAGTGG-TTAA
1 GGGTTAG-GGATTAG
*
14829791 GAGTTAGGGATTTAG
1 GGGTTAGGGA-TTAG
*
14829806 GGTTTAGG
1 GGGTTAGG
14829814 ATTTCAAGGG
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
13 2 0.05
14 26 0.67
15 11 0.28
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.34
Consensus pattern (14 bp):
GGGTTAGGGATTAG
Found at i:14829774 original size:21 final size:21
Alignment explanation
Indices: 14829749--14829813 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
14829739 CAGGATTTAA
14829749 GGGTTAGGGATTAGGGGTTAG
1 GGGTTAGGGATTAGGGGTTAG
* * *
14829770 GGGTTAGATG-TTAGTGGTTAA
1 GGGTTAG-GGATTAGGGGTTAG
* *
14829791 GAGTTAGGGATTTAGGGTTTAG
1 GGGTTAGGGA-TTAGGGGTTAG
14829813 G
1 G
14829814 ATTTCAAGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.67
22 10 0.30
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.34
Consensus pattern (21 bp):
GGGTTAGGGATTAGGGGTTAG
Found at i:14830236 original size:19 final size:19
Alignment explanation
Indices: 14830212--14830260 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
14830202 AAATTATAAG
*
14830212 AAATAAAATTAAAATACAA
1 AAATAAAATTAAAATAAAA
* *
14830231 AAATAAAAATGAAATAAAA
1 AAATAAAATTAAAATAAAA
14830250 AAACTAAAATT
1 AAA-TAAAATT
14830261 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAAAATTAAAATAAAA
Found at i:14831112 original size:24 final size:24
Alignment explanation
Indices: 14831085--14831143 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
14831075 AAGCTCATTT
* *
14831085 TTCCCCTCAAATTTTTCCCCAAAA
1 TTCCCCTCAAATATTTCCCAAAAA
*
14831109 TTCCCCTCCAATATTTCCCAAAAA
1 TTCCCCTCAAATATTTCCCAAAAA
14831133 TTCCCC-CAAAT
1 TTCCCCTCAAAT
14831144 CTAGAACCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.31, C:0.39, G:0.00, T:0.31
Consensus pattern (24 bp):
TTCCCCTCAAATATTTCCCAAAAA
Found at i:14831533 original size:12 final size:12
Alignment explanation
Indices: 14831516--14831540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14831506 AGTTTGAAAC
14831516 TGTTCATAATTT
1 TGTTCATAATTT
14831528 TGTTCATAATTT
1 TGTTCATAATTT
14831540 T
1 T
14831541 CATTATCCTG
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:14832674 original size:69 final size:69
Alignment explanation
Indices: 14832594--14832735 Score: 266
Period size: 69 Copynumber: 2.1 Consensus size: 69
14832584 AAATTTTATT
14832594 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
14832659 TTTC
66 TTTC
*
14832663 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAACACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
*
14832728 TTTT
66 TTTC
14832732 AATA
1 AATA
14832736 TATCACCCCA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (69 bp):
AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
TTTC
Found at i:14832904 original size:8 final size:8
Alignment explanation
Indices: 14832891--14832936 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
14832881 CATATAACTT
14832891 ACATAATA
1 ACATAATA
14832899 ACATAATA
1 ACATAATA
14832907 ACATAATA
1 ACATAATA
14832915 AC-T--T-
1 ACATAATA
14832919 ACATAATA
1 ACATAATA
14832927 ACATAATA
1 ACATAATA
14832935 AC
1 AC
14832937 TTATATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
7 2 0.06
8 28 0.82
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (8 bp):
ACATAATA
Found at i:14832907 original size:20 final size:20
Alignment explanation
Indices: 14832899--14832992 Score: 129
Period size: 20 Copynumber: 4.7 Consensus size: 20
14832889 TTACATAATA
14832899 ACATAATAACATAATAACTT
1 ACATAATAACATAATAACTT
14832919 ACATAATAACATAATAACTT
1 ACATAATAACATAATAACTT
* * *
14832939 ATAT-ATAAACTTGCATAACTT
1 ACATAAT-AACAT-AATAACTT
14832960 ACATAATAACATAATAACTT
1 ACATAATAACATAATAACTT
14832980 ACATAAT-ACATAA
1 ACATAATAACATAA
14832993 CTTTGATAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
19 8 0.12
20 41 0.63
21 14 0.22
22 2 0.03
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (20 bp):
ACATAATAACATAATAACTT
Found at i:14833002 original size:25 final size:25
Alignment explanation
Indices: 14832973--14833020 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14832963 TAATAACATA
* *
14832973 ATAACTTACATAATACATAACTTTG
1 ATAACTAACATAATACACAACTTTG
*
14832998 ATAACTAACATTATACACAACTT
1 ATAACTAACATAATACACAACTT
14833021 ACATAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAACTAACATAATACACAACTTTG
Found at i:14833020 original size:41 final size:41
Alignment explanation
Indices: 14832975--14833246 Score: 176
Period size: 41 Copynumber: 6.7 Consensus size: 41
14832965 ATAACATAAT
*
14832975 AACTTACATAATACATAACTTT-GATAACTAACATTATACAC
1 AACTTACATAATACATAA-TTTACATAACTAACATTATACAC
* * *
14833016 AACTTACATAATATATTATTTACATAACTTACATTATACAC
1 AACTTACATAATACATAATTTACATAACTAACATTATACAC
* * *
14833057 AACTTACAT-A-ACTTAA-TTA-AT---TAATATTATACAT
1 AACTTACATAATACATAATTTACATAACTAACATTATACAC
*
14833091 AACTTACATAACTTAC--AACTTACATAACTTAATTACATTATACAC
1 AACTTACATAA--TACATAATTTACATAAC-T-A--ACATTATACAC
* * * *
14833136 AACTTACATAACATACATAA--TACATAACTTACATGATATAT
1 AACTTACAT-A-ATACATAATTTACATAACTAACATTATACAC
* * * * *
14833177 TACTTACGTAACTTACATAA--TACATAACTTACATAATACAT
1 AACTTACATAA--TACATAATTTACATAACTAACATTATACAC
* *
14833218 AGCTTACATAATACATAACTTACATAACT
1 AACTTACATAATACATAATTTACATAACT
14833247 TATATGTGCT
Statistics
Matches: 186, Mismatches: 23, Indels: 44
0.74 0.09 0.17
Matches are distributed among these distances:
34 19 0.10
35 1 0.01
36 2 0.01
37 5 0.03
38 7 0.04
39 11 0.06
40 5 0.03
41 100 0.54
42 1 0.01
43 1 0.01
44 1 0.01
45 29 0.16
46 1 0.01
47 3 0.02
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (41 bp):
AACTTACATAATACATAATTTACATAACTAACATTATACAC
Found at i:14833020 original size:61 final size:59
Alignment explanation
Indices: 14832882--14833028 Score: 151
Period size: 61 Copynumber: 2.5 Consensus size: 59
14832872 AATTTGTAAC
* *
14832882 ATAT-AACTTACATAA-TAACATAATAACATAATAACTTACATAATAACATAATAACTTAT
1 ATATAAACTTACACAACTTACATAATAACATAATAACTTACATAATAACATAAT-A-TTAT
* *
14832941 ATATAAACTTGCATAACTTACATAATAACATAATAACTTACATAAT-ACATAACT-TTGAT
1 ATATAAACTTACACAACTTACATAATAACATAATAACTTACATAATAACATAA-TATT-AT
*
14833000 A-ACTAACATTATACACAACTTACATAATA
1 ATA-TAA-ACT-TACACAACTTACATAATA
14833029 TATTATTTAC
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
58 3 0.04
59 10 0.13
60 18 0.24
61 45 0.59
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (59 bp):
ATATAAACTTACACAACTTACATAATAACATAATAACTTACATAATAACATAATATTAT
Found at i:14833070 original size:50 final size:49
Alignment explanation
Indices: 14833011--14833212 Score: 170
Period size: 50 Copynumber: 4.1 Consensus size: 49
14833001 ACTAACATTA
*
14833011 TACACAACTTACATAATATATTATTTACATAACTTACATTATACACAACT
1 TACATAACTTA-ATAATATATTATTTACATAACTTACATTATACACAACT
*
14833061 TACATAACTTAATTAAT-TAATATTATACATAACTTACA-TA-ACTTACAACT
1 TACATAACTTAA-TAATATATTATT-TACATAACTTACATTATAC--ACAACT
* * * *
14833111 TACATAACTTAAT--TACATTA--TACACAACTTACATAACATACATAA--
1 TACATAACTTAATAATATATTATTTACATAACTTACAT--TATACACAACT
* * * * *
14833156 TACATAACTTACATGATATATTACTTACGTAACTTACATAATACATAACT
1 TACATAACTTA-ATAATATATTATTTACATAACTTACATTATACACAACT
14833206 TACATAA
1 TACATAA
14833213 TACATAGCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
45 23 0.18
46 2 0.02
47 4 0.03
48 20 0.16
49 12 0.10
50 64 0.51
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (49 bp):
TACATAACTTAATAATATATTATTTACATAACTTACATTATACACAACT
Found at i:14833224 original size:57 final size:57
Alignment explanation
Indices: 14833036--14833248 Score: 191
Period size: 57 Copynumber: 3.6 Consensus size: 57
14833026 ATATATTATT
* * **
14833036 TACATAACTTACATTATACACAACTTACATAACTTA-ATTAATTA-ATATTATACATAA
1 TACATAACTTACATAATACATAACTTACATAACTTACA-TAA-TACATAACATACATAA
* * *
14833093 CTTACATAACTTACA-ACTTACATAACTTA-ATTACATTATACACAACTTACATAACATACATAA
1 --TACATAACTTACATA-ATACATAACTTACA-TA-ACT-TACATAA--TACATAACATACATAA
* * * * *
14833156 TACATAACTTACATGATATATTACTTACGTAACTTACATAATACATAACTTACATAA
1 TACATAACTTACATAATACATAACTTACATAACTTACATAATACATAACATACATAA
*
14833213 TACATAGCTTACATAATACATAACTTACATAACTTA
1 TACATAACTTACATAATACATAACTTACATAACTTA
14833249 TATGTGCTAT
Statistics
Matches: 125, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
57 46 0.37
58 1 0.01
59 31 0.25
60 4 0.03
61 28 0.22
62 4 0.03
63 11 0.09
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (57 bp):
TACATAACTTACATAATACATAACTTACATAACTTACATAATACATAACATACATAA
Found at i:14833243 original size:16 final size:16
Alignment explanation
Indices: 14833036--14833244 Score: 129
Period size: 16 Copynumber: 13.0 Consensus size: 16
14833026 ATATATTATT
*
14833036 TACATAACTTACATTA
1 TACATAACTTACATAA
*
14833052 TACACAACTTACATAA
1 TACATAACTTACATAA
14833068 CTTA-ATTAA-TTA-ATATTA
1 --TACA-TAACTTACATA--A
14833086 TACATAACTTACATAA
1 TACATAACTTACATAA
14833102 CTTAC--AACTTACAT-A
1 --TACATAACTTACATAA
* *
14833117 -ACTTAA-TTACATTA
1 TACATAACTTACATAA
*
14833131 TACACAACTTACATAACA
1 TACATAACTTACAT-A-A
14833149 TACATAA--TACATAA
1 TACATAACTTACATAA
*
14833163 CTTACATGATATATTAC-T--
1 --TACAT-A-A-CTTACATAA
*
14833181 TACGTAACTTACATAA
1 TACATAACTTACATAA
14833197 TACATAACTTACATAA
1 TACATAACTTACATAA
*
14833213 TACATAGCTTACATAA
1 TACATAACTTACATAA
14833229 TACATAACTTACATAA
1 TACATAACTTACATAA
14833245 CTTATATGTG
Statistics
Matches: 154, Mismatches: 12, Indels: 54
0.70 0.05 0.25
Matches are distributed among these distances:
12 2 0.01
13 10 0.06
14 6 0.04
15 7 0.05
16 97 0.63
17 9 0.06
18 19 0.12
20 1 0.01
21 3 0.02
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:14833248 original size:25 final size:25
Alignment explanation
Indices: 14833011--14833244 Score: 149
Period size: 25 Copynumber: 9.6 Consensus size: 25
14833001 ACTAACATTA
* * * *
14833011 TACACAACTTACATAATATATTATT
1 TACATAACTTACATAATACATAACT
* *
14833036 TACATAACTTACATTATACACAACT
1 TACATAACTTACATAATACATAACT
*
14833061 TACATAACTTA-ATTAATTA-AT-ATT
1 TACATAACTTACA-TAA-TACATAACT
14833085 ATACATAACTTACATAACTTAC--AACT
1 -TACATAACTTACATAA--TACATAACT
*
14833111 TACATAACTTA-AT--TACATTA--
1 TACATAACTTACATAATACATAACT
*
14833131 TACACAACTTACATAACATACATAA--
1 TACATAACTTACAT-A-ATACATAACT
* * *
14833156 TACATAACTTACATGATATATTACT
1 TACATAACTTACATAATACATAACT
*
14833181 TACGTAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
*
14833206 TACATAA--TACATAGCTTACATAA--
1 TACATAACTTACATA--ATACATAACT
14833229 TACATAACTTACATAA
1 TACATAACTTACATAA
14833245 CTTATATGTG
Statistics
Matches: 165, Mismatches: 24, Indels: 42
0.71 0.10 0.18
Matches are distributed among these distances:
20 13 0.08
21 2 0.01
22 1 0.01
23 19 0.12
24 5 0.03
25 117 0.71
26 8 0.05
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:14834922 original size:66 final size:65
Alignment explanation
Indices: 14834814--14834983 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
14834804 GAGCAAATTA
* * * *
14834814 CACAACTTAAAGCGGAGGCAACA-TCGAGAGAAGCTGAGGTTCAAA-AAAGATATGAAGAACTCC
1 CACAACTTAAAGCAGATGCAGCAGT-GAGAGAAGCTGAGGTTCAAATAAAG-TATGAAGAACCCC
14834877 AG
64 AG
* *
14834879 CTACAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGATGTTCAAATGAAGTATGAAGAACCCCA
1 C-ACAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGGTTCAAATAAAGTATGAAGAACCCCA
14834944 G
65 G
* * * * *
14834945 CGCAGCTTAAAGCAGATGCGGCAGTGAGGGAAGCAGAGG
1 CACAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGG
14834984 CAGCAGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
65 33 0.37
66 53 0.59
67 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGGTTCAAATAAAGTATGAAGAACCCCAG
Found at i:14834978 original size:21 final size:21
Alignment explanation
Indices: 14834954--14835002 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
14834944 GCGCAGCTTA
* * *
14834954 AAGCAGATGCGGCAGTGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
14834975 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
14834996 AAGCAGA
1 AAGCAGA
14835003 ACAGAGCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:14835372 original size:43 final size:43
Alignment explanation
Indices: 14835325--14835534 Score: 330
Period size: 43 Copynumber: 4.9 Consensus size: 43
14835315 CGTTTTTTAT
* * *
14835325 AAAAGCGCCGCTAAAGGTCATGGTCTATAGTGGCGATTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
* *
14835368 AAAAGCGCCGCTAAAGGTAATGGTCTAAAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
14835411 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
* *
14835454 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
** *
14835497 AAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
14835535 ATTTCTAAAA
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 155 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
Found at i:14836127 original size:19 final size:19
Alignment explanation
Indices: 14836103--14836150 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
14836093 ATAAAATATC
*
14836103 ATAAAAATATTTAAAATTT
1 ATAAAAATAATTAAAATTT
* *
14836122 ATAAAAAAAATTATAATTT
1 ATAAAAATAATTAAAATTT
14836141 ATAAAAATAA
1 ATAAAAATAA
14836151 AAAATATTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAATAATTAAAATTT
Found at i:14837748 original size:21 final size:22
Alignment explanation
Indices: 14837718--14837806 Score: 73
Period size: 22 Copynumber: 4.3 Consensus size: 22
14837708 TTAAAACTAT
14837718 ATAATATTTTTTAATAAATTTT-
1 ATAAT-TTTTTTAATAAATTTTA
* *
14837740 ATACTTTTTTAAATAAATTTTA
1 ATAATTTTTTTAATAAATTTTA
* **
14837762 ATAATTTTTATAATTTATTTT-
1 ATAATTTTTTTAATAAATTTTA
14837783 A-AA--TTTTTAA-AAATTTTA
1 ATAATTTTTTTAATAAATTTTA
*
14837801 AAAATT
1 ATAATT
14837807 AATTTGTTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
17 5 0.10
18 7 0.13
19 2 0.04
20 2 0.04
21 16 0.31
22 20 0.38
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (22 bp):
ATAATTTTTTTAATAAATTTTA
Found at i:14839410 original size:3 final size:3
Alignment explanation
Indices: 14839402--14839427 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14839392 CCTTTGGGTT
14839402 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
14839428 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14845160 original size:69 final size:69
Alignment explanation
Indices: 14844902--14845161 Score: 233
Period size: 69 Copynumber: 3.8 Consensus size: 69
14844892 ATGATCCCGA
* * * * * *
14844902 CTGATATTGTAAAGGCTCACTAATTTAATATCACAGCTTCCAAAATAGCTCG-TAGACCTATGCT
1 CTGATATTGTAAAGGCTCGCTGATTTAAGATCACAGCCTCTAAAATAGCTCGCT-GACCTACGCT
14844966 -CTCAG
65 CCT-AG
* ** * * * * * *
14844971 CT-AGTATTGTAAAGGCTCGTTGATTTAAGATTGCAACCT-TCGAAACAGCTCACGGACCTACAC
1 CTGA-TATTGTAAAGGCTCGCTGATTTAAGATCACAGCCTCT-AAAATAGCTCGCTGACCTACGC
14845034 TTCC-AG
64 -TCCTAG
* * ** *
14845040 TTGATATTGTAAAGGCTCGCGGATGCAAGATCATAGCCTCTAAAATAGCTCGCTGACCTACGCTC
1 CTGATATTGTAAAGGCTCGCTGATTTAAGATCACAGCCTCTAAAATAGCTCGCTGACCTACGCTC
14845105 CTAG
66 CTAG
* * *
14845109 CTGATATTGTAAAGGCTTGCTGATTTAAGATCGCAGCCTCTGAAATAGCTCGC
1 CTGATATTGTAAAGGCTCGCTGATTTAAGATCACAGCCTCTAAAATAGCTCGC
14845162 AGACTCTGAA
Statistics
Matches: 146, Mismatches: 37, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
68 4 0.03
69 138 0.95
70 3 0.02
71 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (69 bp):
CTGATATTGTAAAGGCTCGCTGATTTAAGATCACAGCCTCTAAAATAGCTCGCTGACCTACGCTC
CTAG
Found at i:14845163 original size:19 final size:19
Alignment explanation
Indices: 14845139--14845184 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
14845129 TGATTTAAGA
*
14845139 TCGCAGCCTCTGAAATAGC
1 TCGCAGACTCTGAAATAGC
14845158 TCGCAGACTCTGAAATAGC
1 TCGCAGACTCTGAAATAGC
14845177 TCGCAGAC
1 TCGCAGAC
14845185 CTACGTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (19 bp):
TCGCAGACTCTGAAATAGC
Found at i:14845279 original size:37 final size:37
Alignment explanation
Indices: 14845210--14845310 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
14845200 ATGATTAAAG
* * *
14845210 GTTAGCTGAGTTG-AGCTCACAACCTCCAATTATTTGG
1 GTTAGCTGA-TTGAAGATCGCAACCTCCAATTATTTGA
* * *
14845247 GTTCGTTGATTTAAGATCGCAACCTCCAATTATTTGA
1 GTTAGCTGATTGAAGATCGCAACCTCCAATTATTTGA
14845284 GTTAGCTGATTGAAGATCGCAA-CTCCA
1 GTTAGCTGATTGAAGATCGCAACCTCCA
14845311 CACAGCTCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
36 7 0.13
37 47 0.87
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (37 bp):
GTTAGCTGATTGAAGATCGCAACCTCCAATTATTTGA
Found at i:14845651 original size:3 final size:3
Alignment explanation
Indices: 14845643--14845671 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14845633 TAAAGAGGGG
14845643 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
14845672 ATATATATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:14847130 original size:48 final size:49
Alignment explanation
Indices: 14847090--14847323 Score: 312
Period size: 48 Copynumber: 4.8 Consensus size: 49
14847080 CATTGATTTG
* * *
14847090 TACAAAAATGGATAGCATTTAAGCACCAATTTGGATAGCATTAATATAC
1 TACAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATGC
* * *
14847139 TA-AAAAATGGACAGCAATTAAGAATCAATTTGGACAGCATTAATATGC
1 TACAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATGC
* * * ** *
14847187 TAAAAAAATAGACATCATTTAAGCATTAATTTGAACAGCATTAATATGC
1 TACAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATGC
*
14847236 T-CAAAAATGGACAGCATTTAAGCACTAATTTGGACAGCATTAATATGC
1 TACAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATGC
* *
14847284 T-CAAAAATGGACAACAATTAAGCACCAATTTGGACAGCAT
1 TACAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCAT
14847324 CTTATCATCA
Statistics
Matches: 164, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
48 121 0.74
49 43 0.26
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (49 bp):
TACAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATGC
Found at i:14847209 original size:97 final size:96
Alignment explanation
Indices: 14847105--14847323 Score: 305
Period size: 97 Copynumber: 2.3 Consensus size: 96
14847095 AAATGGATAG
*
14847105 CATTTAAGCACCAATTTGGATAGCATTAATATACTAAAAAATGGACAGCAATTAAGAA-TCAATT
1 CATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAGCAATTAAGAACT-AATT
*
14847169 TGGACAGCATTAATATGCTAAAAAAATAGACAT
65 TGGACAGCATTAATATGCT-AAAAAATAGACAA
** * * * * *
14847202 CATTTAAGCATTAATTTGAACAGCATTAATATGCTCAAAAATGGACAGCATTTAAGCACTAATTT
1 CATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAGCAATTAAGAACTAATTT
* *
14847267 GGACAGCATTAATATGCTCAAAAATGGACAA
66 GGACAGCATTAATATGCTAAAAAATAGACAA
*
14847298 CAATTAAGCACCAATTTGGACAGCAT
1 CATTTAAGCACCAATTTGGACAGCAT
14847324 CTTATCATCA
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
96 32 0.30
97 73 0.69
98 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (96 bp):
CATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAGCAATTAAGAACTAATTT
GGACAGCATTAATATGCTAAAAAATAGACAA
Found at i:14847249 original size:25 final size:25
Alignment explanation
Indices: 14847221--14847296 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
14847211 ATTAATTTGA
14847221 ACAGCATTAATATGCTCAAAAATGG
1 ACAGCATTAATATGCTCAAAAATGG
* * * **
14847246 ACAGCATT--TAAGCACTAATTTGG
1 ACAGCATTAATATGCTCAAAAATGG
14847269 ACAGCATTAATATGCTCAAAAATGG
1 ACAGCATTAATATGCTCAAAAATGG
14847294 ACA
1 ACA
14847297 ACAATTAAGC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 18 0.46
25 21 0.54
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (25 bp):
ACAGCATTAATATGCTCAAAAATGG
Found at i:14847273 original size:23 final size:23
Alignment explanation
Indices: 14847197--14847323 Score: 74
Period size: 23 Copynumber: 5.3 Consensus size: 23
14847187 TAAAAAAATA
* **
14847197 GACATCATTTAAGCATTAATTTG
1 GACAGCATTTAAGCACAAATTTG
* * * **
14847220 AACAGCATTAATATGCTCAAAAATG
1 GACAGCATT--TAAGCACAAATTTG
*
14847245 GACAGCATTTAAGCACTAATTTG
1 GACAGCATTTAAGCACAAATTTG
* * **
14847268 GACAGCATTAATATGCTCAAAAATG
1 GACAGCATT--TAAGCACAAATTTG
* * *
14847293 GACAACAATTAAGCACCAATTTG
1 GACAGCATTTAAGCACAAATTTG
14847316 GACAGCAT
1 GACAGCAT
14847324 CTTATCATCA
Statistics
Matches: 72, Mismatches: 28, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
23 40 0.56
25 32 0.44
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (23 bp):
GACAGCATTTAAGCACAAATTTG
Found at i:14847972 original size:42 final size:43
Alignment explanation
Indices: 14847873--14847984 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
14847863 CAATTCCATA
** * ** *
14847873 TCCCAGATATGGTCTTACATGTTATAATATATTGATGCCACTG
1 TCCCAGATATGGTCTTACATGAAATCATATATCAATGCCAATG
*
14847916 TCCCAGATAGGGTCTTACATGAAATCATATA-CAATGCCAATG
1 TCCCAGATATGGTCTTACATGAAATCATATATCAATGCCAATG
* *
14847958 TCCCAGACATGGTCTTACACGAAATCA
1 TCCCAGATATGGTCTTACATGAAATCA
14847985 CACCTCAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
42 32 0.54
43 27 0.46
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACATGAAATCATATATCAATGCCAATG
Found at i:14850767 original size:2 final size:2
Alignment explanation
Indices: 14850760--14850786 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14850750 TTTTGACTTT
14850760 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14850787 TATCTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14851255 original size:33 final size:34
Alignment explanation
Indices: 14851218--14851281 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
14851208 CCTTTTCCCC
14851218 TATTTT-TAATAATATTTATTA-TCTTTCACTTTT
1 TATTTTGTAATAATATTTATTACT-TTTCACTTTT
*
14851251 TATTTTGTAATAATTTTTATTACTTTTCACT
1 TATTTTGTAATAATATTTATTACTTTTCACT
14851282 CACATAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 21 0.75
35 1 0.04
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (34 bp):
TATTTTGTAATAATATTTATTACTTTTCACTTTT
Found at i:14852839 original size:3 final size:3
Alignment explanation
Indices: 14852831--14852857 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14852821 CAAACAGTTG
14852831 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
14852858 ATGGAGATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14854977 original size:2 final size:2
Alignment explanation
Indices: 14854970--14854994 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14854960 AAAAGAAATA
14854970 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14854995 GAAAGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14855378 original size:3 final size:3
Alignment explanation
Indices: 14855372--14855431 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
14855362 TACAAAGCGG
* * *
14855372 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA -AA T-T TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
14855418 TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
14855432 GTAACAAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:14861705 original size:19 final size:19
Alignment explanation
Indices: 14861681--14861770 Score: 162
Period size: 19 Copynumber: 4.7 Consensus size: 19
14861671 TCATATCTTT
14861681 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
14861700 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
14861719 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
14861738 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
14861757 TAAGATTGCATATC
1 TAAGATTGCATATC
14861771 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:14861730 original size:38 final size:38
Alignment explanation
Indices: 14861656--14861770 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
14861646 AAATTAAATC
*
14861656 TCTAAGATTACAAAATCATATCTTTTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATATC---TAAGATTGCATATCATA
14861698 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
14861736 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
14861771 CTTGAAGATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 52 0.72
41 9 0.12
42 11 0.15
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:14880686 original size:18 final size:18
Alignment explanation
Indices: 14880663--14880704 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
14880653 GAGGACCGAC
14880663 AAGGAAGAAAATGC-GGCT
1 AAGGAAGAAAATGCAGG-T
14880681 AAGGAAGAAAATGCAGGT
1 AAGGAAGAAAATGCAGGT
14880699 AAGGAA
1 AAGGAA
14880705 CAAGATGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (18 bp):
AAGGAAGAAAATGCAGGT
Found at i:14887919 original size:38 final size:39
Alignment explanation
Indices: 14887872--14887949 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
14887862 ACTATTGTAT
* *
14887872 TGGGTTCCATTTTGGTAAAGTAGTTGC-TCTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTTCTTTTTTCCC
* *
14887910 TGGGATCCATTTTTGTAAAGTAATTGCTTTTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTTCTTTTTTCCC
14887949 T
1 T
14887950 TTCCTCAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 24 0.69
39 11 0.31
ACGTcount: A:0.15, C:0.17, G:0.18, T:0.50
Consensus pattern (39 bp):
TGGGATCCATTTTGGTAAAGTAATTGCTTCTTTTTTCCC
Found at i:14889071 original size:17 final size:18
Alignment explanation
Indices: 14889046--14889091 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14889036 TATAAGAATA
*
14889046 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
14889063 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
14889081 ATTAAATTATA
1 ATTAAATTATA
14889092 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:14889087 original size:55 final size:54
Alignment explanation
Indices: 14889022--14889127 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 54
14889012 TATATTATGA
* *
14889022 TTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAATTATATAT
1 TTTTAGTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAATTATATAT
* * *
14889077 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTAT
1 TTTTAGTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAATTAT
14889128 TAATTATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 3 0.07
55 25 0.57
56 16 0.36
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (54 bp):
TTTTAGTAAATTATATTAAGAATAATTATATTAAAATATGATTAAATTATATAT
Found at i:14889346 original size:16 final size:16
Alignment explanation
Indices: 14889325--14889360 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14889315 TTGAATTACT
* *
14889325 ATTATAGTTCTATTTC
1 ATTATAGCTCTATTCC
14889341 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
14889357 ATTA
1 ATTA
14889361 GAGCGAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:14890081 original size:23 final size:23
Alignment explanation
Indices: 14890036--14890080 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
14890026 CAACGGAAAA
*
14890036 AATTTAACTACAATTAATATTTT
1 AATTTAACTACAAATAATATTTT
*
14890059 AATTTAACTA-AAATAATTTTTT
1 AATTTAACTACAAATAATATTTT
14890081 TTTACTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTAACTACAAATAATATTTT
Found at i:14895797 original size:21 final size:21
Alignment explanation
Indices: 14895768--14895824 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
14895758 TATACATATT
*
14895768 AAAAA-ATATA-AAAATTTCAG
1 AAAAATATATATAAAATCT-AG
14895788 AAAAATATATATAAAATCTAG
1 AAAAATATATATAAAATCTAG
*
14895809 AAAAATAAAATATAAA
1 AAAAAT-ATATATAAA
14895825 TTTTGAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.16
21 13 0.41
22 14 0.44
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAATATATATAAAATCTAG
Found at i:14895983 original size:27 final size:26
Alignment explanation
Indices: 14895939--14896004 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
14895929 AAAAACTATA
*
14895939 AAAAAATTGT-AAAAAAAATATTTTT
1 AAAAAATTCTAAAAAAAAATATTTTT
*
14895964 AAAAAATTTTAAAAATAAAATATTTTT
1 AAAAAATTCTAAAAA-AAAATATTTTT
*
14895991 ATAAAATTCTAAAA
1 AAAAAATTCTAAAA
14896005 CATACAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 9 0.25
26 4 0.11
27 23 0.64
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
AAAAAATTCTAAAAAAAAATATTTTT
Found at i:14896115 original size:21 final size:18
Alignment explanation
Indices: 14896067--14896128 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 18
14896057 AAATACCTAC
14896067 TTTAATTTTTATAACATT
1 TTTAATTTTTATAACATT
**
14896085 TTTCAATTTTCATATATTATT
1 TTT-AATTTT--TATAACATT
14896106 TTTAATTTTTA-AA-ATT
1 TTTAATTTTTATAACATT
*
14896122 TATAATT
1 TTTAATT
14896129 ATATATGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 9 0.24
17 1 0.03
18 5 0.14
19 6 0.16
20 6 0.16
21 10 0.27
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTTATAACATT
Found at i:14899371 original size:83 final size:81
Alignment explanation
Indices: 14899232--14899392 Score: 277
Period size: 83 Copynumber: 2.0 Consensus size: 81
14899222 AAATCTAATA
*
14899232 TGAAGTTGTTAGAGAGAGTTTCCCTCTTGTTTTCGAGGGGAGCCTATTCACTGAAACCCTATTAG
1 TGAAGTTGTTAGAGAGAGTTTCCCTCTTGTTTTCGAGGGGAGCCTATTCACCGAAACCCTATTAG
14899297 GGCCACAATAGCAATT
66 GGCCACAATAGCAATT
* *
14899313 TGAAGTTGTTTGAGAGAAGGTTTCTCTCTTGTTTTCGAGGGGAGCCTATTCACCGAAACCCTATT
1 TGAAGTTGTTAGAGAG-A-GTTTCCCTCTTGTTTTCGAGGGGAGCCTATTCACCGAAACCCTATT
14899378 AGGGCCACAATAGCA
64 AGGGCCACAATAGCA
14899393 TTTTTTGCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
81 15 0.20
82 1 0.01
83 59 0.79
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (81 bp):
TGAAGTTGTTAGAGAGAGTTTCCCTCTTGTTTTCGAGGGGAGCCTATTCACCGAAACCCTATTAG
GGCCACAATAGCAATT
Found at i:14899656 original size:27 final size:25
Alignment explanation
Indices: 14899608--14899658 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
14899598 ATTATATATT
*
14899608 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATATTTAATC
14899633 AAATATATATTTTATATATATTTAAT
1 AAATATATATTTT-T-TATATTTAAT
14899659 ATGGGCCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.57
26 1 0.04
27 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATATATATTTTTTATATTTAATC
Found at i:14900760 original size:17 final size:15
Alignment explanation
Indices: 14900713--14900768 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
14900703 AAACTTTTTT
14900713 CCCAAATTTTAAAATC
1 CCCAAATTTT-AAATC
*
14900729 CCCAACTTGTTAAATTC
1 CCCAAATT-TTAAA-TC
*
14900746 CCCAAATTATGAAATC
1 CCCAAATT-TTAAATC
14900762 CCCAAAT
1 CCCAAAT
14900769 CCATAACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.29
Consensus pattern (15 bp):
CCCAAATTTTAAATC
Found at i:14900836 original size:16 final size:16
Alignment explanation
Indices: 14900793--14900837 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
14900783 TTTTTTGTTG
14900793 AATCCTTAAAATCTTGA
1 AATCCTT-AAATCTTGA
**
14900810 AATCCCCAAATCTTGA
1 AATCCTTAAATCTTGA
14900826 AATCCTTAAATC
1 AATCCTTAAATC
14900838 GTTAGCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (16 bp):
AATCCTTAAATCTTGA
Found at i:14906054 original size:17 final size:16
Alignment explanation
Indices: 14906025--14906070 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14906015 GGATGTTATG
*
14906025 GATTTGGGGATTTCAC
1 GATTTGGGAATTTCAC
*
14906041 GATTTGGAGAATTTGAC
1 GATTTGG-GAATTTCAC
*
14906058 GAGTTGGGAATTT
1 GATTTGGGAATTT
14906071 TAGAATTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.24, C:0.07, G:0.33, T:0.37
Consensus pattern (16 bp):
GATTTGGGAATTTCAC
Found at i:14908385 original size:14 final size:16
Alignment explanation
Indices: 14908362--14908395 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
14908352 CATTACTTTC
14908362 AAAAGCAAAAAAAGA-
1 AAAAGCAAAAAAAGAG
14908377 AAAAG-AAAAAAAGAG
1 AAAAGCAAAAAAAGAG
14908392 AAAA
1 AAAA
14908396 AAAGAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGCAAAAAAAGAG
Found at i:14908393 original size:16 final size:15
Alignment explanation
Indices: 14908362--14908396 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14908352 CATTACTTTC
*
14908362 AAAAGCAAAAAAAGA
1 AAAAGAAAAAAAAGA
14908377 AAAAGAAAAAAAGAGA
1 AAAAGAAAAAAA-AGA
14908393 AAAA
1 AAAA
14908397 AAGAAGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAGA
Found at i:14911735 original size:22 final size:21
Alignment explanation
Indices: 14911704--14911754 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
14911694 AAGGTTAGGG
* *
14911704 TTAGAGTTTTTTAATTAAAAA
1 TTAGGGTTTTTTTATTAAAAA
*
14911725 TTAGGGTTTTTTTGTTAAAAA
1 TTAGGGTTTTTTTATTAAAAA
14911746 TTAGGGTTT
1 TTAGGGTTT
14911755 AGGGTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (21 bp):
TTAGGGTTTTTTTATTAAAAA
Found at i:14920216 original size:21 final size:20
Alignment explanation
Indices: 14920192--14920230 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14920182 AATAGTAAAT
*
14920192 TTTTATATTTTCTTTTTTCAA
1 TTTTATAATTT-TTTTTTCAA
14920213 TTTTATAATTTTTTTTTC
1 TTTTATAATTTTTTTTTC
14920231 TATTCTTAAA
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:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATAATTTTTTTTTCAA
Found at i:14920246 original size:20 final size:20
Alignment explanation
Indices: 14920204--14920246 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14920194 TTATATTTTC
*
14920204 TTTTTTCAATTTTATAATTT
1 TTTTTTCAATTTTATAATAT
*
14920224 TTTTTTCTATTCTTA-AATAT
1 TTTTTTCAATT-TTATAATAT
14920244 TTT
1 TTT
14920247 GTAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTCAATTTTATAATAT
Found at i:14923770 original size:20 final size:19
Alignment explanation
Indices: 14923726--14923776 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
14923716 TTCATGATTG
14923726 TTGTT-TTAAATTGATTCA
1 TTGTTGTTAAATTGATTCA
* *
14923744 TTATTGTTAGAATTGATTCT
1 TTGTTGTTA-AATTGATTCA
*
14923764 TTGTTGTTTAATT
1 TTGTTGTTAAATT
14923777 CAAGCTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
20 16 0.59
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.59
Consensus pattern (19 bp):
TTGTTGTTAAATTGATTCA
Found at i:14925742 original size:18 final size:18
Alignment explanation
Indices: 14925710--14925757 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
14925700 ATTATAAAAT
* * *
14925710 AATAATAATATAATAATG
1 AATAATAAAAAAATAAAG
*
14925728 TATAATAAAAAAATAAAG
1 AATAATAAAAAAATAAAG
14925746 AATAAATAAAAA
1 AAT-AATAAAAA
14925758 GAAAGAAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (18 bp):
AATAATAAAAAAATAAAG
Found at i:14925762 original size:17 final size:16
Alignment explanation
Indices: 14925736--14925809 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 16
14925726 TGTATAATAA
*
14925736 AAAAATAAAGAATAAAT
1 AAAAAGAAAGAA-AAAT
*
14925753 AAAAAGAAAGAAAGAT
1 AAAAAGAAAGAAAAAT
* * *
14925769 AGAAACGAAACAAAAAG
1 A-AAAAGAAAGAAAAAT
*
14925786 AAAAAGAAAGAAAGAAA
1 AAAAAGAAAGAAA-AAT
14925803 AAAAAGA
1 AAAAAGA
14925810 GAAAGGAAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 14 0.30
17 32 0.70
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAT
Found at i:14926523 original size:24 final size:24
Alignment explanation
Indices: 14926496--14926542 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14926486 ATTGAAATGG
14926496 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
14926520 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
14926543 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:14926791 original size:37 final size:40
Alignment explanation
Indices: 14926701--14926839 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
14926691 GACTTTGAGT
* *
14926701 CGATGAGACACTTGGTGTCAATTTACTACTTCAGATTAATC
1 CGATGAGACACTGGGTGCCAATTTA-TACTTCAGATTAATC
* * *
14926742 CGATGAGGCACTGGGTGCCAA-TT-TACTTCGGTTTAA-C
1 CGATGAGACACTGGGTGCCAATTTATACTTCAGATTAATC
* *
14926779 CGATGAGACACTGGGTGCCAAATTATTACTT-TGAATT-ATC
1 CGATGAGACACTGGGTGCCAATTTA-TACTTCAG-ATTAATC
* *
14926819 CGATTAGGCACTGGGTGCCAA
1 CGATGAGACACTGGGTGCCAA
14926840 ACTGGTGTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
37 21 0.25
38 13 0.16
39 2 0.02
40 29 0.35
41 18 0.22
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAATTTATACTTCAGATTAATC
Found at i:14930150 original size:44 final size:43
Alignment explanation
Indices: 14930054--14930333 Score: 151
Period size: 44 Copynumber: 6.5 Consensus size: 43
14930044 CACTCCTCCT
* * * *
14930054 CAACTTTAGGGAGATAGGA-TTTGTTCATTCAGTCTGCCCCACTG
1 CAACTTCAGGGAGATAAGACTTTCTT-A-TCAGTCTGCTCCACTG
* *
14930098 CAATTTCAGGGGGATAAGACTTTCTTACTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTTCTTA-TCAGTCTGCTCCACTG
* ** * *
14930142 CAACTTCAGGGAGATAGGAC---CAGATGCAATCTGCT-CTCTG
1 CAACTTCAGGGAGATAAGACTTTCTTAT-CAGTCTGCTCCACTG
* * * **** * * * **
14930182 TAATTTCAGAGAGATAAGATCCAAGGTT-TTAATCCGCTCGTCTG
1 CAACTTCAGGGAGATAAGA--CTTTCTTATCAGTCTGCTCCACTG
* * *
14930226 CAACTTCAGGGAGATAGGA-TTTGTTCATTCAGTCTGCCCCACTG
1 CAACTTCAGGGAGATAAGACTTTCTT-A-TCAGTCTGCTCCACTG
* * * *
14930270 CAATTTTAGGGGGATGAGACTTTCTTACTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTTCTTA-TCAGTCTGCTCCACTG
*
14930314 GAACTTCAGGGAGATAAGAC
1 CAACTTCAGGGAGATAAGAC
14930334 CAGATGCGAT
Statistics
Matches: 174, Mismatches: 50, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
40 20 0.11
41 13 0.07
42 1 0.01
43 7 0.04
44 123 0.71
45 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
CAACTTCAGGGAGATAAGACTTTCTTATCAGTCTGCTCCACTG
Found at i:14930227 original size:84 final size:84
Alignment explanation
Indices: 14930130--14930416 Score: 263
Period size: 84 Copynumber: 3.4 Consensus size: 84
14930120 TCTTACTCAG
* *
14930130 TCTGCTCCACTGCAACTTCAGGGAGATAGGACCAGATGCAATCTGCTCTCTGTAATTTCAGAGAG
1 TCTGCTCCTCTGCAACTTCAGGGAGATAGGACCAGATGCAATCTGCTCTCTGCAATTTCAGAGAG
14930195 ATAAGATCCAAGGTTTTAA
66 ATAAGATCCAAGGTTTTAA
* * *** * * * * *
14930214 TCCGCTCGTCTGCAACTTCAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTTAG
1 TCTGCTCCTCTGCAACTTCAGGGAGATAGGACCAG---ATGCAATCTG-CTCTCTGCAATTTCAG
* * * **** * *
14930279 GGGGATGAGA--CTTTCTTACTCAG
62 AGAGATAAGATCCAAGGTT--TTAA
* * * * *
14930302 TCTGCTCCACTGGAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCTCTGCAACTTCAGGGAGATAGGACCAGATGCAATCTGCTCTCTGCAATTTCAGAGAG
14930367 ATAAGATCCAAGGTTTTAA
66 ATAAGATCCAAGGTTTTAA
*
14930386 TCTGCTCCTTTGCAACTTCAGGGAGATAGGA
1 TCTGCTCCTCTGCAACTTCAGGGAGATAGGA
14930417 TTATCGGCTT
Statistics
Matches: 146, Mismatches: 49, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
84 77 0.53
85 7 0.05
86 6 0.04
87 8 0.05
88 48 0.33
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (84 bp):
TCTGCTCCTCTGCAACTTCAGGGAGATAGGACCAGATGCAATCTGCTCTCTGCAATTTCAGAGAG
ATAAGATCCAAGGTTTTAA
Found at i:14930404 original size:44 final size:44
Alignment explanation
Indices: 14930302--14930461 Score: 159
Period size: 44 Copynumber: 3.7 Consensus size: 44
14930292 TCTTACTCAG
* * * * * *
14930302 TCTGCTCCACTGGAACTTCAGGGAGATAAGACCAGATGC---GA
1 TCTGCTCCTCTGCAACTTCAGGGAGATAAGATCATAGGCTTTAA
* *
14930343 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAA
1 TCTGCTCCTCTGCAACTTCAGGGAGATAAGAT-CATAGGCTTTAA
* * * *
14930386 TCTGCTCCTTTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCTCTGCAACTTCAGGGAGATAAGATCATAGGCTTTAA
*
14930430 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TCTGCTCCTCTGCAACTTCAGGGAGATAAGAT
14930462 TTGCCATCTT
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
40 23 0.24
41 8 0.08
43 8 0.08
44 58 0.60
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTGCTCCTCTGCAACTTCAGGGAGATAAGATCATAGGCTTTAA
Found at i:14930444 original size:172 final size:172
Alignment explanation
Indices: 14929996--14930418 Score: 659
Period size: 172 Copynumber: 2.5 Consensus size: 172
14929986 AGATGAATGT
* * *** * *
14929996 GATCTGCTCTGCTGCAACTTCAGAGAGATAATATCGATCATTCTAATCCACTCCTCCT-CAACTT
1 GATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCT-CTGCAACTT
*
14930060 TAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTCTTA
64 CAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTCTTA
*
14930125 CTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGACCAGATGC
129 CTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGC
* * * *
14930169 AATCTGCTCTCTGTAATTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCGTCTGCAACTTCA
1 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCA
* *
14930234 GGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTTAGGGGGATGAGACTTTCTTACT
66 GGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTCTTACT
*
14930299 CAGTCTGCTCCACTGGAACTTCAGGGAGATAAGACCAGATGC
131 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGC
* *
14930341 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCTTTGCAACTTCA
1 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCA
14930406 GGGAGATAGGATT
66 GGGAGATAGGATT
14930419 ATCGGCTTTA
Statistics
Matches: 227, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
171 2 0.01
172 216 0.95
173 9 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (172 bp):
GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCA
GGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTCTTACT
CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGC
Found at i:14931483 original size:14 final size:14
Alignment explanation
Indices: 14931464--14931492 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14931454 TCTGAGCTTG
14931464 AACTTCCCTGTACA
1 AACTTCCCTGTACA
14931478 AACTTCCCTGTACA
1 AACTTCCCTGTACA
14931492 A
1 A
14931493 TCTTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.07, T:0.28
Consensus pattern (14 bp):
AACTTCCCTGTACA
Found at i:14939455 original size:44 final size:45
Alignment explanation
Indices: 14939348--14939455 Score: 123
Period size: 44 Copynumber: 2.4 Consensus size: 45
14939338 CACTCCTCCT
* * *
14939348 CAACTTTAGGGAGATAGGA-TTTGTTCATTCAGTCTGCCCCACTG
1 CAACTTTAGGGAGATAAGACTTTCTTCACTCAGTCTGCCCCACTG
* * *
14939392 CAA-TTTCAGGGGGATAAGACTTTCTT-ACTCAGTCTGCTCCATTG
1 CAACTTT-AGGGAGATAAGACTTTCTTCACTCAGTCTGCCCCACTG
*
14939436 CAACTTTAGGGAGAGAAGAC
1 CAACTTTAGGGAGATAAGAC
14939456 CAGATGCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.06
44 42 0.79
45 8 0.15
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (45 bp):
CAACTTTAGGGAGATAAGACTTTCTTCACTCAGTCTGCCCCACTG
Found at i:14939534 original size:44 final size:43
Alignment explanation
Indices: 14939424--14939755 Score: 148
Period size: 44 Copynumber: 7.7 Consensus size: 43
14939414 TCTTACTCAG
* * * * *
14939424 TCTGCTCCATTGCAACTTTAGGGAGAGAAGACCAGATG---CAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCA-ATGTTTTAA
* *
14939465 TCTGCTCC-CTGTAACTTCAGAGAGATAAGATCCAATGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-CAATGTTTTAA
* * * * *
14939508 TCCGCTCCTCTGCAACTTCAGGGAGATAGGAT--TTGTTCATTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAATGTT--TT-AA
* ** * * ** * * *
14939552 TCTGCCCCACTATAATTTCAGGGGGATAAGA-CTTTCTTACTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAATGTT--TTAA
* * * **
14939596 TCTTCTCCACTGCAACTTCAGGGAGACAAGACCAGATG---CGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCA-ATGTTTTAA
* * * * *
14939637 TCTGCT-CTCTGCAACTTCAGAGAGATAGGATCCAAAGTTTTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-CAATGTTTTAA
* * * * *
14939680 TCCGCTCCTCTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAT--GTTTTAA
14939724 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
14939756 TTGCCATCTT
Statistics
Matches: 218, Mismatches: 54, Indels: 35
0.71 0.18 0.11
Matches are distributed among these distances:
40 42 0.19
41 22 0.10
42 1 0.00
43 18 0.08
44 128 0.59
45 6 0.03
46 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAATGTTTTAA
Found at i:14939550 original size:172 final size:172
Alignment explanation
Indices: 14939333--14939712 Score: 618
Period size: 172 Copynumber: 2.2 Consensus size: 172
14939323 CCGATCATTC
* * *
14939333 TAATCCACTCCTCCT-CAACTTTAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATT
1 TAATCCGCTCCT-CTGCAACTTCAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTACAATT
* * *
14939397 TCAGGGGGATAAGACTTTCTTACTCAGTCTGCTCCATTGCAACTTTAGGGAGAGAAGACCAGATG
65 TCAGGGGGATAAGACTTTCTTACTCAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACCAGATG
* *
14939462 CAATCTGCTCCCTGTAACTTCAGAGAGATAAGATCCAATGTTT
130 CAATCTGCTCCCTGCAACTTCAGAGAGATAAGATCCAAAGTTT
*
14939505 TAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTATAATTT
1 TAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTACAATTT
*
14939570 CAGGGGGATAAGACTTTCTTACTCAGTCTTCTCCACTGCAACTTCAGGGAGACAAGACCAGATGC
66 CAGGGGGATAAGACTTTCTTACTCAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACCAGATGC
* * *
14939635 GATCTGCTCTCTGCAACTTCAGAGAGATAGGATCCAAAGTTT
131 AATCTGCTCCCTGCAACTTCAGAGAGATAAGATCCAAAGTTT
*
14939677 TGATCCGCTCCTCTGCAACTTCAGGGAGATAGGATT
1 TAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATT
14939713 ATCGGCTTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
171 2 0.01
172 191 0.99
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (172 bp):
TAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTACAATTT
CAGGGGGATAAGACTTTCTTACTCAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACCAGATGC
AATCTGCTCCCTGCAACTTCAGAGAGATAAGATCCAAAGTTT
Found at i:14943613 original size:25 final size:25
Alignment explanation
Indices: 14943585--14943636 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
14943575 TGATTGACGC
14943585 AATTAAACAAGTACCTAGATATGCT
1 AATTAAACAAGTACCTAGATATGCT
*
14943610 AATTAAACAAGTATCTAGATATGCT
1 AATTAAACAAGTACCTAGATATGCT
14943635 AA
1 AA
14943637 GGTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (25 bp):
AATTAAACAAGTACCTAGATATGCT
Found at i:14948297 original size:10 final size:10
Alignment explanation
Indices: 14948282--14948311 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14948272 GAATTGTTTG
14948282 AAAAAGAAAA
1 AAAAAGAAAA
*
14948292 AAAAAGAAGA
1 AAAAAGAAAA
14948302 AAAAAGAAAA
1 AAAAAGAAAA
14948312 GAAGAAGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:14948311 original size:15 final size:14
Alignment explanation
Indices: 14948288--14948317 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14948278 TTTGAAAAAG
14948288 AAAAAAAAAGAAGA
1 AAAAAAAAAGAAGA
14948302 AAAAAGAAAAGAAGA
1 AAAAA-AAAAGAAGA
14948317 A
1 A
14948318 GAACAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAGA
Found at i:14964422 original size:3 final size:3
Alignment explanation
Indices: 14964414--14964466 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
14964404 TTTTAACCCG
14964414 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14964462 TAA TA
1 TAA TA
14964467 GTAAGGTCCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Done.