Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 245 of 259
Found at i:76869124 original size:15 final size:15
Alignment explanation
Indices: 76869095--76869152 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
76869085 TCATATATAT
76869095 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
*
76869111 TATAAATTCCATCAA
1 TATAAATTCAATCAA
* *
76869126 AATAATTTCAATCAA
1 TATAAATTCAATCAA
76869141 TATAAATTCAAT
1 TATAAATTCAAT
76869153 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:76870489 original size:8 final size:8
Alignment explanation
Indices: 76870476--76870504 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
76870466 TATCTTTATT
76870476 ATATAATA
1 ATATAATA
76870484 ATATAATA
1 ATATAATA
76870492 ATATAATA
1 ATATAATA
76870500 ATATA
1 ATATA
76870505 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:76871959 original size:22 final size:23
Alignment explanation
Indices: 76871934--76871995 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
76871924 CAACCAAATC
76871934 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
76871956 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
**
76871979 ACGTCATCACATATTTA
1 AATTCAT-ACATATTTA
76871996 AAACCAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.18
23 18 0.55
24 9 0.27
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:76873971 original size:35 final size:35
Alignment explanation
Indices: 76873932--76874014 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
76873922 ATTTCCATTG
76873932 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
1 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
76873967 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
1 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
76874002 ATTTCATTCTATT
1 ATTTCATTCTATT
76874015 CCTAATAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.48
Consensus pattern (35 bp):
ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
Found at i:76876158 original size:18 final size:18
Alignment explanation
Indices: 76876135--76876186 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
76876125 CGAGCTTGAA
76876135 AGCAAGATGTGTGAGCTC
1 AGCAAGATGTGTGAGCTC
*
76876153 AGCAAGATGTGCGAGCTC
1 AGCAAGATGTGTGAGCTC
* *
76876171 AGCAAAAGGTGTGAGC
1 AGCAAGATGTGTGAGC
76876187 CCTATAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.35, T:0.17
Consensus pattern (18 bp):
AGCAAGATGTGTGAGCTC
Found at i:76879055 original size:51 final size:51
Alignment explanation
Indices: 76878969--76879080 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
76878959 TGAGTACTTC
*
76878969 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
76879020 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
*
76879071 TGACAAGTGA
1 TGATAAGTGA
76879081 TAAATGTGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (51 bp):
TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
Found at i:76886773 original size:7 final size:7
Alignment explanation
Indices: 76886761--76886790 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
76886751 TACACTTATC
76886761 TGATAAG
1 TGATAAG
76886768 TGATAAG
1 TGATAAG
76886775 TGATAAG
1 TGATAAG
76886782 TGATAAG
1 TGATAAG
76886789 TG
1 TG
76886791 GTAGCTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:76886803 original size:51 final size:51
Alignment explanation
Indices: 76886717--76886831 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
76886707 TGAGTACTTC
* *
76886717 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
* * *
76886768 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
*
76886819 TGACAAGTGATAA
1 TGATAAGTGATAA
76886832 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
Found at i:76892488 original size:23 final size:21
Alignment explanation
Indices: 76892445--76892488 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
76892435 TCCATCAAAC
* *
76892445 AATAAAAAATATTTTTTACAT
1 AATAAAAAATAATTTTCACAT
76892466 AATAATAAATATAATTTTCACAT
1 AATAA-AAA-ATAATTTTCACAT
76892489 CTTTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAAAATAATTTTCACAT
Found at i:76903752 original size:8 final size:8
Alignment explanation
Indices: 76903739--76903789 Score: 61
Period size: 7 Copynumber: 6.2 Consensus size: 8
76903729 AGATATGGAC
76903739 TTCTTTTT
1 TTCTTTTT
76903747 TTCTTTCTT
1 TTCTTT-TT
76903756 TCTCTTTTCT
1 T-TCTTTT-T
76903766 TTCTTTTT
1 TTCTTTTT
76903774 TT-TTTTT
1 TTCTTTTT
76903781 TT-TTTTT
1 TTCTTTTT
76903788 TT
1 TT
76903790 TTGCCTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.35
8 9 0.22
9 10 0.25
10 7 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTCTTTTT
Found at i:76905927 original size:67 final size:67
Alignment explanation
Indices: 76905819--76905952 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
76905809 CAAATTTAGC
76905819 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
1 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
76905884 CT
66 CT
*
76905886 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACTGACATA
1 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
76905951 CT
66 CT
76905953 TTGCTCTAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (67 bp):
AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
CT
Found at i:76910921 original size:5 final size:5
Alignment explanation
Indices: 76910911--76910937 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
76910901 ATTATGGGCG
76910911 GTGGA GTGGA GTGGA GTGGA GTGGA GT
1 GTGGA GTGGA GTGGA GTGGA GTGGA GT
76910938 TAGTAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.59, T:0.22
Consensus pattern (5 bp):
GTGGA
Found at i:76919772 original size:16 final size:16
Alignment explanation
Indices: 76919751--76919790 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
76919741 AAAATTATTC
76919751 ATTTAT-ACATTTTATA
1 ATTTATAACATTTTA-A
76919767 ATTTATAACATTTTAA
1 ATTTATAACATTTTAA
*
76919783 ATTAATAA
1 ATTTATAA
76919791 TAGTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTATAACATTTTAA
Found at i:76923662 original size:13 final size:13
Alignment explanation
Indices: 76923646--76923698 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
76923636 TTTAAAAATT
76923646 TTAATTAAATTAA
1 TTAATTAAATTAA
*
76923659 TTAATT-AATCAA
1 TTAATTAAATTAA
*
76923671 TTAATATAAATAAA
1 TTAAT-TAAATTAA
*
76923685 TTGAATAAAATTAA
1 TT-AATTAAATTAA
76923699 AAATTAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 10 0.30
13 7 0.21
14 13 0.39
15 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:76925671 original size:14 final size:15
Alignment explanation
Indices: 76925646--76925674 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
76925636 ATCAAGAATT
76925646 AATATATAAATAAAA
1 AATATATAAATAAAA
76925661 AATAT-TAAATAAAA
1 AATATATAAATAAAA
76925675 TATAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATATAAATAAAA
Found at i:76928903 original size:15 final size:15
Alignment explanation
Indices: 76928864--76928905 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
76928854 AATAATAAAA
*
76928864 ATATAATAATAATTT
1 ATATAATTATAATTT
*
76928879 ATATATTTATAATTT
1 ATATAATTATAATTT
76928894 -TATAAATTATAA
1 ATAT-AATTATAA
76928906 ATAATCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATTATAATTT
Found at i:76929609 original size:11 final size:11
Alignment explanation
Indices: 76929595--76929664 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
76929585 CAATATTCGA
*
76929595 AAAATAACAAT
1 AAAATAACAAC
*
76929606 AAAATAAGAAC
1 AAAATAACAAC
* *
76929617 AATATAATAAC
1 AAAATAACAAC
** *
76929628 AAAATAGTAAT
1 AAAATAACAAC
*
76929639 AAAATAGCAAC
1 AAAATAACAAC
* *
76929650 AAAATTACAGC
1 AAAATAACAAC
76929661 AAAA
1 AAAA
76929665 CAGTTGATTC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:76935296 original size:36 final size:36
Alignment explanation
Indices: 76935248--76935320 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
76935238 TATATCAAGT
*
76935248 CTTACACGTATTGAATAGATTCATATGCCAACCAGA
1 CTTACACGTATTGAATACATTCATATGCCAACCAGA
* *
76935284 CTTACACTTATTGAATACATTCTTATGCCAACCAGA
1 CTTACACGTATTGAATACATTCATATGCCAACCAGA
76935320 C
1 C
76935321 ATCAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (36 bp):
CTTACACGTATTGAATACATTCATATGCCAACCAGA
Found at i:76937794 original size:18 final size:18
Alignment explanation
Indices: 76937771--76937820 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
76937761 TTATTGAAAA
*
76937771 TTATTTTATATTTTAAAT
1 TTATTTAATATTTTAAAT
* *
76937789 TTATTTAATTTTTTATAT
1 TTATTTAATATTTTAAAT
*
76937807 TTA-TAAATATTTTA
1 TTATTTAATATTTTA
76937821 TATGCTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTAATATTTTAAAT
Found at i:76937820 original size:25 final size:26
Alignment explanation
Indices: 76937769--76937820 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
76937759 TTTTATTGAA
*
76937769 AATTATTTTATATTTTAAATTTATTT
1 AATTATTTTATATTTTAAATATATTT
76937795 AATT-TTTTATATTTATAAATAT-TTT
1 AATTATTTTATATTT-TAAATATATTT
76937820 A
1 A
76937821 TATGCTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTATTTTATATTTTAAATATATTT
Found at i:76937821 original size:17 final size:18
Alignment explanation
Indices: 76937778--76937823 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
76937768 AAATTATTTT
* *
76937778 ATATTTTAAATTTATTTA
1 ATATTTTATATTTATTAA
*
76937796 ATTTTTTATATTTA-TAA
1 ATATTTTATATTTATTAA
76937813 ATATTTTATAT
1 ATATTTTATAT
76937824 GCTAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTATATTTATTAA
Found at i:76940822 original size:14 final size:14
Alignment explanation
Indices: 76940805--76940831 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76940795 TGTAAAATAT
76940805 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
76940819 TTTCTGGAAAATG
1 TTTCTGGAAAATG
76940832 TTTTACTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:76940849 original size:20 final size:20
Alignment explanation
Indices: 76940821--76940858 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76940811 GAAAATGATT
*
76940821 TCTGGAAAATGTTTTACTTC
1 TCTGGAAAATGATTTACTTC
*
76940841 TCTGTAAAATGATTTACT
1 TCTGGAAAATGATTTACT
76940859 GAAAAATATT
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:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (20 bp):
TCTGGAAAATGATTTACTTC
Found at i:76940973 original size:20 final size:20
Alignment explanation
Indices: 76940945--76941021 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
76940935 TCCGGAAAAG
76940945 TTATTTTTACATATATTAAA
1 TTATTTTTACATATATTAAA
* *
76940965 TTGTTTTTACATATATATTAA
1 TTATTTTTACATATAT-TAAA
* *
76940986 TAAATTTTT--ATATTTTAAA
1 T-TATTTTTACATATATTAAA
76941005 TTATTTTTACATATATT
1 TTATTTTTACATATATT
76941022 GCAATGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.13
19 4 0.09
20 26 0.58
21 4 0.09
22 5 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
TTATTTTTACATATATTAAA
Found at i:76941060 original size:18 final size:18
Alignment explanation
Indices: 76941037--76941072 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76941027 GATTTATTTA
76941037 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
76941055 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
76941073 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:76943345 original size:21 final size:22
Alignment explanation
Indices: 76943311--76943356 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
76943301 GAGGATGTGG
76943311 AAGAAGATTTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
76943333 AAGAAGA-TTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
76943354 AAG
1 AAG
76943357 GAGAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAAGATTTGCTTAGAAGAGA
Found at i:76943912 original size:10 final size:10
Alignment explanation
Indices: 76943897--76943930 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
76943887 CCACTTCAAC
76943897 GAATTATTTA
1 GAATTATTTA
76943907 GAATTA-TTA
1 GAATTATTTA
76943916 -AATTATTTA
1 GAATTATTTA
76943925 GAATTA
1 GAATTA
76943931 GAATCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 6 0.27
10 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
GAATTATTTA
Found at i:76948614 original size:46 final size:46
Alignment explanation
Indices: 76948562--76948835 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
76948552 AGTGTGCTCT
76948562 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
76948608 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
76948654 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
76948700 CTGATATGAAATATGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
76948746 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
76948792 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
76948836 TCATGTTAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:76949939 original size:10 final size:10
Alignment explanation
Indices: 76949924--76949950 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
76949914 ATAATCAATT
76949924 AATATTTGAA
1 AATATTTGAA
76949934 AATATTTGAA
1 AATATTTGAA
76949944 AATATTT
1 AATATTT
76949951 AATCTAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (10 bp):
AATATTTGAA
Found at i:76955559 original size:24 final size:24
Alignment explanation
Indices: 76955508--76955556 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
76955498 CTGTCTCTAT
76955508 AATTATAAAATATTAAAAAATTTA
1 AATTATAAAATATTAAAAAATTTA
76955532 AATTATAAAA-A-TAAAACAATTTA
1 AATTATAAAATATTAAAA-AATTTA
76955555 AA
1 AA
76955557 ATTTTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AATTATAAAATATTAAAAAATTTA
Found at i:76955604 original size:15 final size:14
Alignment explanation
Indices: 76955569--76955634 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
76955559 TTTTTATGAA
76955569 ATAAAAATTA-AATT
1 ATAAAAATTATAA-T
76955583 ATGAAAAATATATAAT
1 AT-AAAAAT-TATAAT
*
76955599 AT-AAAATTATAAA
1 ATAAAAATTATAAT
*
76955612 ATAAAAATACATAAT
1 ATAAAAAT-TATAAT
76955627 ATTAAAAA
1 A-TAAAAA
76955635 AATAAAGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 7 0.16
14 12 0.28
15 11 0.26
16 11 0.26
17 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAAAAATTATAAT
Found at i:76965838 original size:18 final size:16
Alignment explanation
Indices: 76965809--76965842 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
76965799 ATTAGTATTA
76965809 ATTTTTTTTAATTTTT
1 ATTTTTTTTAATTTTT
76965825 ATTTTTTATATAATTTTT
1 ATTTTTT-T-TAATTTTT
76965843 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTTAATTTTT
Found at i:76966046 original size:11 final size:11
Alignment explanation
Indices: 76966015--76966039 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
76966005 TGTTAAAAAG
76966015 TAACAAAATAA
1 TAACAAAATAA
76966026 TAACAAAATAA
1 TAACAAAATAA
76966037 TAA
1 TAA
76966040 TATAATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
TAACAAAATAA
Found at i:76972526 original size:17 final size:17
Alignment explanation
Indices: 76972506--76972544 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
76972496 AAATGGGATG
**
76972506 AAAATAATTTTTTAATT
1 AAAATAATTAATTAATT
*
76972523 AAAAAAATTAATTAATT
1 AAAATAATTAATTAATT
76972540 AAAAT
1 AAAAT
76972545 TTTTAAACCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATTAATTAATT
Found at i:76972964 original size:20 final size:20
Alignment explanation
Indices: 76972930--76972967 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
76972920 TGATCACTTC
76972930 GTAACAAAATAATAACATAA
1 GTAACAAAATAATAACATAA
76972950 GTAACTAAAAT-ATAACAT
1 GTAAC-AAAATAATAACAT
76972968 TTTAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
GTAACAAAATAATAACATAA
Found at i:76974035 original size:17 final size:18
Alignment explanation
Indices: 76973996--76974035 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
76973986 AAACGTATTT
76973996 TAAAATTTCAGATAAATA
1 TAAAATTTCAGATAAATA
76974014 T-AAATTT-A-ATCAAATA
1 TAAAATTTCAGAT-AAATA
76974030 TAAAAT
1 TAAAAT
76974036 ATATTAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.10
16 7 0.35
17 10 0.50
18 1 0.05
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTTCAGATAAATA
Found at i:76983550 original size:37 final size:37
Alignment explanation
Indices: 76983509--76983582 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
76983499 TAAGAAATGG
76983509 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
1 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
*
76983546 CAAGCTTAATAGGCTGTATTCAAAACTGATTAAACTC
1 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
76983583 AGCATATCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (37 bp):
CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
Found at i:76984216 original size:146 final size:146
Alignment explanation
Indices: 76983952--76984245 Score: 588
Period size: 146 Copynumber: 2.0 Consensus size: 146
76983942 AGTAGTAAAT
76983952 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
1 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
76984017 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
66 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
76984082 AAAAACGGATTCATTG
131 AAAAACGGATTCATTG
76984098 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
1 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
76984163 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
66 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
76984228 AAAAACGGATTCATTG
131 AAAAACGGATTCATTG
76984244 CA
1 CA
76984246 TCCAGCAACT
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (146 bp):
CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
AAAAACGGATTCATTG
Found at i:76988088 original size:5 final size:5
Alignment explanation
Indices: 76988078--76988123 Score: 83
Period size: 5 Copynumber: 9.0 Consensus size: 5
76988068 AATAATTAAG
76988078 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
76988124 ATAAAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:76989788 original size:39 final size:39
Alignment explanation
Indices: 76989681--76989815 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
76989671 GACCTCGAGT
* * *
76989681 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
76989722 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
76989760 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
76989799 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
76989816 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:76994318 original size:13 final size:13
Alignment explanation
Indices: 76994281--76994344 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
76994271 AGTTTTTCAT
76994281 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
76994294 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
76994307 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
76994320 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
76994333 TGCTTTGGAAAA
1 TGCTTTTGAAAA
76994345 ATTTAAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:76998693 original size:83 final size:82
Alignment explanation
Indices: 76998599--76998756 Score: 196
Period size: 83 Copynumber: 1.9 Consensus size: 82
76998589 TATCATAGTA
* * * *
76998599 AAAATATAATTTTATCATT-TTAATAGTTTATATTTTTATAAATT-TAAAAAAA-TTAAATAAAA
1 AAAATACAATTTTATCATTATTAAT--TTAAGA-TTTTATAAATTACAAAAAAACTTAAATAAAA
**
76998661 TTTTTATATTTTTAGAGAGTC
63 AATTT-TATTTTTAGAGAGTC
*
76998682 AAAATACAATTTTATCCTTATTAATTTAAGATTTTATAAATTACAAAAAAACTTAAATAAAAAAT
1 AAAATACAATTTTATCATTATTAATTTAAGATTTTATAAATTACAAAAAAACTTAAATAAAAAAT
76998747 TTTATTTTTA
66 TTTATTTTTA
76998757 AAAAATCCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
81 11 0.17
82 19 0.29
83 30 0.46
84 5 0.08
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (82 bp):
AAAATACAATTTTATCATTATTAATTTAAGATTTTATAAATTACAAAAAAACTTAAATAAAAAAT
TTTATTTTTAGAGAGTC
Found at i:77005549 original size:51 final size:51
Alignment explanation
Indices: 77005478--77005638 Score: 279
Period size: 51 Copynumber: 3.2 Consensus size: 51
77005468 CTGATCACAT
*
77005478 TTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
77005529 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
77005579 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
77005630 TTGTCACTT
1 TTATCACTT
77005639 ATCAAATGGT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 48 0.47
51 55 0.53
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:77010792 original size:51 final size:51
Alignment explanation
Indices: 77010718--77010928 Score: 343
Period size: 51 Copynumber: 4.2 Consensus size: 51
77010708 CTGATCACAT
* *
77010718 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
77010769 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
77010819 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
77010870 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
77010921 TTGTCACT
1 TTATCACT
77010929 GATCAGAAGT
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 48 0.32
51 103 0.68
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:77010820 original size:101 final size:102
Alignment explanation
Indices: 77010715--77010928 Score: 358
Period size: 101 Copynumber: 2.1 Consensus size: 102
77010705 ACACTGATCA
* * *
77010715 CATTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
77010780 CACTGATCAGATAAGTGTAGCT-AAGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
77010816 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
*
77010881 CACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
77010918 CACTTGTCACT
1 CATTTATCACT
77010929 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 83 0.79
102 22 0.21
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:77017746 original size:42 final size:42
Alignment explanation
Indices: 77017699--77017782 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
77017689 AGTCGTCCTT
77017699 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
1 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
77017741 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
1 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
77017783 TTCTTTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (42 bp):
AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
Found at i:77030030 original size:31 final size:30
Alignment explanation
Indices: 77029995--77030077 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
77029985 AATTTTTTAA
*
77029995 ATTTTTAAAAATTCAAAAAATTATAAATATT
1 ATTTTTAAAAATT-AAAAAATTATAAAAATT
* *
77030026 ATTTTTAAAGATT-AAAAATCATAAAAATT
1 ATTTTTAAAAATTAAAAAATTATAAAAATT
*
77030055 ATTTTTTAAAATTTAAAAAATTA
1 A-TTTTTAAAAATTAAAAAATTA
77030078 ATTAAATACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 15 0.34
30 10 0.23
31 19 0.43
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (30 bp):
ATTTTTAAAAATTAAAAAATTATAAAAATT
Found at i:77030049 original size:29 final size:28
Alignment explanation
Indices: 77029995--77030073 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 28
77029985 AATTTTTTAA
* *
77029995 ATTTTTAAAAATTCAAAAAATTATAAATATT
1 ATTTTT-AAAATT--AAAAATCATAAAAATT
77030026 ATTTTTAAAGATTAAAAATCATAAAAATT
1 ATTTTTAAA-ATTAAAAATCATAAAAATT
77030055 ATTTTTTAAAATTTAAAAA
1 A-TTTTTAAAA-TTAAAAA
77030074 ATTAATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 16 0.37
30 18 0.42
31 9 0.21
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
ATTTTTAAAATTAAAAATCATAAAAATT
Found at i:77031638 original size:29 final size:29
Alignment explanation
Indices: 77031605--77031722 Score: 80
Period size: 29 Copynumber: 3.9 Consensus size: 29
77031595 TGATATAAAC
*
77031605 TTATAAAAATTATAAAAAAATTATAAGTA
1 TTATAAAAATTATAAAAAAATTATAAATA
* * *
77031634 TTATAAAAA-TCTAATAAAA-TATAAAATTT
1 TTATAAAAATTATAAAAAAATTAT-AAA-TA
** *
77031663 TTATAAAAATGTACTAAAATTA-TATAAAAAA
1 TTATAAAAAT-TA-TAAAAAAATTAT-AAATA
*
77031694 TCATAAAAATTATAAAAAAAGGTTATAAA
1 TTATAAAAATTATAAAAAAA--TTATAAA
77031723 ATTGTTAAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
27 3 0.04
28 10 0.15
29 25 0.37
30 2 0.03
31 13 0.19
32 15 0.22
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
TTATAAAAATTATAAAAAAATTATAAATA
Found at i:77032321 original size:18 final size:18
Alignment explanation
Indices: 77032293--77032336 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
77032283 GTTTGAATAA
77032293 TTTTATAATTTATTAGAA-T
1 TTTTAT-ATTT-TTAGAAGT
*
77032312 TTTTATATTTTTATAAGT
1 TTTTATATTTTTAGAAGT
77032330 TTTTATA
1 TTTTATA
77032337 AGTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 12 0.52
19 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTAGAAGT
Found at i:77032332 original size:10 final size:9
Alignment explanation
Indices: 77032289--77032361 Score: 62
Period size: 10 Copynumber: 8.1 Consensus size: 9
77032279 ATAAGTTTGA
77032289 ATAA-TTTT
1 ATAATTTTT
77032297 ATAATTTATT
1 ATAATTT-TT
*
77032307 AGAATTTTT
1 ATAATTTTT
77032316 AT-ATTTTT
1 ATAATTTTT
77032324 ATAAGTTTTT
1 ATAA-TTTTT
*
77032334 ATAAGTTTAT
1 ATAA-TTTTT
* *
77032344 ATAAATTTC
1 ATAATTTTT
77032353 AT-ATTTTT
1 ATAATTTTT
77032361 A
1 A
77032362 ATGTTTGATA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
8 17 0.32
9 10 0.19
10 26 0.49
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
ATAATTTTT
Found at i:77032342 original size:18 final size:18
Alignment explanation
Indices: 77032293--77032344 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
77032283 GTTTGAATAA
77032293 TTTTATAATTTATTAGAAT
1 TTTTATAATTTA-TAGAAT
* *
77032312 TTTTATATTTTTATA-AGT
1 TTTTATA-ATTTATAGAAT
77032330 TTTTATAAGTTTATA
1 TTTTATAA-TTTATA
77032345 TAAATTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 15 0.54
19 9 0.32
20 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTATAGAAT
Found at i:77037074 original size:19 final size:20
Alignment explanation
Indices: 77037034--77037074 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
77037024 GTTTTTCAAA
*
77037034 TTTCAAAAATGAGAATTATT
1 TTTCAAAAATGAGAAATATT
*
77037054 TTTCGAAAATGA-AAATATT
1 TTTCAAAAATGAGAAATATT
77037073 TT
1 TT
77037075 GATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTCAAAAATGAGAAATATT
Found at i:77052245 original size:26 final size:26
Alignment explanation
Indices: 77052216--77052280 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 26
77052206 AATTTTAAAA
*
77052216 ATTATATTTAATAAAATAAAGCATTT
1 ATTATATTTAATAAAATAAAACATTT
*
77052242 ATTATATTTTTTAATATAATAAAACATTT
1 ATTATA---TTTAATAAAATAAAACATTT
*
77052271 AATATATTTA
1 ATTATATTTA
77052281 TGGTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.30
29 23 0.70
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATATTTAATAAAATAAAACATTT
Found at i:77052254 original size:29 final size:29
Alignment explanation
Indices: 77052222--77052279 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
77052212 AAAAATTATA
* *
77052222 TTTAATAAAATAAAGCATTTATTATATTT
1 TTTAATAAAATAAAACATTTAATATATTT
*
77052251 TTTAATATAATAAAACATTTAATATATTT
1 TTTAATAAAATAAAACATTTAATATATTT
77052280 ATGGTATTTT
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:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAATAAAATAAAACATTTAATATATTT
Found at i:77052401 original size:17 final size:16
Alignment explanation
Indices: 77052371--77052419 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
77052361 TAGTGTGTTA
*
77052371 TATTTTTTAAAAAATT
1 TATTTTTAAAAAAATT
*
77052387 TATTTTTAAATAAAAAT
1 TATTTTTAAA-AAAATT
*
77052404 TAATTTTAAAAAAATT
1 TATTTTTAAAAAAATT
77052420 CAAATATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTTTTAAAAAAATT
Found at i:77054072 original size:47 final size:50
Alignment explanation
Indices: 77053954--77054132 Score: 184
Period size: 47 Copynumber: 3.8 Consensus size: 50
77053944 TGTAACTCGC
* * *
77053954 CCATAAGTGAACTCGGACTCAACTCAATGAGCTT-GG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGATGACAGTTCACAT
* *
77054000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGAC-AGTTCACAT
* *
77054050 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGACAGTTCACAT
*
77054094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
77054133 TTCAACCATC
Statistics
Matches: 112, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 4 0.04
46 34 0.30
47 52 0.46
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGACAGTTCACAT
Found at i:77054122 original size:94 final size:93
Alignment explanation
Indices: 77053962--77054132 Score: 272
Period size: 94 Copynumber: 1.8 Consensus size: 93
77053952 GCCCATAAGT
* * * *
77053962 GAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTAGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
77054027 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
77054055 GAACTCGGACTCAACTCAACGAG-TTCAGACATTTCACATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTT-AGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTC
77054119 AACGAGTTCGGATG
64 AACGAGTTCGGATG
77054133 TTCAACCATC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
92 2 0.03
93 24 0.34
94 45 0.63
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTAGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77064742 original size:12 final size:13
Alignment explanation
Indices: 77064727--77064769 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
77064717 TTTCACAGAA
77064727 CATTTTT-TTTTT
1 CATTTTTCTTTTT
77064739 CATTTTTCTTTTT
1 CATTTTTCTTTTT
*
77064752 C-TTCTTCTTTTT
1 CATTTTTCTTTTT
*
77064764 CCTTTT
1 CATTTT
77064770 CATAAAACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:77066691 original size:17 final size:17
Alignment explanation
Indices: 77066651--77066692 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
77066641 TTAATGAAAA
77066651 TATTTTTTATTAATTTC
1 TATTTTTTATTAATTTC
* *
77066668 TAATTTTTA-TATATTTT
1 TATTTTTTATTA-ATTTC
77066685 TATTTTTT
1 TATTTTTT
77066693 TCTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTTATTAATTTC
Found at i:77071656 original size:37 final size:37
Alignment explanation
Indices: 77071595--77071741 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
77071585 TACGTATGAT
* *
77071595 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
77071630 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
77071667 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
77071704 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
77071741 C
1 C
77071742 GAAGCTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:77071783 original size:52 final size:52
Alignment explanation
Indices: 77071704--77071920 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
77071694 TAAGTGTAGC
* *
77071704 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
77071757 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
77071809 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
77071855 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
77071907 CACTTTGTCACTTG
1 CACTTT-TCACTTG
77071921 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:77071835 original size:98 final size:98
Alignment explanation
Indices: 77071703--77071926 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
77071693 ATAAGTGTAG
* *
77071703 CCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
77071768 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
77071801 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
77071866 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
77071899 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
77071927 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:77075106 original size:49 final size:50
Alignment explanation
Indices: 77075051--77075254 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
77075041 TTCGTTTTCT
*
77075051 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
77075100 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
77075149 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
77075207 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
77075255 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:77075221 original size:58 final size:59
Alignment explanation
Indices: 77075135--77075253 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
77075125 TACACGAAAT
77075135 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
77075193 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
77075252 CA
1 CA
77075254 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:77075234 original size:28 final size:28
Alignment explanation
Indices: 77075144--77075234 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
77075134 TCACATATCA
77075144 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
77075172 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
77075202 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
77075230 CTTAC
1 CTTAC
77075235 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:77076567 original size:37 final size:37
Alignment explanation
Indices: 77076506--77076652 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
77076496 TACGTATGAT
* *
77076506 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
77076541 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
77076578 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
77076615 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
77076652 C
1 C
77076653 GAAGCTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:77076694 original size:52 final size:52
Alignment explanation
Indices: 77076615--77076831 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
77076605 TAAGTGTAGC
* *
77076615 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
77076668 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
77076720 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
77076766 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
77076818 CACTTTGTCACTTG
1 CACTTT-TCACTTG
77076832 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:77076746 original size:98 final size:98
Alignment explanation
Indices: 77076614--77076837 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
77076604 ATAAGTGTAG
* *
77076614 CCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
77076679 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
77076712 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
77076777 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
77076810 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
77076838 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:77079332 original size:3 final size:3
Alignment explanation
Indices: 77079324--77079348 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
77079314 TTAATTCTAG
77079324 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
77079349 AATCGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:77081370 original size:28 final size:28
Alignment explanation
Indices: 77081330--77081385 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
77081320 ACTTGGCATA
77081330 GAATATTTCTTTTACCTCCTCTAGAAAT
1 GAATATTTCTTTTACCTCCTCTAGAAAT
77081358 GAATATTTCTTTTACCTCCTCTAGAAAT
1 GAATATTTCTTTTACCTCCTCTAGAAAT
77081386 TGACATGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (28 bp):
GAATATTTCTTTTACCTCCTCTAGAAAT
Found at i:77091932 original size:82 final size:82
Alignment explanation
Indices: 77091845--77092013 Score: 329
Period size: 82 Copynumber: 2.1 Consensus size: 82
77091835 TAAATTTAGA
*
77091845 TTTTTTATAAATATTTTTAAAATCTTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
77091910 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
77091927 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
77091992 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
77092009 TTTTT
1 TTTTT
77092014 AATAGATACC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (82 bp):
TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
TTATATGTAAATTGAAT
Found at i:77092279 original size:14 final size:14
Alignment explanation
Indices: 77092260--77092301 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
77092250 AGCCTCGAAT
*
77092260 CTCAAAATCTAAAC
1 CTCAAACTCTAAAC
77092274 CTCAAACTCTAAA-
1 CTCAAACTCTAAAC
77092287 CTCAAACT-TAAAC
1 CTCAAACTCTAAAC
77092300 CT
1 CT
77092302 TGAACTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 10 0.38
14 12 0.46
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (14 bp):
CTCAAACTCTAAAC
Found at i:77112516 original size:13 final size:13
Alignment explanation
Indices: 77112498--77112523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77112488 CTCGCATATT
77112498 TATTTAGTTCCCA
1 TATTTAGTTCCCA
77112511 TATTTAGTTCCCA
1 TATTTAGTTCCCA
77112524 CAGCTCGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TATTTAGTTCCCA
Found at i:77113093 original size:4 final size:4
Alignment explanation
Indices: 77113084--77113114 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
77113074 AAAACAAATA
77113084 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
77113115 ATCAGCTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:77116611 original size:31 final size:31
Alignment explanation
Indices: 77116572--77116652 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
77116562 GTTGAAAAAT
* *
77116572 AAAAACTCAAGA-ACTAATTTAAATATTAAAG
1 AAAAACTCAA-ATACTAAATTAAAAATTAAAG
* *
77116603 CAAGACTCAAATACTAAATTAAAAATTAAAG
1 AAAAACTCAAATACTAAATTAAAAATTAAAG
* *
77116634 AAAAACTCAATTACCAAAT
1 AAAAACTCAAATACTAAAT
77116653 AGTATATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (31 bp):
AAAAACTCAAATACTAAATTAAAAATTAAAG
Found at i:77117947 original size:6 final size:6
Alignment explanation
Indices: 77117936--77117988 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
77117926 AAGCGTAAAC
77117936 GGATTT GGATTT GGATTT GGATTT GGATTT GGATTT GGATTT GGATTT
1 GGATTT GGATTT GGATTT GGATTT GGATTT GGATTT GGATTT GGATTT
77117984 GGATT
1 GGATT
77117989 GATTAATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (6 bp):
GGATTT
Found at i:77135932 original size:28 final size:28
Alignment explanation
Indices: 77135901--77135960 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
77135891 CCATATTAAT
77135901 GGGTATAGAAAAAGTCTCATAACTTATG
1 GGGTATAGAAAAAGTCTCATAACTTATG
77135929 GGGTATAGAAAAAGTCTCATAACTTATG
1 GGGTATAGAAAAAGTCTCATAACTTATG
77135957 GGGT
1 GGGT
77135961 TGATAATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (28 bp):
GGGTATAGAAAAAGTCTCATAACTTATG
Found at i:77136566 original size:30 final size:31
Alignment explanation
Indices: 77136511--77136574 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
77136501 AATAATTTAA
** *
77136511 TTATTCAGTGATTTTATTTTAAGTAATATTT
1 TTATTCAAAGATTTTATTATAAGTAATATTT
77136542 TTATTCAAAGATTTTA-TATAAGTAATATTT
1 TTATTCAAAGATTTTATTATAAGTAATATTT
77136572 TTA
1 TTA
77136575 AAATAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
TTATTCAAAGATTTTATTATAAGTAATATTT
Found at i:77137747 original size:39 final size:40
Alignment explanation
Indices: 77137640--77137750 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
77137630 GACCTCGAGT
* **
77137640 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
77137681 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
77137719 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
77137751 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:77137761 original size:39 final size:39
Alignment explanation
Indices: 77137640--77137774 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
77137630 GACCTCGAGT
* * *
77137640 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
77137681 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
77137719 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
77137758 CGATGAGGCACCGGGTG
1 CGATGAGACACTGGGTG
77137775 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 4 0.06
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:77143987 original size:39 final size:40
Alignment explanation
Indices: 77143880--77143990 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
77143870 GACCTCGAGT
* **
77143880 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
77143921 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
77143959 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
77143991 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:77144001 original size:39 final size:39
Alignment explanation
Indices: 77143880--77144014 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
77143870 GACCTCGAGT
* * *
77143880 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
77143921 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
77143959 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
77143998 CGATGAGGCACCGGGTG
1 CGATGAGACACTGGGTG
77144015 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 4 0.06
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:77146092 original size:55 final size:56
Alignment explanation
Indices: 77145975--77146093 Score: 213
Period size: 55 Copynumber: 2.1 Consensus size: 56
77145965 GAAAACATAT
* *
77145975 TCTACTTTTCTCTCTAAAAGTAATCTATTTTCTTTTTTTTTATATTAAAAAATCGA
1 TCTATTTTTCTCTCCAAAAGTAATCTATTTTCTTTTTTTTTATATTAAAAAATCGA
77146031 TCTATTTTTCTCTCCAAAAGTAATCTATTTTC-TTTTTTTTATATTAAAAAATCGA
1 TCTATTTTTCTCTCCAAAAGTAATCTATTTTCTTTTTTTTTATATTAAAAAATCGA
77146086 TCTATTTT
1 TCTATTTT
77146094 CGTGACCTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 31 0.51
56 30 0.49
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.53
Consensus pattern (56 bp):
TCTATTTTTCTCTCCAAAAGTAATCTATTTTCTTTTTTTTTATATTAAAAAATCGA
Found at i:77147066 original size:5 final size:5
Alignment explanation
Indices: 77147058--77147082 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
77147048 CAAACTTTTA
77147058 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
77147083 TACTTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:77150749 original size:14 final size:14
Alignment explanation
Indices: 77150730--77150757 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77150720 AAATAACAAA
77150730 ATTATAAATTAATT
1 ATTATAAATTAATT
77150744 ATTATAAATTAATT
1 ATTATAAATTAATT
77150758 TATAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATAAATTAATT
Found at i:77151584 original size:30 final size:30
Alignment explanation
Indices: 77151550--77151608 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
77151540 TTTTTTTATT
77151550 GTTAATTTTGTTATTATTTTAAAGGCATTC
1 GTTAATTTTGTTATTATTTTAAAGGCATTC
*
77151580 GTTAATTTTGTTATTATTTTACAGGCATT
1 GTTAATTTTGTTATTATTTTAAAGGCATT
77151609 TGCTTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (30 bp):
GTTAATTTTGTTATTATTTTAAAGGCATTC
Found at i:77152431 original size:15 final size:15
Alignment explanation
Indices: 77152411--77152449 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
77152401 TTCAAAGTGT
* *
77152411 AATTTTACTTTTACA
1 AATTTTAATTTTAAA
77152426 AATTTTAAATTTTAAA
1 AATTTT-AATTTTAAA
77152442 AATTTTAA
1 AATTTTAA
77152450 AAGACCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTTAATTTTAAA
Found at i:77152444 original size:16 final size:16
Alignment explanation
Indices: 77152419--77152450 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
77152409 GTAATTTTAC
*
77152419 TTTTACAAATTTTAAA
1 TTTTAAAAATTTTAAA
77152435 TTTTAAAAATTTTAAA
1 TTTTAAAAATTTTAAA
77152451 AGACCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAAAAATTTTAAA
Found at i:77160043 original size:35 final size:35
Alignment explanation
Indices: 77160003--77160075 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
77159993 TGTACACCTA
77160003 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
1 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
77160038 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
1 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
77160073 TAA
1 TAA
77160076 TAACTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (35 bp):
TAAGACACATTTGAACTCGCACTAGCCTCAACATC
Found at i:77172955 original size:25 final size:25
Alignment explanation
Indices: 77172921--77172972 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
77172911 TTTGTTGACC
*
77172921 AATAAAACCGGCTAAGTAGAAAACT
1 AATAAAACCGGCCAAGTAGAAAACT
77172946 AATAAAACCGGCCAAGTAGAAAACT
1 AATAAAACCGGCCAAGTAGAAAACT
77172971 AA
1 AA
77172973 GTTATAAAAT
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:0.54, C:0.17, G:0.15, T:0.13
Consensus pattern (25 bp):
AATAAAACCGGCCAAGTAGAAAACT
Found at i:77176186 original size:23 final size:23
Alignment explanation
Indices: 77176142--77176186 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
77176132 TTAAAATAAT
* *
77176142 AAAATTACATTTTTATTATTATA
1 AAAATTACAATTTAATTATTATA
*
77176165 AAAATTACAATTTAATTTTTAT
1 AAAATTACAATTTAATTATTAT
77176187 CTTCTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAATTACAATTTAATTATTATA
Found at i:77180664 original size:4 final size:4
Alignment explanation
Indices: 77180647--77180680 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
77180637 TGTTGAAATT
*
77180647 ATGC ATGT ATGC ATGC ATGC ATGC ATGC ATGC AT
1 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC AT
77180681 TCATACATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (4 bp):
ATGC
Found at i:77180921 original size:44 final size:44
Alignment explanation
Indices: 77180854--77180944 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
77180844 ATGAAGTTTT
77180854 TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
1 TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
*
77180898 TAATATATGTATATATATGTGAAAACATTTTCACGTGAAAGCTG
1 TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
77180942 TAA
1 TAA
77180945 AAAGTGATGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (44 bp):
TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
Found at i:77189466 original size:25 final size:25
Alignment explanation
Indices: 77189432--77189499 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
77189422 AAAGTTGACC
*
77189432 ATATAAAAAATTTAATAAA-ATAAAA
1 ATATATAAAA-TTAATAAATATAAAA
* *
77189457 ATATATAAAATTATTAAATATTAAA
1 ATATATAAAATTAATAAATATAAAA
* *
77189482 ATAATATAATATAAATAA
1 AT-ATATAAAATTAATAA
77189500 TTTTTTAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 7 0.20
25 16 0.46
26 12 0.34
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATATAAAATTAATAAATATAAAA
Found at i:77189492 original size:16 final size:17
Alignment explanation
Indices: 77189446--77189494 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
77189436 AAAAAATTTA
77189446 ATAAAATAA-A-AATAT
1 ATAAAATAATATAATAT
*
77189461 ATAAAATTAT-TAA-AT
1 ATAAAATAATATAATAT
77189476 ATTAAAATAATATAATAT
1 A-TAAAATAATATAATAT
77189494 A
1 A
77189495 AATAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 3 0.11
18 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAATAATATAATAT
Found at i:77189678 original size:29 final size:30
Alignment explanation
Indices: 77189618--77189680 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
77189608 TAAAAAATAT
* *** *
77189618 AAAATTATTTTTTATCTTTATTTTAAGGAA
1 AAAATTATTTTCTATCTTTATACGAAGAAA
77189648 AAAATTATTTTCTATCTTTA-ACGAAGAAA
1 AAAATTATTTTCTATCTTTATACGAAGAAA
77189677 AAAA
1 AAAA
77189681 CTAAATTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
AAAATTATTTTCTATCTTTATACGAAGAAA
Found at i:77196516 original size:32 final size:32
Alignment explanation
Indices: 77196480--77196549 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
77196470 TTAGTATTTT
77196480 AGTTAAAAAATC-AATTTGACTCTGTTTCAAAA
1 AGTTAAAAAATCAAATTTGACTCT-TTTCAAAA
** *
77196512 AGTT-AATGATCAAATTTGACTCTTTTTAAAA
1 AGTTAAAAAATCAAATTTGACTCTTTTCAAAA
*
77196543 GGTTAAA
1 AGTTAAA
77196550 GACCAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (32 bp):
AGTTAAAAAATCAAATTTGACTCTTTTCAAAA
Found at i:77196548 original size:31 final size:32
Alignment explanation
Indices: 77196492--77196564 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
77196482 TTAAAAAATC
* *
77196492 AATTTGACTCTGTTTCAAAAAGTTAATGATCA
1 AATTTGACTCTGTTTCAAAAAGTTAAAGACCA
* *
77196524 AATTTGACTCT-TTTTAAAAGGTTAAAGACCA
1 AATTTGACTCTGTTTCAAAAAGTTAAAGACCA
*
77196555 AATTTAACTC
1 AATTTGACTC
77196565 AATTGTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (32 bp):
AATTTGACTCTGTTTCAAAAAGTTAAAGACCA
Found at i:77203765 original size:50 final size:51
Alignment explanation
Indices: 77203688--77203816 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
77203678 GACCATGGCA
* *
77203688 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
77203739 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
77203789 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
77203817 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:77203830 original size:31 final size:31
Alignment explanation
Indices: 77203792--77203940 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
77203782 ACAAATGACA
77203792 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
77203823 AGTGAAAAGTGGTAGATTCTGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77203854 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
77203885 AATGAAAAATGTTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77203916 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
77203941 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:77204028 original size:47 final size:46
Alignment explanation
Indices: 77203958--77204130 Score: 193
Period size: 47 Copynumber: 3.7 Consensus size: 46
77203948 AAGTGATTTC
* * *
77203958 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * * *
77204004 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
77204051 CGTGTAAGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TA
* * *
77204100 CGTGTAAGACCATAGCTGGGCTATGACATCG
1 CGTATAAGACCATAGCTGGGATATGGCATCG
77204131 AGTAAACGAA
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
46 27 0.25
47 41 0.38
48 11 0.10
49 30 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
Found at i:77205791 original size:5 final size:5
Alignment explanation
Indices: 77205775--77205805 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
77205765 TTGGGAAACA
*
77205775 AAAAT AACAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
77205806 TTTTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:77207231 original size:23 final size:24
Alignment explanation
Indices: 77207195--77207244 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
77207185 TATTTATCCC
77207195 ATTTTGAATGAAAA-AT-ACATATA
1 ATTTTGAATGAAAAGATCA-ATATA
* *
77207218 ATTTTGTATTAAAAGATCAATATA
1 ATTTTGAATGAAAAGATCAATATA
77207242 ATT
1 ATT
77207245 ATTTTAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 10 0.43
25 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
ATTTTGAATGAAAAGATCAATATA
Found at i:77211849 original size:2 final size:2
Alignment explanation
Indices: 77211844--77211869 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77211834 CATATATATA
77211844 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
77211870 AATGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:77212055 original size:15 final size:15
Alignment explanation
Indices: 77212025--77212081 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
77212015 TATCTATTTT
77212025 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
77212040 ATTAAAATTATTTTG
1 ATTGAATTTATATTG
77212055 ATTGAATTTATATTG
1 ATTGAATTTATATTG
77212070 ATTGAA-TTATAT
1 ATTGAATTTATAT
77212082 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:77212483 original size:23 final size:23
Alignment explanation
Indices: 77212453--77212539 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
77212443 GCTTTATCGA
* *
77212453 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
77212476 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
77212497 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* * *
77212519 T-AGACACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
77212540 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.63
22 2 0.04
23 18 0.33
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:77212500 original size:21 final size:22
Alignment explanation
Indices: 77212465--77212516 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
77212455 AGGCACTTTA
77212465 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
77212488 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
77212509 TGTGTCGT
1 TGTGTCGT
77212517 TTTAGACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.69
23 9 0.31
ACGTcount: A:0.12, C:0.25, G:0.29, T:0.35
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:77221202 original size:21 final size:22
Alignment explanation
Indices: 77221173--77221215 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
77221163 AGTTGTAAAT
*
77221173 TGAATACTAATTGGCAGACCTA
1 TGAATACTAATTCGCAGACCTA
*
77221195 TGAA-ACTAATTCGTAGACCTA
1 TGAATACTAATTCGCAGACCTA
77221216 GGAACCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (22 bp):
TGAATACTAATTCGCAGACCTA
Found at i:77221498 original size:6 final size:6
Alignment explanation
Indices: 77221487--77221512 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
77221477 TATGACGAAT
77221487 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
77221513 AATGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:77230940 original size:17 final size:17
Alignment explanation
Indices: 77230918--77230951 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77230908 ATCCACTAAT
*
77230918 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
77230935 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
77230952 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:77235579 original size:17 final size:17
Alignment explanation
Indices: 77235557--77235590 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77235547 ATCCACTAAT
*
77235557 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
77235574 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
77235591 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:77241024 original size:19 final size:19
Alignment explanation
Indices: 77240990--77241026 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77240980 TAATTAGAGT
*
77240990 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAATTTAGC
*
77241009 TTAATTAAGAGTATTTAG
1 TTAATTAAGAGAATTTAG
77241027 GAAAATGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTAATTAAGAGAATTTAGC
Found at i:77241279 original size:19 final size:19
Alignment explanation
Indices: 77241257--77241295 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
77241247 TTTTAAATAG
*
77241257 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
77241276 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
77241295 A
1 A
77241296 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:77241744 original size:15 final size:15
Alignment explanation
Indices: 77241696--77241745 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
77241686 TTTATCAAAT
77241696 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
77241711 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
77241726 TTATATTGATTGAAA
1 TTATATTGATTGAAA
77241741 TTATA
1 TTATA
77241746 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:77242403 original size:18 final size:19
Alignment explanation
Indices: 77242382--77242422 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
77242372 AATGAAATGA
77242382 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
77242400 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
77242419 GAAA
1 GAAA
77242423 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:77246367 original size:30 final size:30
Alignment explanation
Indices: 77246333--77246431 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 30
77246323 CTAGCCTTTG
77246333 CCACCACCAATTCCACTAGCCACACTTGCT
1 CCACCACCAATTCCACTAGCCACACTTGCT
77246363 CCACCACCAACTT-CACTAGCCACACTTGCT
1 CCACCACCAA-TTCCACTAGCCACACTTGCT
** *
77246393 CCACCACTTACTCCACTAGCCACACTTGCT
1 CCACCACCAATTCCACTAGCCACACTTGCT
*
77246423 CCATCACCA
1 CCACCACCA
77246432 CTTGTACCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 58 0.95
31 2 0.03
ACGTcount: A:0.26, C:0.47, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACCAATTCCACTAGCCACACTTGCT
Found at i:77247015 original size:25 final size:25
Alignment explanation
Indices: 77246906--77247120 Score: 86
Period size: 27 Copynumber: 8.6 Consensus size: 25
77246896 CCTTTTTTGT
* *
77246906 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
* * ** *
77246929 TATTATATATATATATTCTTTTAATA
1 TATTATGTATATATCTT-TAATACTA
* * *
77246955 TATTAGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
77246978 TATTACGTATATATATTTTCTATACTA
1 TATTATGTATATAT-CTTT-AATACTA
*
77247005 TTTTATGTATATATCTTTAATACTATA
1 TATTATGTATATATCTTTAATAC--TA
* * **
77247032 TTATTTATATATATATTTTCTACATGTTA
1 -TA-TTATGTATATATCTT-TA-ATACTA
*
77247061 TCTTATGTATATAT-TTT-A-ACTA
1 TATTATGTATATATCTTTAATACTA
* * *
77247083 TATTATGTATGT-TTTTTAACACTA
1 TATTATGTATATATCTTTAATACTA
*
77247107 TATTATGTACATAT
1 TATTATGTATATAT
77247121 ATAAATATTA
Statistics
Matches: 140, Mismatches: 35, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
21 1 0.01
22 15 0.11
23 22 0.16
24 22 0.16
25 8 0.06
26 21 0.15
27 30 0.21
28 2 0.01
29 15 0.11
30 2 0.01
31 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:77247072 original size:56 final size:51
Alignment explanation
Indices: 77246985--77247088 Score: 136
Period size: 56 Copynumber: 1.9 Consensus size: 51
77246975 CTATATTACG
*
77246985 TATATATATTTTCTATACTATTTTATGTATATATCTTTAATACTATATTATTTA
1 TATATATATTTTCTATACTATCTTATGTATATAT-TTT-A-ACTATATTATTTA
**
77247039 TATATATATTTTCTACATGTTATCTTATGTATATATTTTAACTATATTAT
1 TATATATATTTTCT--ATACTATCTTATGTATATATTTTAACTATATTAT
77247089 GTATGTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 10 0.22
54 15 0.33
55 3 0.07
56 17 0.38
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.57
Consensus pattern (51 bp):
TATATATATTTTCTATACTATCTTATGTATATATTTTAACTATATTATTTA
Found at i:77247088 original size:27 final size:27
Alignment explanation
Indices: 77246997--77247094 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
77246987 TATATATTTT
*
77246997 CTATACTATTTTATGTATATATCTTTAATA
1 CTATATTA-TTTATGTATATAT-TTTAA-A
* **
77247027 CTATATTATTTATATATATATTTTCTA
1 CTATATTATTTATGTATATATTTTAAA
*
77247054 C-ATGTTATCTTATGTATATATTTT-AA
1 CTATATTAT-TTATGTATATATTTTAAA
*
77247080 CTATATTATGTATGT
1 CTATATTATTTATGT
77247095 TTTTTAACAC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 13 0.23
27 22 0.39
28 3 0.05
29 12 0.21
30 7 0.12
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (27 bp):
CTATATTATTTATGTATATATTTTAAA
Done.