Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 145 of 211
Found at i:43202756 original size:19 final size:19
Alignment explanation
Indices: 43202732--43202827 Score: 129
Period size: 21 Copynumber: 4.8 Consensus size: 19
43202722 AATTTTTGAG
43202732 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
43202751 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
43202770 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
43202791 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
43202812 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
43202828 AGATATGATT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
19 32 0.46
21 38 0.54
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43202778 original size:21 final size:21
Alignment explanation
Indices: 43202733--43202816 Score: 136
Period size: 21 Copynumber: 4.1 Consensus size: 21
43202723 ATTTTTGAGG
43202733 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
**
43202752 ATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGAT
43202773 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
43202794 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
43202815 AT
1 AT
43202817 GTAATCTTAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.29
21 42 0.71
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:43202817 original size:40 final size:38
Alignment explanation
Indices: 43202732--43202834 Score: 129
Period size: 40 Copynumber: 2.7 Consensus size: 38
43202722 AATTTTTGAG
43202732 GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
**
43202770 GATATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATATG--ATATGCAATCCAAGATAT
*
43202812 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
43202835 ATTTTGTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
36 5 0.09
38 2 0.03
39 1 0.02
40 33 0.57
42 17 0.29
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
Found at i:43202834 original size:22 final size:23
Alignment explanation
Indices: 43202763--43202850 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 23
43202753 TATGCAATCC
*
43202763 AAGATATGATATATGCAATCTT--
1 AAGATATGAT-TATGTAATCTTAG
*
43202785 -AGATATGATATATGCAATCTT--
1 AAGATATGAT-TATGTAATCTTAG
43202806 -AGATATGA-TATGTAATCTTAG
1 AAGATATGATTATGTAATCTTAG
*
43202827 AAGATATGATTTTGTAATCTTAG
1 AAGATATGATTATGTAATCTTAG
43202850 A
1 A
43202851 GATTTAATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.17
21 29 0.48
22 8 0.13
23 13 0.22
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (23 bp):
AAGATATGATTATGTAATCTTAG
Found at i:43202846 original size:23 final size:22
Alignment explanation
Indices: 43202806--43202850 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
43202796 ATGCAATCTT
43202806 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
43202828 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
43202851 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:43202860 original size:22 final size:23
Alignment explanation
Indices: 43202816--43202860 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
43202806 AGATATGATA
*
43202816 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
43202839 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
43202861 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:43203450 original size:25 final size:23
Alignment explanation
Indices: 43203422--43203468 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
43203412 CATATATAGT
43203422 TTTTTTTTAAAAATGAATATTTTCC
1 TTTTTTTT--AAATGAATATTTTCC
43203447 TTTTTTTTAAATGAATATTTTC
1 TTTTTTTTAAATGAATATTTTC
43203469 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTTTTTAAATGAATATTTTCC
Found at i:43204237 original size:98 final size:98
Alignment explanation
Indices: 43204104--43204300 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 98
43204094 TTAAGAATAA
** * * *
43204104 TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
43204169 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
43204202 TAAAGGAAATATTCCTAGTTTAAGATTCTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
*
43204267 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
43204300 T
1 T
43204301 TTTATTGTAC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTAAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:43212774 original size:21 final size:21
Alignment explanation
Indices: 43212745--43212786 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43212735 ACCTAGATAT
* * *
43212745 TAATTTAATTTAGTTTTTTTA
1 TAATCTAATTTAATTATTTTA
43212766 TAATCTAATTTAATTATTTTA
1 TAATCTAATTTAATTATTTTA
43212787 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TAATCTAATTTAATTATTTTA
Found at i:43216442 original size:88 final size:88
Alignment explanation
Indices: 43216326--43217407 Score: 1312
Period size: 88 Copynumber: 12.3 Consensus size: 88
43216316 TTCATTGCTA
* * * * * * * *
43216326 ATACAAGAAGGCAAGACCTGGTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
43216391 GTCTTCGATCTGCTTTACTGTC-
66 GTCTTCGATCTGCTTCACTGTCG
* *
43216413 AGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTACTACAACCGAGAGAGGCAAGGCTTG
1 A-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* *
43216478 TGTTTTCGATCTGCTTCACTCTCG
65 TGTCTTCGATCTGCTTCACTGTCG
* * * * *
43216502 ATGCAGGAAGGCAAAATCTACTATCTTCAACCTGCTCCACTACAACCGTGGGGGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
43216567 GTCTTCAATCTGCTTCACTGTCG
66 GTCTTCGATCTGCTTCACTGTCG
** * *
43216590 ATGTAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTACAACCGAGGGAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
* * *
43216655 GTCTTCGATCTACTTCGCCGTCG
66 GTCTTCGATCTGCTTCACTGTCG
* * *
43216678 ATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCAAGGGAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
* *
43216743 GTCTTCGATCTGCTTC-GTCGTTG
66 GTCTTCGATCTGCTTCACT-GTCG
* * * * * * * *
43216766 ATGCAGGAAGGCAAGATCTGCTGTCCTCAACCTGCTCCGCTGCAACCTAAGGAGGTAAGG-TTGG
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTT-G
*
43216830 TGTCTTCGATCTGATTCACTGTC-
65 TGTCTTCGATCTGCTTCACTGTCG
* *
43216853 AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACTGAGGGAGGCAAGGCTTG
1 A-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* ** *
43216918 TGTCTTCGATCTGCTTCGCCATCA
65 TGTCTTCGATCTGCTTCACTGTCG
* * * * * * *
43216942 ATGCAGGAAGGCAAGATTTGTTGTCTTCAATCTGCTCCACTACAACCAAGGAAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
43217007 GTCTTCAATCTGCTTCACTGTCG
66 GTCTTCGATCTGCTTCACTGTCG
** * ** ** * * * *
43217030 ATGTAGGAAGGCAAGATCTACTATCTTCAACCTGCTCCGTTGTAACCCAAGGAGGTAAGGCTGGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
43217095 GTCTTCGATCTACTTCACTGTC-
66 GTCTTCGATCTGCTTCACTGTCG
*
43217117 AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
1 A-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* * *
43217182 TGTTTTCGATCTGCGTCACTCTCG
65 TGTCTTCGATCTGCTTCACTGTCG
* * * *
43217206 ATACGGGAAGGCAAGATCTGCTATCTTCAACCTACTCTACTACAACCGAGGGAGGAAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
* * *
43217271 GTTTTCAATCTACTTCACTG-CG
66 GTCTTCGATCTGCTTCACTGTCG
* * * *
43217293 ATGCAAGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGGAGACAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
43217358 GTCTTCGATCTGCTTCACTCTCG
66 GTCTTCGATCTGCTTCACTGTCG
* * *
43217381 ATGCAGTAAGGCAAGATCTGTTATCTT
1 ATACAGGAAGGCAAGATCTGCTATCTT
43217408 TACTGATTTG
Statistics
Matches: 850, Mismatches: 134, Indels: 21
0.85 0.13 0.02
Matches are distributed among these distances:
87 82 0.10
88 762 0.90
89 6 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (88 bp):
ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
GTCTTCGATCTGCTTCACTGTCG
Found at i:43216572 original size:43 final size:43
Alignment explanation
Indices: 43216525--43216660 Score: 123
Period size: 43 Copynumber: 3.1 Consensus size: 43
43216515 AAATCTACTA
*
43216525 TCTTCAACCTGCTCCACTACAACCGTGGGGGGCAAGGCTTGTG
1 TCTTCAACCTGCTCCACTACAACCGTGGGAGGCAAGGCTTGTG
* * * * * * * *
43216568 TCTTCAATCTGCTTCACTGTCGA-TGTAGGAAGGCAA-GATCTGATA
1 TCTTCAACCTGCTCCACT-ACAACCGT-GGGAGGCAAGGCT-TG-TG
* *
43216613 TCTTCAACCTCCTCCACTACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCAACCTGCTCCACTACAACCGTGGGAGGCAAGGCTTGTG
43216656 TCTTC
1 TCTTC
43216661 GATCTACTTC
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 26 0.38
44 23 0.34
45 19 0.28
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (43 bp):
TCTTCAACCTGCTCCACTACAACCGTGGGAGGCAAGGCTTGTG
Found at i:43218671 original size:7 final size:7
Alignment explanation
Indices: 43218651--43218701 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
43218641 TTAGCCTCTC
43218651 CATTTTT
1 CATTTTT
*
43218658 ACTTTTTT
1 -CATTTTT
43218666 CATTTTTTT
1 CA--TTTTT
43218675 CATTTTT
1 CATTTTT
*
43218682 -AATTTT
1 CATTTTT
43218688 CATTTTT
1 CATTTTT
43218695 CATTTTT
1 CATTTTT
43218702 TTTGACTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
6 5 0.14
7 18 0.50
8 6 0.17
9 7 0.19
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:43218689 original size:13 final size:13
Alignment explanation
Indices: 43218671--43218700 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43218661 TTTTTCATTT
43218671 TTTTCATTTTTAA
1 TTTTCATTTTTAA
*
43218684 TTTTCATTTTTCA
1 TTTTCATTTTTAA
43218697 TTTT
1 TTTT
43218701 TTTTGACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTAA
Found at i:43219586 original size:15 final size:15
Alignment explanation
Indices: 43219566--43219595 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43219556 CGCCTTGGCC
*
43219566 TCTCCTTTTTCTTTT
1 TCTCCTTTTTATTTT
43219581 TCTCCTTTTTATTTT
1 TCTCCTTTTTATTTT
43219596 CATTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTCCTTTTTATTTT
Found at i:43219635 original size:20 final size:19
Alignment explanation
Indices: 43219572--43219642 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
43219562 GGCCTCTCCT
*
43219572 TTTTCTTTTTCTCCTTTTTA
1 TTTTCTTTTT-TCCTTTTGA
* *
43219592 TTTTCATTTTT-ATTTTGA
1 TTTTCTTTTTTCCTTTTGA
43219610 TTTTTTCTTTTTTCCTTTTGA
1 --TTTTCTTTTTTCCTTTTGA
*
43219631 CTTTTATTTTTT
1 -TTTTCTTTTTT
43219643 TCTCTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.12
19 1 0.02
20 29 0.71
21 6 0.15
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTTCCTTTTGA
Found at i:43219658 original size:28 final size:28
Alignment explanation
Indices: 43219603--43219669 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
43219593 TTTCATTTTT
43219603 ATTTTGA-TTTTTTCTTTTTTCCTTTTGA
1 ATTTTGATTTTTTTCTTTTTT-CTTTTGA
*
43219631 CTTTT-ATTTTTTTCTCTTTTT-TTATTGA
1 ATTTTGATTTTTTTCT-TTTTTCTT-TTGA
43219659 ATTTTGATTTT
1 ATTTTGATTTT
43219670 GACCATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 3 0.09
28 20 0.61
29 10 0.30
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.73
Consensus pattern (28 bp):
ATTTTGATTTTTTTCTTTTTTCTTTTGA
Found at i:43239799 original size:14 final size:14
Alignment explanation
Indices: 43239780--43239830 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 14
43239770 TTAATCGTCC
43239780 TTTTTACATAGAAT
1 TTTTTACATAGAAT
43239794 TTTTTAC-TCAGTAAAT
1 TTTTTACAT-AG--AAT
43239810 TTTTTACATAGAAT
1 TTTTTACATAGAAT
43239824 TTTTTAC
1 TTTTTAC
43239831 TCAGTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.03
14 19 0.58
16 12 0.36
17 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTTTACATAGAAT
Found at i:43239812 original size:16 final size:16
Alignment explanation
Indices: 43239791--43239842 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
43239781 TTTTACATAG
43239791 AATTTTTTACTCAGTA
1 AATTTTTTACTCAGTA
43239807 AATTTTTTA--CA-TA
1 AATTTTTTACTCAGTA
43239820 GAATTTTTTACTCAGTA
1 -AATTTTTTACTCAGTA
43239837 AATTTT
1 AATTTT
43239843 CTCCTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.06
14 11 0.34
16 17 0.53
17 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTTTTACTCAGTA
Found at i:43239816 original size:30 final size:30
Alignment explanation
Indices: 43239780--43239842 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
43239770 TTAATCGTCC
43239780 TTTTTACATAGAATTTTTTACTCAGTAAAT
1 TTTTTACATAGAATTTTTTACTCAGTAAAT
43239810 TTTTTACATAGAATTTTTTACTCAGTAAAT
1 TTTTTACATAGAATTTTTTACTCAGTAAAT
43239840 TTT
1 TTT
43239843 CTCCTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (30 bp):
TTTTTACATAGAATTTTTTACTCAGTAAAT
Found at i:43241080 original size:28 final size:28
Alignment explanation
Indices: 43241049--43241103 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
43241039 ACTAGCGAAA
43241049 TGAGATTGAAATCTTGGAGAAAAAAAAT
1 TGAGATTGAAATCTTGGAGAAAAAAAAT
43241077 TGAGATTGAAATCTTGGAGAAAAAAAA
1 TGAGATTGAAATCTTGGAGAAAAAAAA
43241104 ACTCAAGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.24
Consensus pattern (28 bp):
TGAGATTGAAATCTTGGAGAAAAAAAAT
Found at i:43253553 original size:113 final size:114
Alignment explanation
Indices: 43253302--43253580 Score: 305
Period size: 113 Copynumber: 2.5 Consensus size: 114
43253292 TTTTGGTTTT
* * ** *
43253302 GCGCCGCAAAATCTCA-AGACCAAAACGCATCGTTTTTGTCTTGATGTATACAATAATTAGTGGC
1 GCGCCGCAAAATATCATA-ACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGC
** * * ** *
43253366 GATTATGATAAAACGCCGCTAAAGCAAGTATTAGCGGCGCATTGTGGGAA
65 GATTACAAAAAAACGCCGCTAAAACAAGTATTAGCGGCGCATTACGGAAA
* * * * *
43253416 GTGCCGCAAAA-ATCTTAACGAAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATATCATAACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCG
* *
43253480 TTTACAAAAAAACGCCAG-TAAAACAAGTCTTAGCGGCGC-TTACGGAAA
66 ATTACAAAAAAACGCC-GCTAAAACAAGTATTAGCGGCGCATTACGGAAA
* ** *
43253528 GCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTA
1 GCGCCGCAAAATATCATAACCAAAACGCATCGTTTTGGTCTTGATGTATATTA
43253581 AGCGCCGCAA
Statistics
Matches: 134, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
112 16 0.12
113 106 0.79
114 12 0.09
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (114 bp):
GCGCCGCAAAATATCATAACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCG
ATTACAAAAAAACGCCGCTAAAACAAGTATTAGCGGCGCATTACGGAAA
Found at i:43253590 original size:54 final size:54
Alignment explanation
Indices: 43253526--43253631 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
43253516 CGCTTACGGA
* * *
43253526 AAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATT
1 AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATATT
* * *
43253580 AAGCGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTCGATGTATA
1 AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATA
43253632 ATACAATTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATATT
Found at i:43253746 original size:167 final size:166
Alignment explanation
Indices: 43253418--43253747 Score: 375
Period size: 167 Copynumber: 2.0 Consensus size: 166
43253408 TGTGGGAAGT
* * * * *
43253418 GCCGCAAAAATCTTAACGAAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCGTTT
1 GCCGCAAAAATCTTAACCAAAACGCAGCGGTTTGGTATCGATGTATAATACAATTAGTGGCGTTT
* *
43253483 ACAAAAAAACGCCAGTAAAACAAGTCTTAGCGGCGCTTACGGAAAGCGCCGCAAAATATGATAAC
66 ACAAAAAAACGCCAGTAAAACAAGTATTAGCGGCGCTTACAGAAAGCGCCGCAAAATATGATAAC
*
43253548 CAAAACGCAGAGTTTTGATCTTGATGTATATTAAGC
131 CAAAACGCAGAGTTTTGATCTTGAGGTATATTAAGC
* *
43253584 GCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-T
1 GCCGC-AAAAATCTTAACCAAAACGCAGCGGTTTGGTATCGATGTATAATACAATTAGTGGCGTT
*** * * * * *
43253648 TAGGGAAAAACGCC-GCTAAAGCATCA-TATTAGCGGCGATTTTCTAG-AATCGCCGCAAGATAT
65 TACAAAAAAACGCCAG-TAAAACA--AGTATTAGCGGCG-CTTAC-AGAAAGCGCCGCAAAATAT
* *
43253710 GCA-CACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTA
125 G-ATAACCAAAACGCAGAGTTTTGATCTTGAGGTATATTA
43253748 GGATTAGTGG
Statistics
Matches: 137, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
165 1 0.01
166 23 0.17
167 78 0.57
168 33 0.24
169 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (166 bp):
GCCGCAAAAATCTTAACCAAAACGCAGCGGTTTGGTATCGATGTATAATACAATTAGTGGCGTTT
ACAAAAAAACGCCAGTAAAACAAGTATTAGCGGCGCTTACAGAAAGCGCCGCAAAATATGATAAC
CAAAACGCAGAGTTTTGATCTTGAGGTATATTAAGC
Found at i:43253937 original size:208 final size:207
Alignment explanation
Indices: 43253597--43253990 Score: 562
Period size: 208 Copynumber: 1.9 Consensus size: 207
43253587 GCAAAAAATG
*
43253597 TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGGGAAAAACGCC
1 TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAGAAAAACGCC
* * * *
43253662 GCTAAAGCATCATATTAGCGGCGATTTTCTAGAATCGCCGCAAGATATGCACACCAAAACGCAGA
66 GCTAAAGAATCATATTAGCGGCGAATTTCGAGAAGCGCCGCAAGATATGCACACCAAAACGCAGA
* * *
43253727 GTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACACCGCTAAAGAGAGAAGCG
131 GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACACCGCTAAAGAGAGAAGCG
43253792 CCGCTAAATTTC
196 CCGCTAAATTTC
* * * * * *
43253804 TTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAGTTAGTGGCGCTTACGAG-AAAACG
1 TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTA-GAGAAAAACG
*
43253868 CCGCTAAATAAT-AGTATTAGCGGC-AATTT-GAGTTAAGCGCCGCAAGATATGCACACCAAAAC
64 CCGCTAAAGAATCA-TATTAGCGGCGAATTTCGAG--AAGCGCCGCAAGATATGCACACCAAAAC
* *
43253930 GCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGATTGGAAAACGCCGCTAAAG
126 GCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACACCGCTAAAG
43253991 TATACTATTA
Statistics
Matches: 165, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
206 2 0.01
207 49 0.30
208 112 0.68
209 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (207 bp):
TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAGAAAAACGCC
GCTAAAGAATCATATTAGCGGCGAATTTCGAGAAGCGCCGCAAGATATGCACACCAAAACGCAGA
GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACACCGCTAAAGAGAGAAGCG
CCGCTAAATTTC
Found at i:43254462 original size:7 final size:7
Alignment explanation
Indices: 43254452--43254534 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
43254442 AGAGTATTGA
43254452 GTTTAGG
1 GTTTAGG
*
43254459 GTTTATG
1 GTTTAGG
* *
43254466 ATGT-GG
1 GTTTAGG
*
43254472 GTTTTGG
1 GTTTAGG
*
43254479 TGTTTAGA
1 -GTTTAGG
43254487 GTTTAGG
1 GTTTAGG
*
43254494 GTTTAGAA
1 GTTTAG-G
*
43254502 GTTTGGG
1 GTTTAGG
*
43254509 GTTTAAG
1 GTTTAGG
*
43254516 ATTTAGG
1 GTTTAGG
*
43254523 GTTTGGG
1 GTTTAGG
43254530 GTTTA
1 GTTTA
43254535 AGCTACTTTA
Statistics
Matches: 54, Mismatches: 19, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
6 3 0.06
7 41 0.76
8 10 0.19
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:43254534 original size:14 final size:14
Alignment explanation
Indices: 43254480--43254526 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
43254470 GGGTTTTGGT
43254480 GTTTAGAGTTTAGG
1 GTTTAGAGTTTAGG
*
43254494 GTTTAGAAGTTTGGG
1 GTTTAG-AGTTTAGG
43254509 GTTTA-AGATTTAGG
1 GTTTAGAG-TTTAGG
43254523 GTTT
1 GTTT
43254527 GGGGTTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 2 0.07
14 15 0.52
15 12 0.41
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (14 bp):
GTTTAGAGTTTAGG
Found at i:43254952 original size:23 final size:24
Alignment explanation
Indices: 43254903--43254966 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
43254893 TATAATACAT
* *
43254903 TAATTTAATAA-TATAAATAATTTA
1 TAATTT-ATAATTTTAAATAATTGA
43254927 TAATTTATAATTTTAAAT-ATTGA
1 TAATTTATAATTTTAAATAATTGA
43254950 TAATATT-TAAATTTTAA
1 TAAT-TTAT-AATTTTAA
43254967 TGTATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTTATAATTTTAAATAATTGA
Found at i:43255643 original size:44 final size:44
Alignment explanation
Indices: 43255593--43255686 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
43255583 AATTCTTGCG
*
43255593 TCCTTCTTGCCCAATTTCTTG-AATTCCCAAATCCGTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATT-CCAAATCCCTAAATCGCC
* *
43255637 TCCTTCTTGTCGAATTTCTTGAAATTCCAAATCCCTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATTCCAAATCCCTAAATCGCC
43255681 TCCTTC
1 TCCTTC
43255687 CTCCTTCCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.22, C:0.33, G:0.09, T:0.36
Consensus pattern (44 bp):
TCCTTCTTGCCCAATTTCTTGAAATTCCAAATCCCTAAATCGCC
Found at i:43257296 original size:21 final size:20
Alignment explanation
Indices: 43257271--43257339 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 20
43257261 CAACAACTTA
*
43257271 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCA-CAGCGAGAG
*
43257292 AAGCAGAGGCTACAACGAGAG
1 AAGCAGAGGC-ACAGCGAGAG
43257313 AAGCAGAGGCCACAGCGAGAG
1 AAGCAGAGG-CACAGCGAGAG
43257334 AAGCAG
1 AAGCAG
43257340 CGATAGAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 41 0.95
22 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.39, T:0.01
Consensus pattern (20 bp):
AAGCAGAGGCACAGCGAGAG
Found at i:43257916 original size:43 final size:42
Alignment explanation
Indices: 43257814--43257997 Score: 287
Period size: 42 Copynumber: 4.3 Consensus size: 42
43257804 CACTACTTTT
*
43257814 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTA
*
43257856 AGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTCTTCCTA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCCTA
43257899 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTA
* * *
43257941 AGCGCCGTTAAAGAACATGATCTTTAGCGGTGTTTTTTTCTGTA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-CTA
*
43257985 AGCGCCGCAAAAG
1 AGCGCCGCTAAAG
43257998 TTAGCGACGT
Statistics
Matches: 131, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
42 71 0.54
43 47 0.36
44 13 0.10
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTA
Found at i:43257957 original size:85 final size:86
Alignment explanation
Indices: 43257814--43257997 Score: 298
Period size: 85 Copynumber: 2.2 Consensus size: 86
43257804 CACTACTTTT
43257814 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
43257879 TTAGCGGCATTTTCTTC-CTA
66 TTAGCGGCATTTTCTTCTCTA
* *
43257899 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGTTAAAGAACATGATCT
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
** * *
43257964 TTAGCGGTGTTTTTTTCTGTA
66 TTAGCGGCATTTTCTTCTCTA
*
43257985 AGCGCCGCAAAAG
1 AGCGCCGCTAAAG
43257998 TTAGCGACGT
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 77 0.85
86 14 0.15
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (86 bp):
AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCATTTTCTTCTCTA
Found at i:43263331 original size:41 final size:41
Alignment explanation
Indices: 43263265--43263412 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
43263255 CTTAATTATT
* *
43263265 CCCTGAATTGCACATACATGCCCCTGTTTGTATTTCAGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * *
43263306 CCCTGAATTACACATATGTGTCCCTGTTTGTACTTCAGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * ** * * *
43263347 CCTTAAATTGCAGGTACGTGTCGCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
43263388 CCCTGAATTGCACATACGTGCCCCT
1 CCCTGAATTGCACATACGTGCCCCT
43263413 ATTTACGCTC
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:43264151 original size:63 final size:63
Alignment explanation
Indices: 43264074--43264252 Score: 241
Period size: 63 Copynumber: 2.8 Consensus size: 63
43264064 CATCAGCTCT
* *
43264074 GATTTATTTTACACAAGCACCACAACACGCACAATCATTCCCTGCATCAACATATTAAGCACT
1 GATTTATTTTACACAAGCACCACAGCACGCACAATCATTCCCTGCATCAACATATTAAGCACC
* * * * * * *
43264137 GGTTTATTTTACACAAGTACCACAGCACACACAATCATTCCCTACATCAATACATTCAGCACC
1 GATTTATTTTACACAAGCACCACAGCACGCACAATCATTCCCTGCATCAACATATTAAGCACC
* * * *
43264200 GATTTATTTTACACAAGCGCTACAGCACGCGCAATCATTCCTTGCATCAACAT
1 GATTTATTTTACACAAGCACCACAGCACGCACAATCATTCCCTGCATCAACAT
43264253 CTTCTTCAGG
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 97 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.26
Consensus pattern (63 bp):
GATTTATTTTACACAAGCACCACAGCACGCACAATCATTCCCTGCATCAACATATTAAGCACC
Found at i:43264272 original size:63 final size:63
Alignment explanation
Indices: 43264037--43264256 Score: 232
Period size: 63 Copynumber: 3.5 Consensus size: 63
43264027 AGAATCATAA
* * * * * *
43264037 CACGCA-AACTCATTCCC-CCATCAACACCATCAGCTCTGATTTATTTTACACAAGCACCACAA
1 CACGCACAA-TCATTCCCTGCATCAACATCTTCAGCACGGATTTATTTTACACAAGCACCACAG
* * *
43264099 CACGCACAATCATTCCCTGCATCAACATATTAAGCACTGG-TTTATTTTACACAAGTACCACAG
1 CACGCACAATCATTCCCTGCATCAACATCTTCAGCAC-GGATTTATTTTACACAAGCACCACAG
* * * * * *
43264162 CACACACAATCATTCCCTACATCAATA-CATTCAGCACCGATTTATTTTACACAAGCGCTACAG
1 CACGCACAATCATTCCCTGCATCAACATC-TTCAGCACGGATTTATTTTACACAAGCACCACAG
* *
43264225 CACGCGCAATCATTCCTTGCATCAACATCTTC
1 CACGCACAATCATTCCCTGCATCAACATCTTC
43264257 TTCAGGGATA
Statistics
Matches: 129, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
62 15 0.12
63 112 0.87
64 2 0.02
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.25
Consensus pattern (63 bp):
CACGCACAATCATTCCCTGCATCAACATCTTCAGCACGGATTTATTTTACACAAGCACCACAG
Found at i:43274779 original size:26 final size:26
Alignment explanation
Indices: 43274749--43274801 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
43274739 GAAAAAGAGG
*
43274749 ACTAAATCATAAAAGTTACAAAAGTT
1 ACTAAATCATAAAAGCTACAAAAGTT
43274775 ACTAAATCATAAAAGCTACAAAAGTT
1 ACTAAATCATAAAAGCTACAAAAGTT
43274801 A
1 A
43274802 ATCACTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.25
Consensus pattern (26 bp):
ACTAAATCATAAAAGCTACAAAAGTT
Found at i:43276874 original size:41 final size:41
Alignment explanation
Indices: 43276767--43276900 Score: 128
Period size: 41 Copynumber: 3.3 Consensus size: 41
43276757 ACCTTTTGGG
* * * * *
43276767 GCTTTAGCGACGTTTTTGAAAAAGCATTGCTAATGCTC-AA
1 GCTTTAGCGGCATTTTTGAAAAAGCGTCGCTAATGCTCGGA
** * * *
43276807 GCTTTTAGCGGCATTTTCCAAGAAGCGCCGCTAATGCTCGGG
1 GC-TTTAGCGGCATTTTTGAAAAAGCGTCGCTAATGCTCGGA
* *
43276849 GCTTTAGCGGCATTTTTGAAAAAGCGTCACT-ATAGCTCAGA
1 GCTTTAGCGGCATTTTTGAAAAAGCGTCGCTAAT-GCTCGGA
43276890 GCTTTAGCGGC
1 GCTTTAGCGGC
43276901 GCTTTTCAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
40 4 0.05
41 68 0.92
42 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (41 bp):
GCTTTAGCGGCATTTTTGAAAAAGCGTCGCTAATGCTCGGA
Found at i:43277382 original size:13 final size:13
Alignment explanation
Indices: 43277364--43277388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43277354 TGTGATTTAT
43277364 GGGTTAGGGGTTG
1 GGGTTAGGGGTTG
43277377 GGGTTAGGGGTT
1 GGGTTAGGGGTT
43277389 TGAGATTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.60, T:0.32
Consensus pattern (13 bp):
GGGTTAGGGGTTG
Found at i:43277551 original size:81 final size:84
Alignment explanation
Indices: 43277433--43277619 Score: 281
Period size: 81 Copynumber: 2.3 Consensus size: 84
43277423 TTCAATGTTA
* *
43277433 GGTTAGGGTTTAAGGTTTAGAGTAATTAGTGTGTTTTAA-TT-TATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
*
43277496 TTAAGGGTT-AGGGATTCG
66 TTAAGGGTTAAGGGATTAG
*
43277514 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
*
43277579 TTAAGGGTTAAGGGTTTAG
66 TTAAGGGTTAAGGGATTAG
* * *
43277598 GATTAGGGGTTAGGGGTTAGAT
1 GGTTAGGGTTTAGGGTTTAGAT
43277620 ATTAGAGGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
81 36 0.38
82 2 0.02
83 31 0.33
84 26 0.27
ACGTcount: A:0.27, C:0.01, G:0.32, T:0.41
Consensus pattern (84 bp):
GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAAGGGTTAAGGGATTAG
Found at i:43277593 original size:14 final size:14
Alignment explanation
Indices: 43277566--43277617 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
43277556 ATATATTAAA
*
43277566 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
*
43277580 TAAGGGTTAAGGGT
1 TAAGGGTTAGGGGT
* *
43277594 TTAGGATTAGGGGT
1 TAAGGGTTAGGGGT
*
43277608 TAGGGGTTAG
1 TAAGGGTTAG
43277618 ATATTAGAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:43277607 original size:21 final size:21
Alignment explanation
Indices: 43277569--43277632 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
43277559 TATTAAATAA
* *
43277569 GGTTTAGGGGTTAAGGGTTAAG
1 GGTTTA-GGATTAGGGGTTAAG
43277591 GGTTTAGGATTAGGGGTT-AG
1 GGTTTAGGATTAGGGGTTAAG
* * *
43277611 GGGTTAGATATTAGAGGTTAAG
1 GGTTTAG-GATTAGGGGTTAAG
43277633 AGTTAGTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.23
21 19 0.54
22 8 0.23
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (21 bp):
GGTTTAGGATTAGGGGTTAAG
Found at i:43277637 original size:21 final size:21
Alignment explanation
Indices: 43277599--43277638 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43277589 AGGGTTTAGG
* * *
43277599 ATTAGGGGTTAGGGGTTAGAT
1 ATTAGAGGTTAAGAGTTAGAT
43277620 ATTAGAGGTTAAGAGTTAG
1 ATTAGAGGTTAAGAGTTAG
43277639 TGATTTAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.33
Consensus pattern (21 bp):
ATTAGAGGTTAAGAGTTAGAT
Found at i:43278563 original size:22 final size:23
Alignment explanation
Indices: 43278529--43278572 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
43278519 CTTAACTAAT
* *
43278529 AATTTTTAATAG-ATAAAATAAA
1 AATTTGTAATAGAACAAAATAAA
*
43278551 AATTTGTAGTAGAACAAAATAA
1 AATTTGTAATAGAACAAAATAA
43278573 CATCATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (23 bp):
AATTTGTAATAGAACAAAATAAA
Found at i:43282787 original size:43 final size:43
Alignment explanation
Indices: 43282735--43282924 Score: 258
Period size: 43 Copynumber: 4.4 Consensus size: 43
43282725 TTTTAAAGTT
* *
43282735 ATGTT-TTTAGCGGCGTTTTTG-CGAGAAGCGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGTC
* * *
43282777 ATGTTCTTTAGCGACGTTAGTGACAAAAGCTCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTC
* *
43282820 ATGTTCTTTAGCAGCGTTTGTGACAAAAGCGTCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTC
* * *
43282863 ATGTTCTTTAGCAGCGTTTGTGATAAAAGCGCCGTTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTC
*
43282906 ATGATCTTTAGCGGCGTTT
1 ATGTTCTTTAGCGGCGTTT
43282925 TTTACATAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.04
43 125 0.95
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTC
Found at i:43283015 original size:31 final size:33
Alignment explanation
Indices: 43282958--43283020 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 33
43282948 CTATAGCAGC
* *
43282958 ACTTTTTGTGGCGCTTGTGAAAGCGCCGCTAAT
1 ACTTTTAGTGGCGCTTGTAAAAGCGCCGCTAAT
43282991 ACTTTTAGTGGCGC-T-TAAAAGCGCCGCTAA
1 ACTTTTAGTGGCGCTTGTAAAAGCGCCGCTAA
43283021 AGGCCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 14 0.50
32 1 0.04
33 13 0.46
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (33 bp):
ACTTTTAGTGGCGCTTGTAAAAGCGCCGCTAAT
Found at i:43284463 original size:2 final size:2
Alignment explanation
Indices: 43284456--43284485 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43284446 AAAACCCAAC
43284456 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
43284486 CTAGTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43290768 original size:41 final size:40
Alignment explanation
Indices: 43290712--43290851 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 40
43290702 TGACCTTTCG
* * *
43290712 GGGCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGATT
1 GGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* ** * *
43290752 GGGCTTTTAGCGGCGTTTTTGGGAAAGCACCGCTAATTCTCA
1 GGGC-TTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCT-A
*
43290794 GAGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCT-A
*
43290835 -GGCTTTTAGCGGCGTTT
1 GGGC-TTTAGCAGCGTTT
43290852 CTGAGCATTA
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
40 6 0.07
41 72 0.89
42 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
GGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTA
Found at i:43291273 original size:14 final size:15
Alignment explanation
Indices: 43291245--43291277 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
43291235 AACGTTTATA
43291245 GATTATGGAATTAGG
1 GATTATGGAATTAGG
43291260 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
43291274 GATT
1 GATT
43291278 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:43291432 original size:14 final size:14
Alignment explanation
Indices: 43291413--43291457 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
43291403 TAAATAAGAT
43291413 TTAGGGATTAGGGG
1 TTAGGGATTAGGGG
*
43291427 TTAGGGATT-TGGG
1 TTAGGGATTAGGGG
* *
43291440 TTAGGGTTTAGGGT
1 TTAGGGATTAGGGG
43291454 TTAG
1 TTAG
43291458 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTAGGGATTAGGGG
Found at i:43291442 original size:13 final size:13
Alignment explanation
Indices: 43291413--43291454 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
43291403 TAAATAAGAT
*
43291413 TTAGGGATTAGGGG
1 TTAGGGATT-TGGG
43291427 TTAGGGATTTGGG
1 TTAGGGATTTGGG
43291440 TTAGGG-TTTAGGG
1 TTAGGGATTT-GGG
43291453 TT
1 TT
43291455 TAGATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 3 0.12
13 14 0.54
14 9 0.35
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (13 bp):
TTAGGGATTTGGG
Found at i:43291519 original size:7 final size:7
Alignment explanation
Indices: 43291496--43291547 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
43291486 TAAATAAGGT
43291496 TTAGGGG
1 TTAGGGG
**
43291503 TTAGTAG
1 TTAGGGG
43291510 TTAGGGG
1 TTAGGGG
*
43291517 TTAGGGA
1 TTAGGGG
*
43291524 TTTGGGG
1 TTAGGGG
43291531 TTAGGGG
1 TTAGGGG
*
43291538 TTAGAGG
1 TTAGGGG
43291545 TTA
1 TTA
43291548 AGAGTTAGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:43291520 original size:21 final size:20
Alignment explanation
Indices: 43291496--43291555 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
43291486 TAAATAAGGT
43291496 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAG-AGTTAGGGG
* * *
43291517 TTAGGGATTTGGGGTTAGGGG
1 TTAGGG-GTTAGAGTTAGGGG
*
43291538 TTAGAGGTTAAGAGTTAG
1 TTAGGGGTT-AGAGTTAG
43291556 TGATTTAAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (20 bp):
TTAGGGGTTAGAGTTAGGGG
Found at i:43291674 original size:7 final size:7
Alignment explanation
Indices: 43291662--43291716 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
43291652 TGTAAAAGAA
43291662 GGGTTAG
1 GGGTTAG
43291669 GGGTTAG
1 GGGTTAG
* *
43291676 AGGTTAA
1 GGGTTAG
**
43291683 GAATTAG
1 GGGTTAG
*
43291690 GGATTAG
1 GGGTTAG
*
43291697 GGATTAG
1 GGGTTAG
43291704 GGGTTAG
1 GGGTTAG
43291711 GGGTTA
1 GGGTTA
43291717 TGGATGGTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:43295178 original size:19 final size:19
Alignment explanation
Indices: 43295131--43295264 Score: 178
Period size: 19 Copynumber: 6.8 Consensus size: 19
43295121 AAATTAAATC
*
43295131 TCTAAGATTACAAAATCATATA
1 TCTAAGATTAC-ATATC--ATA
*
43295153 TTCTAAGATTGCATATCATA
1 -TCTAAGATTACATATCATA
43295173 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
43295192 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
* *
43295211 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
*
43295230 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
43295249 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
43295265 CCTGAAGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 86 0.83
20 3 0.03
22 4 0.04
23 10 0.10
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:43295756 original size:44 final size:45
Alignment explanation
Indices: 43295708--43296020 Score: 123
Period size: 44 Copynumber: 7.1 Consensus size: 45
43295698 ACTACTGCTT
*
43295708 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * ***
43295752 AGGGA-AGTAAAAT-T--AATGGCTTCAATATACTCCACTGTAACCAC
1 AGGGAGA-TAAGATCTGAAAT--CTTCAATCTACTCCACTGTTGTCAC
* * * ** * * ** **
43295796 AGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
** *
43295840 AGGGAGATAAGATCTGAAATCTTCAATCTGTTCCACTGTTATC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * ***
43295884 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * * * * ** **
43295928 AGGGAGGTAAAATCCGACATCTTCGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * *
43295972 AGGGAGATAAGACCTGAAATCTTCAACCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
43296016 AGGGA
1 AGGGA
43296021 AGTAGAATTA
Statistics
Matches: 189, Mismatches: 60, Indels: 40
0.65 0.21 0.14
Matches are distributed among these distances:
41 3 0.02
42 2 0.01
43 42 0.22
44 105 0.56
45 32 0.17
46 3 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (45 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
Found at i:43295817 original size:132 final size:132
Alignment explanation
Indices: 43295593--43296222 Score: 1075
Period size: 132 Copynumber: 4.8 Consensus size: 132
43295583 TAGGACTTAC
* * *
43295593 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* *
43295656 GTAACCACAGGGATGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAC
43295721 CTGA
129 CTGA
* * *
43295725 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAAAATTAATGGCTTCAATATACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
43295790 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
43295855 GA
131 GA
* *
43295857 AATCTTCAATCTGTTCCACTGTTATCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
43295922 AACCACAGGGAGGTAAAATCCGACATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
43295987 GA
131 GA
*
43295989 AATCTTCAACCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
43296054 AACCACAGGGAGGTAAAATCCACCATATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
43296119 GA
131 GA
43296121 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
43296186 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
43296223 GTCGCTGTCA
Statistics
Matches: 471, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
132 469 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
GA
Found at i:43302546 original size:19 final size:19
Alignment explanation
Indices: 43302499--43302632 Score: 169
Period size: 19 Copynumber: 6.8 Consensus size: 19
43302489 AAATTAAATC
*
43302499 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
43302519 TTTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
*
43302541 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
43302560 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
43302579 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
43302598 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
43302617 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
43302633 CCTGAAGATT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
19 82 0.83
22 7 0.07
23 10 0.10
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:43302569 original size:38 final size:38
Alignment explanation
Indices: 43302522--43302625 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
43302512 AATCATATTT
43302522 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
43302560 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
43302598 TCTAAGATTACATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
43302626 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:43302583 original size:57 final size:57
Alignment explanation
Indices: 43302522--43302632 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
43302512 AATCATATTT
* *
43302522 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
43302579 TCTAAGATTATATATTATATCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTACATATCATATCTAAGATTGCATATC
43302633 CCTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (57 bp):
TCTAAGATTACATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:43305856 original size:12 final size:12
Alignment explanation
Indices: 43305841--43305866 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43305831 TTGTTTCAGG
43305841 TTGTGTTATTAA
1 TTGTGTTATTAA
43305853 TTGTGTTATTAA
1 TTGTGTTATTAA
43305865 TT
1 TT
43305867 TATTATTTTA
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:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTGTGTTATTAA
Found at i:43306207 original size:84 final size:84
Alignment explanation
Indices: 43306065--43306322 Score: 259
Period size: 84 Copynumber: 3.0 Consensus size: 84
43306055 TAAATTTTTT
* * * * * * *
43306065 TAAAGGTTATGTT-TTTAGCGGCGTTTTTGCGAGAAGCACCGCTAAAGGT-TTGTTCTTTAGCTG
1 TAAAGGTCATGTTCTTTAGCGGCG--TTTGTGACAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
*
43306128 CGTTTGTGATAAAAACGCCGC
64 CGTTTGTGACAAAAACGCCGC
* *
43306149 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGACAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
** *
43306214 TTTGTGACAAAAGTGTCGC
66 TTTGTGACAAAAACGCCGC
* ** * * *
43306233 TAAAGGTCATGATCTTTAGCAACGTTTTTGACTAAAGAGCCGCTAAATGTCATGATCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC--AAGCGCCGCTAAAGGTCATGATCTTTAGCGG
* * * *
43306298 CGTTTTTCACATAAATGCCGC
64 CGTTTGTGACAAAAACGCCGC
43306319 TAAA
1 TAAA
43306323 TTTAGCGGCA
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
83 21 0.15
84 66 0.46
85 9 0.06
86 48 0.33
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
TTTGTGACAAAAACGCCGC
Found at i:43306304 original size:43 final size:43
Alignment explanation
Indices: 43306065--43306302 Score: 229
Period size: 43 Copynumber: 5.6 Consensus size: 43
43306055 TAAATTTTTT
* * * *
43306065 TAAAGGTTATG-TTTTTAGCGGCGTTTTTG-CGAGAAGCA-CCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTA-AAG-AGCCGC
* * * *
43306107 TAAAGGT-TTGTTCTTTAGCTGCGTTTGTGA-TAAAAACGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGA-GCCGC
* * *
43306149 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGAC--AAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGAGCCGC
* * * *
43306190 TAAAGGTCATGACCTTTAGCGGCGTTTGTGACAAAAGTGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGAGCCGC
** *
43306233 TAAAGGTCATGATCTTTAGCAACGTTTTTGACTAAAGAGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGAGCCGC
*
43306276 TAAATGTCATGATCTTTAGCGGCGTTT
1 TAAAGGTCATGATCTTTAGCGGCGTTT
43306303 TTCACATAAA
Statistics
Matches: 162, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 38 0.23
42 36 0.22
43 87 0.54
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGAGCCGC
Found at i:43306953 original size:13 final size:13
Alignment explanation
Indices: 43306932--43306962 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43306922 TTAGTCTGTT
*
43306932 ACACAGCTTGGCG
1 ACACGGCTTGGCG
43306945 ACACGGCTTGGCG
1 ACACGGCTTGGCG
43306958 ACACG
1 ACACG
43306963 ACCATGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.13
Consensus pattern (13 bp):
ACACGGCTTGGCG
Found at i:43311297 original size:20 final size:21
Alignment explanation
Indices: 43311274--43311329 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
43311264 GTGAACAGGG
43311274 GCACCAAAGTGCAAA-TAGT-A
1 GCACCAAAGTGCAAAGTA-TAA
*
43311294 GCACCGAAGTGCAAAGTATAA
1 GCACCAAAGTGCAAAGTATAA
43311315 GCACCAAAGTGCAAA
1 GCACCAAAGTGCAAA
43311330 CCCGTACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (21 bp):
GCACCAAAGTGCAAAGTATAA
Found at i:43321030 original size:15 final size:15
Alignment explanation
Indices: 43321012--43321043 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43321002 GCAAGTAGTG
43321012 GTTATTAGAGTAGCA
1 GTTATTAGAGTAGCA
43321027 GTTATTAGAGTAGCA
1 GTTATTAGAGTAGCA
43321042 GT
1 GT
43321044 CTAACTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (15 bp):
GTTATTAGAGTAGCA
Found at i:43322197 original size:29 final size:29
Alignment explanation
Indices: 43322155--43322214 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
43322145 GCTAACATGA
43322155 TTTATTTCTATATATTACGTATACCCTTT
1 TTTATTTCTATATATTACGTATACCCTTT
*
43322184 TTTATTTCTATATATTACGTATATCCTTT
1 TTTATTTCTATATATTACGTATACCCTTT
43322213 TT
1 TT
43322215 CAATAGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATTTCTATATATTACGTATACCCTTT
Found at i:43322728 original size:159 final size:159
Alignment explanation
Indices: 43322329--43322903 Score: 933
Period size: 159 Copynumber: 3.6 Consensus size: 159
43322319 ACTTCAAAAC
* *
43322329 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCAGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
* *
43322394 GCTTT-TAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
*
43322458 AATGTATTAATTTAGCGT-TTTTTAATAT
131 AATGTATTAATTTAGTGTGTTTTTAATAT
* *
43322486 AAATTTAGTAAAAAACCCTTCTTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAGTTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
*
43322551 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
*
43322616 CATGTATTAATTTAGTGTGTTTTGT-ATAT
131 AATGTATTAATTTAGTGTGTTTT-TAATAT
43322645 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
*
43322710 ACTTTCAAAAAATATACTATTTTCGTGTTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* *
43322775 AATGTATTATTTTAGTGTGTTTTTTAAAAT
131 AATGTATTAATTTAGTGTG-TTTTTAATAT
* *
43322805 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTT-TCAGATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTAT
** * *
43322869 TACTTTCAGTAAATATACTATTTTCATTTTTTATT
65 TACTTTCAAAAAATATACTATTTTCGTATTTTATT
43322904 TCTTTTCGTA
Statistics
Matches: 390, Mismatches: 22, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
157 65 0.17
158 73 0.19
159 152 0.39
160 58 0.15
161 42 0.11
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
AATGTATTAATTTAGTGTGTTTTTAATAT
Found at i:43322977 original size:317 final size:313
Alignment explanation
Indices: 43322331--43322903 Score: 916
Period size: 317 Copynumber: 1.8 Consensus size: 313
43322321 TTCAAAACAA
* *
43322331 ATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCAGATTTTATTGC
1 ATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCAAATTTTATTAC
*
43322396 TTTTAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAAT
66 TTTAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAAT
* *
43322461 GTATTAATTTAGCGTTTTTTAATATAAATTTAGTAAAAAACCCTTCTTTTGGCCCTTTGTTCGTA
131 GTATTAATTTAGCGTTTTTTAAAATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTA
* *
43322526 TTTTTCTTTTTTCTCAAGTTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTA
196 TTTTTCTTATTTCTCAAGTTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTA
* *
43322591 TATTATTTTAGTACATAATGTTTGACATGTATTAATTTAGTGTGTTTTGTATAT
261 TATTATTTTAGTAAACAATGTTTGACATGTATT-ATTTAGTGTGTTTTGTATAT
*
43322645 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
1 --ATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCAAATTTTATT
*
43322710 ACTTTCAAAAAATATACTATTTTCGTGTTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
64 ACTTT-AAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* *
43322775 AATGTATTATTTTAGTGTGTTTTTTAAAATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTG
128 AATGTATTAATTTA--GCGTTTTTTAAAATAAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTG
** *
43322840 TTCGTATTTTTCTTATTT-TC-AGATTTTATTACTTTCAGTAAATATACTATTTTCATTTTTTAT
190 TTCGTATTTTTCTTATTTCTCAAG-TTTTATTACTTTCAAAAAATATACTATTTTCATATTTTAT
43322903 T
254 T
43322904 TCTTTTCGTA
Statistics
Matches: 238, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
316 65 0.27
317 70 0.29
318 2 0.01
319 60 0.25
320 41 0.17
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (313 bp):
ATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCAAATTTTATTAC
TTTAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAAT
GTATTAATTTAGCGTTTTTTAAAATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTA
TTTTTCTTATTTCTCAAGTTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTA
TATTATTTTAGTAAACAATGTTTGACATGTATTATTTAGTGTGTTTTGTATAT
Found at i:43323081 original size:19 final size:20
Alignment explanation
Indices: 43323057--43323095 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43323047 TTTTTTAGAC
43323057 AAATAATA-CAAAAAAATTA
1 AAATAATACCAAAAAAATTA
*
43323076 AAATAATACCAACAAAATTA
1 AAATAATACCAAAAAAATTA
43323096 CCTTTCCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAATACCAAAAAAATTA
Found at i:43323153 original size:6 final size:6
Alignment explanation
Indices: 43323136--43323212 Score: 75
Period size: 6 Copynumber: 12.5 Consensus size: 6
43323126 TTCCCTCCCT
* * * *
43323136 CTTCTT CTTCTC CTTCTC TTTCTC TTTTTC CTGTGCCTC CTTCTC CTTCTC
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CT-T--CTC CTTCTC CTTCTC
*
43323187 CTTCTC CTTCTT CTTCTC CTT-TC CTT
1 CTTCTC CTTCTC CTTCTC CTTCTC CTT
43323213 TTCTTTCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
5 5 0.08
6 50 0.82
7 1 0.02
8 1 0.02
9 4 0.07
ACGTcount: A:0.00, C:0.42, G:0.03, T:0.56
Consensus pattern (6 bp):
CTTCTC
Found at i:43323222 original size:60 final size:56
Alignment explanation
Indices: 43323136--43323281 Score: 136
Period size: 60 Copynumber: 2.5 Consensus size: 56
43323126 TTCCCTCCCT
43323136 CTTCTTCTTCTCCTT-CTCTTTC-TCTTTTTCCTGTGC-CTCCTTCTCCTTCTCCTTCTC
1 CTTCTTCTTCTCCTTCCT-TTTCTTCTTTTT-CT-TGCTCTCCTT-TCCTTCTCCTTCTC
* * * *
43323193 CTTCTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTTTCCTTTTCTTTCTT
1 CTTCTTCTTCTCC-TTCCTTTTC-TTCTTTTTCTTGC-TCTCCTTTCCTTCTCCTTCTC
*
43323252 TTTCTTTCTTCTCCATTCCTTTTCTATCTT
1 CTTC-TTCTTCTCC-TTCCTTTTCT-TCTT
43323282 CTCCTTCAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
57 13 0.17
58 8 0.11
59 19 0.25
60 35 0.47
ACGTcount: A:0.01, C:0.36, G:0.01, T:0.62
Consensus pattern (56 bp):
CTTCTTCTTCTCCTTCCTTTTCTTCTTTTTCTTGCTCTCCTTTCCTTCTCCTTCTC
Found at i:43323224 original size:10 final size:10
Alignment explanation
Indices: 43323205--43323261 Score: 78
Period size: 10 Copynumber: 5.7 Consensus size: 10
43323195 TCTTCTTCTC
*
43323205 CTTTCCTTTT
1 CTTTCTTTTT
43323215 CTTTCTTTTT
1 CTTTCTTTTT
* *
43323225 CTTTCTTCTC
1 CTTTCTTTTT
*
43323235 CTTTCCTTTT
1 CTTTCTTTTT
43323245 CTTTCTTTTT
1 CTTTCTTTTT
43323255 CTTTCTT
1 CTTTCTT
43323262 CTCCATTCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:43323228 original size:20 final size:20
Alignment explanation
Indices: 43323205--43323281 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
43323195 TCTTCTTCTC
43323205 CTTTCCTTTTCTTTCTTTTT
1 CTTTCCTTTTCTTTCTTTTT
* *
43323225 CTTT-CTTCTCCTTTCCTTTT
1 CTTTCCTT-TTCTTTCTTTTT
* * *
43323245 CTTTCTTTTTCTTTCTTCTC
1 CTTTCCTTTTCTTTCTTTTT
* *
43323265 CATTCCTTTTCTATCTT
1 CTTTCCTTTTCTTTCTT
43323282 CTCCTTCAGC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.89
21 2 0.04
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTTCCTTTTCTTTCTTTTT
Found at i:43323231 original size:30 final size:30
Alignment explanation
Indices: 43323197--43323281 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
43323187 CTTCTCCTTC
43323197 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
1 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
43323227 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
1 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
* *
43323257 TTCTTCTCCATTCCTTTTCTATCTT
1 TTCTTCTCCTTTCCTTTTCTTTCTT
43323282 CTCCTTCAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
Found at i:43327080 original size:14 final size:14
Alignment explanation
Indices: 43327042--43327084 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
43327032 TAAAATGTAA
43327042 AATATAATTAAA-T
1 AATATAATTAAATT
43327055 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
43327070 AA-ATAATTTAATT
1 AATATAATTAAATT
43327083 AA
1 AA
43327085 CTGTTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:43329559 original size:3 final size:3
Alignment explanation
Indices: 43329544--43329639 Score: 93
Period size: 3 Copynumber: 32.0 Consensus size: 3
43329534 TAAAACAATT
* **
43329544 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TGG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * ** * *
43329592 TAA TAA TGA TGA TGA TGA TGG TAT TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43329640 AAATCTTAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43330703 original size:5 final size:5
Alignment explanation
Indices: 43330693--43330720 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43330683 CTTTCAGTCT
43330693 TTTAC TTTAC TTTAC TTTAC TTTAC TTT
1 TTTAC TTTAC TTTAC TTTAC TTTAC TTT
43330721 GTTTTGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAC
Found at i:43336929 original size:16 final size:16
Alignment explanation
Indices: 43336908--43336938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43336898 GAAGAACTTC
43336908 TATTTTTATAAGATTA
1 TATTTTTATAAGATTA
*
43336924 TATTTTTATGAGATT
1 TATTTTTATAAGATT
43336939 TCTATGAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TATTTTTATAAGATTA
Found at i:43346647 original size:29 final size:29
Alignment explanation
Indices: 43346605--43346801 Score: 227
Period size: 29 Copynumber: 6.8 Consensus size: 29
43346595 GTGCTAAACA
* * *
43346605 ATGGTTGTAACCATCCCTTTCCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
* *
43346634 ATGGTCATCACCATCCTTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
43346663 ATGGTCGTCACCATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
* * *
43346692 ATGGTCGTAACCATACCTTTTCATCAATC-
1 ATGGTCGTCACCATCCCTTTTCAT-ATTCG
*
43346721 AGTGGTCGTCACCATCGCTTTTCATAGTT-G
1 A-TGGTCGTCACCATCCCTTTTCATA-TTCG
*
43346751 ATGGTCGTCACCATCCCTTTTCATAGTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
* ** *
43346780 ATAGTCGAAACTATCCCTTTTC
1 ATGGTCGTCACCATCCCTTTTC
43346802 TTTAATCGAT
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
28 1 0.01
29 117 0.82
30 25 0.17
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATATTCG
Found at i:43346754 original size:88 final size:87
Alignment explanation
Indices: 43346605--43346812 Score: 260
Period size: 88 Copynumber: 2.4 Consensus size: 87
43346595 GTGCTAAACA
* * *
43346605 ATGGTTGTAACCATCCCTTTCCATATTCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCG
1 ATGGTCGTAACCATCCCTTTTCATAATCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCG
*
43346670 TCACCATCCCTTTTCATATTCG
66 TCACCATCCCTTTTCATAGTCG
* *
43346692 ATGGTCGTAACCATACCTTTTCATCAATC-AGTGGTCGTCACCATCGC-TTTTCATAGTT-GATG
1 ATGGTCGTAACCATCCCTTTTCAT-AATCGA-TGGTCATCACCATC-CTTTTTCATA-TTCGATG
43346754 GTCGTCACCATCCCTTTTCATAGTCG
62 GTCGTCACCATCCCTTTTCATAGTCG
* * * *
43346780 ATAGTCGAAACTATCCCTTTTCTTTAATCGATG
1 ATGGTCGTAACCATCCCTTTTC-ATAATCGATG
43346813 CTGGACGATA
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
87 22 0.21
88 77 0.74
89 5 0.05
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (87 bp):
ATGGTCGTAACCATCCCTTTTCATAATCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCG
TCACCATCCCTTTTCATAGTCG
Found at i:43350093 original size:27 final size:27
Alignment explanation
Indices: 43350021--43350099 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
43350011 AGGTATAACA
* *
43350021 GTCACTTTACCCTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
43350048 ATCATTTTAACCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
43350075 GTCATTTTACCCTATGGGGGCATTT
1 GTCATTTTACCCTATGGGGGTATTT
43350100 ATATCATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:43354652 original size:58 final size:58
Alignment explanation
Indices: 43354552--43354793 Score: 247
Period size: 58 Copynumber: 4.2 Consensus size: 58
43354542 GTGTGTTAAA
* * *
43354552 CGATGGTCGTAACCATCCTTTTTCATA-TTCGATGGTCGTCACCATCCATTTTCATATT
1 CGATGGTCGTCACCATCCTTTTTCATAGTT-GATAGTCGTCACCATCCCTTTTCATATT
* * *
43354610 CGATGGTCGTCACCATCCTTTTTCATATTTGATAGTCTTCACCATCCCTTTTCATCAAT
1 CGATGGTCGTCACCATCCTTTTTCATAGTTGATAGTCGTCACCATCCCTTTTCAT-ATT
* * * * ** * *
43354669 CGGTAGTTGTCACCATCGC-TTTTCATAGTTGATAGCCGAAACTATCTCTTTTCATATAT
1 CGATGGTCGTCACCATC-CTTTTTCATAGTTGATAGTCGTCACCATCCCTTTTCATAT-T
* * * * *
43354728 -GATGGTCGTCACCATCCGTTTTCATAGTTGATGGTCATCACCATCCCCTTTCATAGT
1 CGATGGTCGTCACCATCCTTTTTCATAGTTGATAGTCGTCACCATCCCTTTTCATATT
*
43354785 CGATAGTCG
1 CGATGGTCG
43354794 AAACTATCCC
Statistics
Matches: 149, Mismatches: 29, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
57 2 0.01
58 98 0.66
59 48 0.32
60 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (58 bp):
CGATGGTCGTCACCATCCTTTTTCATAGTTGATAGTCGTCACCATCCCTTTTCATATT
Found at i:43354682 original size:30 final size:29
Alignment explanation
Indices: 43354552--43354808 Score: 214
Period size: 29 Copynumber: 8.8 Consensus size: 29
43354542 GTGTGTTAAA
* * *
43354552 CGATGGTCGTAACCATCCTTTTTCATATT
1 CGATAGTCGTCACCATCCCTTTTCATATT
* *
43354581 CGATGGTCGTCACCATCCATTTTCATATT
1 CGATAGTCGTCACCATCCCTTTTCATATT
* *
43354610 CGATGGTCGTCACCATCCTTTTTCATATT
1 CGATAGTCGTCACCATCCCTTTTCATATT
* * *
43354639 TGATAGTCTTCACCATCCCTTTTCATCAAT
1 CGATAGTCGTCACCATCCCTTTTCAT-ATT
* * *
43354669 CGGTAGTTGTCACCATCGCTTTTCATAGTT
1 CGATAGTCGTCACCATCCCTTTTCATA-TT
* ** * *
43354699 -GATAGCCGAAACTATCTCTTTTCATATAT
1 CGATAGTCGTCACCATCCCTTTTCATAT-T
* *
43354728 -GATGGTCGTCACCATCCGTTTTCATAGTT
1 CGATAGTCGTCACCATCCCTTTTCATA-TT
* * * *
43354757 -GATGGTCATCACCATCCCCTTTCATAGT
1 CGATAGTCGTCACCATCCCTTTTCATATT
** *
43354785 CGATAGTCGAAACTATCCCTTTTC
1 CGATAGTCGTCACCATCCCTTTTC
43354809 TTTAATTGAT
Statistics
Matches: 185, Mismatches: 38, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
28 2 0.01
29 158 0.85
30 25 0.14
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATAGTCGTCACCATCCCTTTTCATATT
Found at i:43354818 original size:117 final size:117
Alignment explanation
Indices: 43354600--43354818 Score: 280
Period size: 117 Copynumber: 1.9 Consensus size: 117
43354590 TCACCATCCA
* * * *
43354600 TTTTCATATTCGATGGTCGTCACCATCCTTTTTCATATTTGATAGTCTTCACCATCCCTTTTCAT
1 TTTTCATATTCGATGGTCGTCACCATCCGTTTTCATAGTTGATAGTCATCACCATCCCCTTTCAT
* * ** * *
43354665 CAATCGGTAGTTGTCACCATCGCTTTTCATAGTTGATAGCCGAAACTATCTC
66 CAATCGATAGTCGAAACCATCCCTTTTCATAATTGATAGCCGAAACTATCTC
*
43354717 TTTTCATATAT-GATGGTCGTCACCATCCGTTTTCATAGTTGATGGTCATCACCATCCCCTTTCA
1 TTTTCATAT-TCGATGGTCGTCACCATCCGTTTTCATAGTTGATAGTCATCACCATCCCCTTTCA
* * *
43354781 T-AGTCGATAGTCGAAACTATCCCTTTTCTTTAATTGAT
65 TCAATCGATAGTCGAAACCATCCCTTTTC-ATAATTGAT
43354819 GCTCGTCGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
116 20 0.23
117 65 0.76
118 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (117 bp):
TTTTCATATTCGATGGTCGTCACCATCCGTTTTCATAGTTGATAGTCATCACCATCCCCTTTCAT
CAATCGATAGTCGAAACCATCCCTTTTCATAATTGATAGCCGAAACTATCTC
Found at i:43355044 original size:23 final size:23
Alignment explanation
Indices: 43355016--43355063 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
43355006 TCTAAATTAA
43355016 TAAGTTTATTCAATATATTAATT
1 TAAGTTTATTCAATATATTAATT
*
43355039 TAAGTTTATTCAATCTATTAATT
1 TAAGTTTATTCAATATATTAATT
43355062 TA
1 TA
43355064 GATATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (23 bp):
TAAGTTTATTCAATATATTAATT
Found at i:43361161 original size:42 final size:43
Alignment explanation
Indices: 43361081--43361194 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 43
43361071 CGTTTTCTCT
* * **
43361081 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATAT-TG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATGCACATATCTG
*
43361123 ATGCCATAGCCCAGCTATGGTCTTACATAGTA-GCACATATCACACTG
1 ATGCCATAGCCCAGCTATGGTCTTACACA-TATGCACATAT----CTG
* *
43361170 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTA
43361195 TACGGAAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
42 32 0.54
43 2 0.03
47 25 0.42
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATGCACATATCTG
Found at i:43362501 original size:43 final size:43
Alignment explanation
Indices: 43362452--43362807 Score: 358
Period size: 43 Copynumber: 8.3 Consensus size: 43
43362442 TTTAGAAAAG
*
43362452 AACGCCACTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* * *
43362495 AACGCCACTAAAGAACAAGACCTTTAG-AGTCGCTTTACCCACA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAG-CGCTTTTCCCACA
* * *
43362538 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACACACA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* * *
43362581 AACGTCGATAAAGACCAAGACCTTTAGCAGCGCTTTTCCCAAA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* * * * * * *
43362624 AATGTCGCTATAGACCATGACCTTTAACAGCGCTTTTCTCGCA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* * * *
43362667 AACGCCGCTAAAGACTATGACATTTAGC-GACGCTTTTTCCACA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAG-CGCTTTTCCCACA
* * * * * **
43362710 AACGCTGCTAAAGATCATGAACTTTTAGCGGCGCTTTTATCACA
1 AACGCCGCTAAAGACCAAG-ACCTTTAGCAGCGCTTTTCCCACA
* * * * *
43362754 AACGCCGCTAAAGAACAA-ACCTTTAGCGGCGCTTATCACAAA
1 AACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
*
43362796 AATGCCGCTAAA
1 AACGCCGCTAAA
43362808 AATATAACCT
Statistics
Matches: 264, Mismatches: 44, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
42 33 0.12
43 195 0.74
44 35 0.13
45 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (43 bp):
AACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
Found at i:43365506 original size:20 final size:21
Alignment explanation
Indices: 43365481--43365523 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43365471 TTTTGGATGT
43365481 GGGAAA-TTAGGGATTTCGGG
1 GGGAAAGTTAGGGATTTCGGG
*
43365501 GGGAAAGTTGGGGATTTCGGG
1 GGGAAAGTTAGGGATTTCGGG
43365522 GG
1 GG
43365524 AAGGGGGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.21, C:0.05, G:0.51, T:0.23
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTCGGG
Found at i:43365533 original size:20 final size:21
Alignment explanation
Indices: 43365490--43365534 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
43365480 TGGGAAATTA
**
43365490 GGGATTTCGGGGGGAAAGTTG
1 GGGATTTCGGGGGGAAAGGGG
*
43365511 GGGATTTC-GGGGGAAGGGGG
1 GGGATTTCGGGGGGAAAGGGG
43365531 GGGA
1 GGGA
43365535 GAGAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.18, C:0.04, G:0.60, T:0.18
Consensus pattern (21 bp):
GGGATTTCGGGGGGAAAGGGG
Found at i:43366536 original size:7 final size:7
Alignment explanation
Indices: 43366524--43366549 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43366514 ATTAATTAAT
43366524 CTAAATC
1 CTAAATC
43366531 CTAAATC
1 CTAAATC
43366538 CTAAATC
1 CTAAATC
43366545 CTAAA
1 CTAAA
43366550 CTCTAACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAAATC
Found at i:43366555 original size:14 final size:13
Alignment explanation
Indices: 43366521--43366555 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
43366511 AATATTAATT
43366521 AATCTAAATCCTA
1 AATCTAAATCCTA
43366534 AATCCTAAATCCTA
1 AAT-CTAAATCCTA
43366548 AACTCTAA
1 AA-TCTAA
43366556 CTCGACCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (13 bp):
AATCTAAATCCTA
Found at i:43366566 original size:32 final size:32
Alignment explanation
Indices: 43366530--43366603 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 32
43366520 TAATCTAAAT
* *
43366530 CCTAAATCCTAAATCC-TAAACTCTAACTCGAC
1 CCTAAATCCT-AATCCTTAAACCCTAACCCGAC
43366562 CCTAAATTCCTAATCCTTAAACCCTAACCCGAC
1 CCTAAA-TCCTAATCCTTAAACCCTAACCCGAC
43366595 CCTAAATCC
1 CCTAAATCC
43366604 ATAACCCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 14 0.37
33 24 0.63
ACGTcount: A:0.35, C:0.38, G:0.03, T:0.24
Consensus pattern (32 bp):
CCTAAATCCTAATCCTTAAACCCTAACCCGAC
Found at i:43366616 original size:33 final size:32
Alignment explanation
Indices: 43366530--43366616 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
43366520 TAATCTAAAT
* * *
43366530 CCTAAATCCTAAATCCTAAACTCTAACTCGAC
1 CCTAAATCCTAAACCCTAAACCCTAACCCGAC
* *
43366562 CCTAAATTCCTAATCCTTAAACCCTAACCCGAC
1 CCTAAA-TCCTAAACCCTAAACCCTAACCCGAC
*
43366595 CCTAAATCCATAACCCCTAAAC
1 CCTAAATCC-TAAACCCTAAAC
43366617 ATTATTTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
32 9 0.20
33 37 0.80
ACGTcount: A:0.37, C:0.38, G:0.02, T:0.23
Consensus pattern (32 bp):
CCTAAATCCTAAACCCTAAACCCTAACCCGAC
Found at i:43367530 original size:41 final size:41
Alignment explanation
Indices: 43367471--43367753 Score: 404
Period size: 41 Copynumber: 6.9 Consensus size: 41
43367461 TTTTATTATT
* * * * *
43367471 ATTAGTGGCACTTTTTCAAAAACGCAGCTAAAGGCCTGATC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
43367512 ATTAGCGGCGCTTATTCAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
43367553 ATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
43367594 ATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
43367635 ATTAGCGGCGCCTTTTCAAAAACACCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
43367676 ATTAGCAGCTCTTTTTCAAAATCGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
43367717 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAATGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
43367754 CAAAAACTTA
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 217 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:43373942 original size:4 final size:4
Alignment explanation
Indices: 43373933--43373992 Score: 54
Period size: 4 Copynumber: 14.8 Consensus size: 4
43373923 AATTTTTATT
*
43373933 TTTA TTTA TTTA TTTA TTTA TAT- TTTA TTTTA CTTTA TTT- TATTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA T-TTA TTTA
43373982 -TTA TTTTA TTT
1 TTTA -TTTA TTT
43373993 TTGGATGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
3 6 0.13
4 29 0.62
5 12 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:43373959 original size:29 final size:31
Alignment explanation
Indices: 43373926--43373994 Score: 101
Period size: 29 Copynumber: 2.3 Consensus size: 31
43373916 GCAACCCAAT
43373926 TTTTATTTTTA-TTTA-TTTATTTATTTA-TA
1 TTTTATTTTTACTTTATTTTA-TTATTTATTA
43373955 TTTTA-TTTTACTTTATTTTATTATTTATTA
1 TTTTATTTTTACTTTATTTTATTATTTATTA
43373985 TTTTATTTTT
1 TTTTATTTTT
43373995 GGATGTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 5 0.14
29 16 0.44
30 11 0.31
31 4 0.11
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTTATTTTTACTTTATTTTATTATTTATTA
Found at i:43373961 original size:15 final size:15
Alignment explanation
Indices: 43373941--43373992 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
43373931 TTTTTATTTA
43373941 TTTATTTATTTATAT
1 TTTATTTATTTATAT
*
43373956 TTTATTTTACTT-TAT
1 TTTA-TTTATTTATAT
43373971 TTTA-TTATTTATTAT
1 TTTATTTATTTA-TAT
43373986 TTTATTT
1 TTTATTT
43373993 TTGGATGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 5 0.16
15 18 0.58
16 8 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTATTTATAT
Found at i:43375235 original size:25 final size:25
Alignment explanation
Indices: 43375174--43375222 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
43375164 GGCTCATGAG
* * *
43375174 AGCTTACTGATTCTCAGCTCGTATA
1 AGCTTACCGATTCTCAACTCATATA
43375199 AGCTTACCGATTCTCAACTCATAT
1 AGCTTACCGATTCTCAACTCATAT
43375223 GAGTTTATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (25 bp):
AGCTTACCGATTCTCAACTCATATA
Found at i:43383126 original size:36 final size:36
Alignment explanation
Indices: 43383045--43383114 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
43383035 TGTGAAAAAG
* * * *
43383045 AATATGTGGGTATGTTATTCATGCCATGTGATAGTA
1 AATATATGAGTATGTTATTCATACCATGTGACAGTA
*
43383081 AATATATGAGTATGTT-TTTATACCATGTGACAGT
1 AATATATGAGTATGTTATTCATACCATGTGACAGT
43383115 GATTATAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (36 bp):
AATATATGAGTATGTTATTCATACCATGTGACAGTA
Found at i:43387493 original size:13 final size:13
Alignment explanation
Indices: 43387475--43387500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43387465 TGGTTTGTGA
43387475 AAAAAAAATTTCG
1 AAAAAAAATTTCG
43387488 AAAAAAAATTTCG
1 AAAAAAAATTTCG
43387501 TGCATAAAAA
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAAAAATTTCG
Found at i:43388723 original size:18 final size:18
Alignment explanation
Indices: 43388702--43388736 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43388692 GATTGAGAGT
43388702 GAAAA-AAAATGTGAAAAC
1 GAAAAGAAAAT-TGAAAAC
43388720 GAAAAGAAAATTGAAAA
1 GAAAAGAAAATTGAAAA
43388737 AAAGATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.11
Consensus pattern (18 bp):
GAAAAGAAAATTGAAAAC
Found at i:43392342 original size:262 final size:262
Alignment explanation
Indices: 43391877--43392390 Score: 929
Period size: 262 Copynumber: 2.0 Consensus size: 262
43391867 GACGATCAGA
*
43391877 CAACTACGTGAAACGACTCGATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
1 CAACTACGTGAAACGACTCAATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
* *
43391942 TAAAACCAAAGATGAATCCTTTAATAGAGATACAGCACATTTTACACACTCTGACGATGAACAAG
66 TAAAACCAAAGATGAATCCTTTAATAGAGATACAACACATTTTACACACTCTGACAATGAACAAG
*
43392007 ATAACTCGTCGAAAACTCAGATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
131 ATAACTCATCGAAAACTCAGATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
*
43392072 AGCTCTAAATATTTCAACTCCATATTTGTGAATTTTATCAACTGGCAGTTTATTAATGTGCATCG
196 AGCTCTAAATATTTCAACTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAATGTGCATCG
43392137 AG
261 AG
* *
43392139 CAACTACGTGAAATGACTCAATCAACCTGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
1 CAACTACGTGAAACGACTCAATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
* *
43392204 TAAAACCAAAGATGAATCTTTTAATAGAGATACAACACATTTTACACACTCTGGCAATGAACAAG
66 TAAAACCAAAGATGAATCCTTTAATAGAGATACAACACATTTTACACACTCTGACAATGAACAAG
*
43392269 ATAACTCATCGAAAACTCTGATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
131 ATAACTCATCGAAAACTCAGATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
*
43392334 AGCTCTAAATATTTCAGCTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAAT
196 AGCTCTAAATATTTCAACTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAAT
43392391 TCGCATTGGT
Statistics
Matches: 241, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
262 241 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (262 bp):
CAACTACGTGAAACGACTCAATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
TAAAACCAAAGATGAATCCTTTAATAGAGATACAACACATTTTACACACTCTGACAATGAACAAG
ATAACTCATCGAAAACTCAGATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
AGCTCTAAATATTTCAACTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAATGTGCATCG
AG
Found at i:43393815 original size:15 final size:15
Alignment explanation
Indices: 43393783--43393820 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43393773 TAAAGGACTT
43393783 AAGGATTAATGCATGA
1 AAGG-TTAATGCATGA
43393799 AAGGTTAATCGCA-GA
1 AAGGTTAAT-GCATGA
43393814 AAGGTTA
1 AAGGTTA
43393821 TGTCGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (15 bp):
AAGGTTAATGCATGA
Found at i:43394682 original size:30 final size:30
Alignment explanation
Indices: 43394646--43394710 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
43394636 ATTCCCAACA
*
43394646 CGTGTGACTCACACAACTGAAACACGCGAC
1 CGTGTGACTCACACAACTGAAACACACGAC
** *
43394676 CGTGTGACTCACACGGCTGAGACACACGAC
1 CGTGTGACTCACACAACTGAAACACACGAC
43394706 CGTGT
1 CGTGT
43394711 CTTAAGCCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (30 bp):
CGTGTGACTCACACAACTGAAACACACGAC
Found at i:43395890 original size:29 final size:29
Alignment explanation
Indices: 43395848--43396015 Score: 169
Period size: 29 Copynumber: 5.8 Consensus size: 29
43395838 GTGTGTTAAT
* *
43395848 GATGGTCGTAACCACCCCTTTTCATATTC
1 GATGGTCGTCACCATCCCTTTTCATATTC
*
43395877 GATGGTCGTCACCATCCCTTTTCATTAATC
1 GATGGTCGTCACCATCCCTTTTCA-TATTC
* * *
43395907 GATGATCGTCACTATCCCTTTTTATAGTT-
1 GATGGTCGTCACCATCCCTTTTCATA-TTC
*
43395936 GATGGTCATCACCATCCCTTTTCATAGTT-
1 GATGGTCGTCACCATCCCTTTTCATA-TTC
* * *
43395965 AATGGTCGTCACCATCCCTTTTTATAGTC
1 GATGGTCGTCACCATCCCTTTTCATATTC
* ** *
43395994 GATAGTCGAAACTATCCCTTTT
1 GATGGTCGTCACCATCCCTTTT
43396016 AGCATTTAGT
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 89 0.77
30 26 0.22
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATATTC
Found at i:43397376 original size:11 final size:11
Alignment explanation
Indices: 43397353--43397386 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43397343 TTACTATTAT
43397353 TATAACTATATA
1 TATAAC-ATATA
43397365 TATAACATATA
1 TATAACATATA
*
43397376 TATAATATATA
1 TATAACATATA
43397387 CATACACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (11 bp):
TATAACATATA
Found at i:43399964 original size:25 final size:24
Alignment explanation
Indices: 43399936--43399993 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
43399926 TAAACAAAAT
43399936 ATAAAAAAACTAAAAATAAATAACA
1 ATAAAAAAACTAAAAATAAATAA-A
* * * *
43399961 ATAAAACAATTTAAAATAAATAAT
1 ATAAAAAAACTAAAAATAAATAAA
43399985 ATAAAAAAA
1 ATAAAAAAA
43399994 TAACATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (24 bp):
ATAAAAAAACTAAAAATAAATAAA
Found at i:43399980 original size:40 final size:41
Alignment explanation
Indices: 43399936--43400032 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 41
43399926 TAAACAAAAT
43399936 ATAAAAAAACTA-AAAATAAATAACA-ATAAAACA-ATTTAAA
1 ATAAAAAAA-TATAAAA-AAATAACATATAAAACAGATTTAAA
* *
43399976 AT-AAATAATATAAAAAAATAACATATAAAACAGTTTTAAA
1 ATAAAAAAATATAAAAAAATAACATATAAAACAGATTTAAA
* * *
43400016 ATATATATATATAAAAA
1 ATAAAAAAATATAAAAA
43400033 TTTGAAAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 10 0.21
39 17 0.36
40 10 0.21
41 10 0.21
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (41 bp):
ATAAAAAAATATAAAAAAATAACATATAAAACAGATTTAAA
Found at i:43400033 original size:39 final size:38
Alignment explanation
Indices: 43399835--43400032 Score: 120
Period size: 44 Copynumber: 5.1 Consensus size: 38
43399825 AAAACGAAAC
* *
43399835 AAAATAATATATAAAACAATTTAAAGTAAATAATAGTTTAAA
1 AAAATAACA-ATAAAACAATTTAAAATAAATAATA---TAAA
* * *
43399877 ATAAATGACTTATAAGAACAATTCAAAATAAATAATA-AAA
1 A-AAATAAC-AATAA-AACAATTTAAAATAAATAATATAAA
*** * * *
43399917 ATTTTCA-AATAAACAAAATATAAAA-AAACT-A-A-AAA
1 AAAATAACAATAAA-ACAATTTAAAATAAA-TAATATAAA
*
43399952 TAAATAACAATAAAACAATTTAAAATAAATAATATAAA
1 AAAATAACAATAAAACAATTTAAAATAAATAATATAAA
* *
43399990 AAAATAACATATAAAACAGTTTTAAAATATATATATATAAA
1 AAAATAACA-ATAAAACA-ATTTAAAATAAATA-ATATAAA
43400031 AA
1 AA
43400033 TTTGAAAGAT
Statistics
Matches: 120, Mismatches: 23, Indels: 27
0.71 0.14 0.16
Matches are distributed among these distances:
35 16 0.13
36 15 0.12
37 14 0.12
38 11 0.09
39 10 0.08
40 16 0.13
41 9 0.08
42 1 0.01
43 9 0.08
44 19 0.16
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.27
Consensus pattern (38 bp):
AAAATAACAATAAAACAATTTAAAATAAATAATATAAA
Found at i:43400117 original size:30 final size:26
Alignment explanation
Indices: 43400054--43400124 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
43400044 TATATAATAG
*
43400054 TTTACAATAAATAATATATAAAAGAAA
1 TTTA-AATAAATAATATATAAAACAAA
*
43400081 TTTAAATAAATAATATGTAAAACAAA
1 TTTAAATAAATAATATATAAAACAAA
*
43400107 TTAAAATAAATAATATAT
1 TTTAAATAAATAATATAT
43400125 TTAAAAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
TTTAAATAAATAATATATAAAACAAA
Found at i:43400136 original size:26 final size:26
Alignment explanation
Indices: 43400059--43400141 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
43400049 AATAGTTTAC
* *
43400059 AATAAATAATATATAAAAGAAATTTA
1 AATAAATAATATATAAAACAAATTAA
*
43400085 AATAAATAATATGTAAAACAAATTAA
1 AATAAATAATATATAAAACAAATTAA
* *
43400111 AATAAATAATATATTTAAA-AACTTAA
1 AATAAATAATATA-TAAAACAAATTAA
43400137 AATAA
1 AATAA
43400142 GTGATGATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 46 0.92
27 4 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (26 bp):
AATAAATAATATATAAAACAAATTAA
Found at i:43401725 original size:44 final size:44
Alignment explanation
Indices: 43401677--43402154 Score: 304
Period size: 44 Copynumber: 10.6 Consensus size: 44
43401667 TTTAATCCGA
* *
43401677 TCCACTGCAACTTCATGGAGATAGGATTAGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* ** * * *
43401721 TCCACTACAACTTTTGGGAGATAAGATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* * * * * *
43401765 TCCACTACAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGA
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* * * * *
43401809 TCAACTGTAACTTTAGGGAGATAAGATCTGCAATTTATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGAT-T---A---GTAGCTTCAATCTGC
* * * * * *
43401860 TCCACTACAATTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGC
* * * *
43401905 TCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* * * * *
43401949 TCCATTGCAACTTCAAGGAGATAAGGTT-TTA--TAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TCAATCTGC
* * * *
43401990 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTAATAGCTTCAA-CATGT
1 TCCACTGCAACTTCAGGGAGAT-A-A---G--ATTAGTAGCTTCAATC-TGC
* * * * * *
43402041 TCCGCTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGC
* * *
43402086 TCCACTGTAACTTTAGGGAGATAAGACTT-GTAACTTCAA-CTTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATC-TGC
43402130 TCCACTGCAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
43402155 GTTTGATATG
Statistics
Matches: 328, Mismatches: 81, Indels: 50
0.71 0.18 0.11
Matches are distributed among these distances:
41 24 0.07
42 2 0.01
43 4 0.01
44 163 0.50
45 68 0.21
46 5 0.02
48 2 0.01
49 3 0.01
50 4 0.01
51 53 0.16
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
Found at i:43401961 original size:140 final size:139
Alignment explanation
Indices: 43401707--43401973 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 139
43401697 ATAGGATTAG
* * *
43401707 TAGCTTCAATCTGCTCCACTACAACTTTTGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTA
1 TAGCTTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATTGCTATCTTCAACCTGCTCCACTA
** * ** * * * * *
43401772 CAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGATCAACTGTAACTTTAGGGAGATAAGATC
66 CAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGATCAACTGCAACTTCAAGGAGATAAGATC
43401837 TGCAATTTA
131 TGCAATTTA
* **
43401846 TAGCTTCAATCTGTTCCACTACAA-TTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCAC
1 TAGCTTCAATCTGCTCCACTACAACTTT-AGGGAAATAAGATT-GCTATCTTCAACCTGCTCCAC
* * * * *
43401910 TGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCATTGCAACTTCAAGGAGATAAG
64 TACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGATCAACTGCAACTTCAAGGAGATAAG
43401974 GTTTTATATG
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
138 3 0.03
139 35 0.33
140 67 0.64
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (139 bp):
TAGCTTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATTGCTATCTTCAACCTGCTCCACTA
CAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGATCAACTGCAACTTCAAGGAGATAAGATC
TGCAATTTA
Found at i:43402100 original size:181 final size:181
Alignment explanation
Indices: 43401710--43402168 Score: 634
Period size: 181 Copynumber: 2.5 Consensus size: 181
43401700 GGATTAGTAG
* * * * * * *
43401710 CTTCAATCTGCTCCACTACAACTTTTGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTACAA
1 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAA
* * * *
43401775 CTTCAGGGAGATAAGGTTTGTGGCT-TCGATCTGATCAACTGTAACTTTAGGGAGATAAGATCTG
66 CTTCAGGGAGATAAGGTTT-T--ATAT-GATCTGATCAACTGCAACTTCAGAGAGATAAGATCTG
* * *
43401839 CAATTTATAGCTTCAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGCTAT
127 CAATTAATAGCTTCAATCTGTTCCACTACAACTTAAGGGAAATAAGATTCGCTAT
*
43401894 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCATTGCAA
1 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAA
* * * *
43401959 CTTCAAGGAGATAAGGTTTTATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
66 CTTCAGGGAGATAAGGTTTTATATGATCTGATCAACTGCAACTTCAGAGAGATAAGATCTGCAAT
* *
43402024 TAATAGCTTCAA-CATGTTCCGCTGCAACTTAAGGGAAATAAGATTCGCTAT
131 TAATAGCTTCAATC-TGTTCCACTACAACTTAAGGGAAATAAGATTCGCTAT
* * *
43402075 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAA
1 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAA
*
43402140 CTTCAGGGAGATAAGGTTTGATATGATCT
66 CTTCAGGGAGATAAGGTTTTATATGATCT
43402169 TCAATCCATC
Statistics
Matches: 246, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
180 1 0.00
181 168 0.68
182 1 0.00
183 1 0.00
184 75 0.30
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (181 bp):
CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAA
CTTCAGGGAGATAAGGTTTTATATGATCTGATCAACTGCAACTTCAGAGAGATAAGATCTGCAAT
TAATAGCTTCAATCTGTTCCACTACAACTTAAGGGAAATAAGATTCGCTAT
Found at i:43402118 original size:96 final size:94
Alignment explanation
Indices: 43401677--43402111 Score: 316
Period size: 96 Copynumber: 4.8 Consensus size: 94
43401667 TTTAATCCGA
* * * * * * * * *
43401677 TCCACTGCAACTTCATGGAGATAGGATTAG-TAGCTTCAATCTGCTCCACTACAACTTTTGGGAG
1 TCCACTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
* *
43401741 ATAAGAT-TG---GTAT--CTTCAACCTGC
66 ATAAGATCTGTAATTATAGCTTCAA-CTGT
* * * * * ** * * *
43401765 TCCACTACAACTTCAGGGAGATAAGGTTTG-TGGCTTC-GATCTGATCAACTGTAACTTTAGGGA
1 TCCACTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAG-TCTGCTCCACTGCAACTTTAGGGA
*
43401828 GATAAGATCTGCAATTTATAGCTTCAATCTGT
65 GATAAGATCTGTAA-TTATAGCTTCAA-CTGT
* * *
43401860 TCCACTACAATTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
* *
43401925 ATAAGA-C--T-AGTA-A-CTTCAACCTGC
66 ATAAGATCTGTAATTATAGCTTCAA-CTGT
* * * * * * * * *
43401949 TCCATTGCAACTTCAA-GGAGATAAGGTT--TTAT-ATGA-TCTGCTCTACTGCAACTTCAGAGA
1 TCCACTGCAACTT-AAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGA
43402009 GATAAGATCTGTAATTAATAGCTTCAACATGT
65 GATAAGATCTGTAATT-ATAGCTTCAAC-TGT
* *
43402041 TCCGCTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTTAGGGAG
1 TCCACTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
43402106 ATAAGA
66 ATAAGA
43402112 CTTGTAACTT
Statistics
Matches: 270, Mismatches: 53, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
85 28 0.10
86 3 0.01
87 3 0.01
88 59 0.22
89 33 0.12
90 3 0.01
91 6 0.02
92 30 0.11
93 3 0.01
94 3 0.01
95 38 0.14
96 60 0.22
97 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (94 bp):
TCCACTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
ATAAGATCTGTAATTATAGCTTCAACTGT
Found at i:43403056 original size:5 final size:5
Alignment explanation
Indices: 43403040--43403093 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
43403030 GGGCTCTCTT
*
43403040 TTTTC -TTT- TTTTC TTTTC TTTTTC TTCTT- TTTTCC TTTTT TTTTC
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TT-TTC TTTT-C TTTTC TTTTC
43403085 TTTTC TTTT
1 TTTTC TTTT
43403094 TCATTTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
4 8 0.20
5 22 0.54
6 11 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:43403063 original size:11 final size:10
Alignment explanation
Indices: 43403045--43403100 Score: 67
Period size: 11 Copynumber: 5.2 Consensus size: 10
43403035 CTCTTTTTTC
43403045 TTTTTTTCTT
1 TTTTTTTCTT
43403055 TTCTTTTTCTT
1 TT-TTTTTCTT
*
43403066 CTTTTTTCCTT
1 -TTTTTTTCTT
43403077 TTTTTTTCTT
1 TTTTTTTCTT
43403087 TTCTTTTTCATT
1 TT-TTTTTC-TT
43403099 TT
1 TT
43403101 ATGAAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
10 13 0.32
11 21 0.52
12 6 0.15
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:43403070 original size:22 final size:21
Alignment explanation
Indices: 43403038--43403100 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
43403028 TTGGGCTCTC
43403038 TTTT-TTCTTTTTTTCTTTTCT
1 TTTTCTTCTTTTTTTCTTTT-T
*
43403059 TTTTCTTCTTTTTTCCTTTTT
1 TTTTCTTCTTTTTTTCTTTTT
*
43403080 TTTTCTT-TTCTTTTTCATTTT
1 TTTTCTTCTT-TTTTTCTTTTT
43403101 ATGAAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 21 0.57
22 14 0.38
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTTCTTTTTTTCTTTTT
Found at i:43403100 original size:7 final size:6
Alignment explanation
Indices: 43403039--43403100 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
43403029 TGGGCTCTCT
* * *
43403039 TTTTTC TTTTTT TCTTTTC TTTTTC -TTCT- TTTTTC CTTTT- TTTTTC
1 TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
43403085 -TTTTC TTTTTC ATTTT
1 TTTTTC TTTTTC TTTTT
43403101 ATGAAATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
5 15 0.34
6 24 0.55
7 5 0.11
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:43403204 original size:14 final size:15
Alignment explanation
Indices: 43403181--43403213 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
43403171 ATCAACGCTT
*
43403181 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
43403195 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
43403210 TTCC
1 TTCC
43403214 CTATTTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:43408575 original size:125 final size:125
Alignment explanation
Indices: 43408353--43408601 Score: 399
Period size: 125 Copynumber: 2.0 Consensus size: 125
43408343 AGGGTTTTTA
* * *
43408353 GGTCCTGGAAGAAATAATTTCAAGTTGACGTTTCTGAGTAAATAGTATAAAATCACTTTTACCAG
1 GGTCCTGGAAGAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAG
* * * *
43408418 GATGCTTTATGAGAAGAATTTGTTAAATCGCGCTCACGTGGACGCGCTTTTGCTACAGTT
66 GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTT
* ** *
43408478 GGTCCTGGAAGAAATGATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAG
1 GGTCCTGGAAGAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAG
43408543 GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
66 GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
43408602 AGCATGTTTG
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
GGTCCTGGAAGAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAG
GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTT
Done.