Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 141 of 250
Found at i:45675636 original size:42 final size:43
Alignment explanation
Indices: 45675557--45675658 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
45675547 TCCCGGATGT
* * * *
45675557 GGTCCTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACATGTAAATCAGTATCGATCCCTATGTCCCAGACAA
*
45675600 GGTCTTACATG-AAATCAG-ATACGATCCCTATGTCCCAGACAT
1 GGTCTTACATGTAAATCAGTAT-CGATCCCTATGTCCCAGACAA
* *
45675642 GGTATTACACGTAAATC
1 GGTCTTACATGTAAATC
45675659 TCAAATTGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 33 0.66
43 15 0.30
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCGATCCCTATGTCCCAGACAA
Found at i:45675993 original size:22 final size:22
Alignment explanation
Indices: 45675968--45676011 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45675958 ATCTAATACA
45675968 ATTCAAATTCA-ACAATTCAATC
1 ATTC-AATTCATACAATTCAATC
* *
45675990 ATTCATTTCATTCAATTCAATC
1 ATTCAATTCATACAATTCAATC
45676012 CATATACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTCAATTCATACAATTCAATC
Found at i:45686660 original size:49 final size:49
Alignment explanation
Indices: 45686607--45686704 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
45686597 TAAAGAAAAA
45686607 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
1 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
*
45686656 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGATAGAAAT
1 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
45686705 CATACACAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (49 bp):
GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
Found at i:45688808 original size:36 final size:36
Alignment explanation
Indices: 45688768--45688843 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
45688758 ATGACATTTA
45688768 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
1 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
45688804 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
1 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
45688840 TGTT
1 TGTT
45688844 TGACGCATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.51
Consensus pattern (36 bp):
TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
Found at i:45690525 original size:23 final size:23
Alignment explanation
Indices: 45690499--45690557 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
45690489 AGTACTTTTG
* * *
45690499 TACTTCTGTTATTAGTACTTCGA
1 TACTTCTATTACTAGCACTTCGA
*
45690522 TACTTCTATTACTAGCACTTCGG
1 TACTTCTATTACTAGCACTTCGA
* *
45690545 TGCTTTTATTACT
1 TACTTCTATTACT
45690558 GGCATTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (23 bp):
TACTTCTATTACTAGCACTTCGA
Found at i:45695613 original size:16 final size:16
Alignment explanation
Indices: 45695592--45695641 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
45695582 ATATTTAGTC
45695592 ATATAATAAATTATTA
1 ATATAATAAATTATTA
45695608 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
45695621 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
45695638 ATAT
1 ATAT
45695642 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:45695617 original size:29 final size:30
Alignment explanation
Indices: 45695584--45695641 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
45695574 CATTATTTAT
45695584 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
45695613 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
45695642 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:45695745 original size:15 final size:15
Alignment explanation
Indices: 45695725--45695781 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
45695715 ATTCAATATT
45695725 AATATTTTAATAATA
1 AATATTTTAATAATA
*
45695740 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
45695759 AATATATTAATAATA
1 AATATTTTAATAATA
*
45695774 AATGTTTT
1 AATATTTT
45695782 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:45700620 original size:17 final size:20
Alignment explanation
Indices: 45700593--45700630 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
45700583 GGAATTGGAA
45700593 TTAATGGTTT-GT-CTCCTT
1 TTAATGGTTTGGTACTCCTT
45700611 TTAA-GGTTTGGTACTCCTT
1 TTAATGGTTTGGTACTCCTT
45700630 T
1 T
45700631 ATTGAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 6 0.33
19 7 0.39
ACGTcount: A:0.13, C:0.16, G:0.18, T:0.53
Consensus pattern (20 bp):
TTAATGGTTTGGTACTCCTT
Found at i:45712707 original size:28 final size:28
Alignment explanation
Indices: 45712653--45712744 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
45712643 TAAGCATGTG
** *
45712653 TTTAAATTTT-CAAGTG-TATCCTTTAT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
45712679 TTTAAATTTTGCTGGTGTTATCATTTAT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
* * * * *
45712707 TTTGAA-TTTGCTGTTGTTGTCGTTTTT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
45712734 TTTAAATTTTG
1 TTTAAATTTTG
45712745 TTGTTTGTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.19
27 26 0.48
28 18 0.33
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.59
Consensus pattern (28 bp):
TTTAAATTTTGCTGGTGTTATCATTTAT
Found at i:45720026 original size:4 final size:4
Alignment explanation
Indices: 45720019--45720052 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
45720009 GAAAGCCTCT
*
45720019 TTTA TTTA TTCA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
45720053 CTTTTGCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:45727821 original size:17 final size:17
Alignment explanation
Indices: 45727799--45727831 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45727789 AGTTATCAGT
45727799 TTTTATT-TTTGTTTTTG
1 TTTTATTCTTT-TTTTTG
45727816 TTTTATTCTTTTTTTT
1 TTTTATTCTTTTTTTT
45727832 TTGAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTATTCTTTTTTTTG
Found at i:45734500 original size:14 final size:15
Alignment explanation
Indices: 45734473--45734501 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45734463 CTGCGAGCAT
45734473 CCACATAGCTTGCTC
1 CCACATAGCTTGCTC
45734488 CCACATA-CTTGCTC
1 CCACATAGCTTGCTC
45734502 TAGAAGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.41, G:0.10, T:0.28
Consensus pattern (15 bp):
CCACATAGCTTGCTC
Found at i:45738039 original size:21 final size:21
Alignment explanation
Indices: 45738000--45738039 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45737990 ATTACATGTT
**
45738000 TATATTTTTATTATTTAATAA
1 TATATTTTTATTACGTAATAA
*
45738021 TATATTTTTATTCCGTAAT
1 TATATTTTTATTACGTAAT
45738040 TATTATAATA
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:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
TATATTTTTATTACGTAATAA
Found at i:45741068 original size:13 final size:14
Alignment explanation
Indices: 45741050--45741079 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45741040 TGCCTTTTTC
45741050 TGTTTTT-TTTATT
1 TGTTTTTCTTTATT
45741063 TGTTTTTCTTTATT
1 TGTTTTTCTTTATT
45741077 TGT
1 TGT
45741080 GTATTATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.07, C:0.03, G:0.10, T:0.80
Consensus pattern (14 bp):
TGTTTTTCTTTATT
Found at i:45741107 original size:23 final size:25
Alignment explanation
Indices: 45741058--45741116 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
45741048 TCTGTTTTTT
* *
45741058 TTATTTGTTTTTCTTTATTTGTGTA
1 TTATTTGTTTTTCTTAATTTATGTA
*
45741083 TTATTCGTTTTT-TTAATTTAT-TA
1 TTATTTGTTTTTCTTAATTTATGTA
45741106 TTATTTGTTTT
1 TTATTTGTTTT
45741117 ATAATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.40
24 7 0.23
25 11 0.37
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.73
Consensus pattern (25 bp):
TTATTTGTTTTTCTTAATTTATGTA
Found at i:45741163 original size:28 final size:27
Alignment explanation
Indices: 45741132--45741192 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
45741122 ATTTTAAATG
*
45741132 TTTTAT-AATATTTGTTTATTCAATATTT
1 TTTTATGAAAATTTGTTT-TTCAAT-TTT
*
45741160 TTTT-TGAAAATTTGTTTTTTAATTTT
1 TTTTATGAAAATTTGTTTTTCAATTTT
45741186 TTATTAT
1 TT-TTAT
45741193 TTGTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 5 0.18
27 8 0.29
28 15 0.54
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTATGAAAATTTGTTTTTCAATTTT
Found at i:45741185 original size:22 final size:21
Alignment explanation
Indices: 45741160--45741217 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
45741150 TTCAATATTT
*
45741160 TTTTTGAAAATTTGTTTTTTAA
1 TTTTT-AAAATTTGTTTTATAA
**
45741182 TTTTTTATTATTTGTTTTATAA
1 -TTTTTAAAATTTGTTTTATAA
45741204 TATTTTAAATATTT
1 T-TTTTAAA-ATTT
45741218 TATAATATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.64
23 9 0.32
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTAAAATTTGTTTTATAA
Found at i:45741207 original size:14 final size:14
Alignment explanation
Indices: 45741107--45741208 Score: 51
Period size: 14 Copynumber: 7.4 Consensus size: 14
45741097 AATTTATTAT
45741107 TATTTGTTTTATAA
1 TATTTGTTTTATAA
45741121 TATTTTAAATGTTTTATAA
1 TA--TT---TGTTTTATAA
45741140 TATTTG-TTTATTCAA
1 TATTTGTTTTA-T-AA
45741155 TATTT-TTTT-TGAA
1 TATTTGTTTTAT-AA
*
45741168 AATTTGTTTT-T--
1 TATTTGTTTTATAA
*
45741179 TAATT-TTTTAT--
1 TATTTGTTTTATAA
45741190 TATTTGTTTTATAA
1 TATTTGTTTTATAA
45741204 TATTT
1 TATTT
45741209 TAAATATTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 26
0.69 0.05 0.26
Matches are distributed among these distances:
10 4 0.06
11 8 0.11
12 6 0.09
13 11 0.16
14 15 0.21
15 10 0.14
16 2 0.03
17 2 0.03
19 12 0.17
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (14 bp):
TATTTGTTTTATAA
Found at i:45741214 original size:9 final size:10
Alignment explanation
Indices: 45741196--45741227 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
45741186 TTATTATTTG
45741196 TTTTATAATA
1 TTTTATAATA
45741206 TTTTA-AATA
1 TTTTATAATA
45741215 TTTTATAATA
1 TTTTATAATA
45741225 TTT
1 TTT
45741228 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAATA
Found at i:45741245 original size:83 final size:83
Alignment explanation
Indices: 45741091--45741246 Score: 269
Period size: 83 Copynumber: 1.9 Consensus size: 83
45741081 TATTATTCGT
*
45741091 TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAT
1 TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
*
45741156 ATTTTTTTTGAAAATTTG
66 AGTTTTTTTGAAAATTTG
*
45741174 TTTTTTAATTTTTTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAA-
1 TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
45741238 ACGTTTTTT
66 A-GTTTTTT
45741247 AATTATATTT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
82 1 0.01
83 68 0.99
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (83 bp):
TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
AGTTTTTTTGAAAATTTG
Found at i:45742625 original size:13 final size:13
Alignment explanation
Indices: 45742607--45742638 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45742597 TTTCCAGCAA
45742607 TTATGAATTTATT
1 TTATGAATTTATT
45742620 TTATGAATTTATT
1 TTATGAATTTATT
*
45742633 TGATGA
1 TTATGA
45742639 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:45742846 original size:50 final size:50
Alignment explanation
Indices: 45742733--45742974 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
45742723 ATTTGGGTAA
* * *
45742733 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
45742789 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45742839 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45742889 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
45742939 AGAACATCCCATGTAAGACCATGTTTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
45742975 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:45742922 original size:100 final size:103
Alignment explanation
Indices: 45742733--45742982 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
45742723 ATTTGGGTAA
45742733 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
45742798 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
45742839 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
45742901 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* * *
45742939 AGAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
45742983 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:45750904 original size:23 final size:23
Alignment explanation
Indices: 45750874--45750925 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
45750864 AAAATATTAT
* *
45750874 AAAACAAATAATAAATAAATAGA
1 AAAACAAATAATAAACAAATAAA
45750897 AAAACAAATAATAAACAAATAAA
1 AAAACAAATAATAAACAAATAAA
45750920 AAAACA
1 AAAACA
45750926 GAAAAAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAATAATAAACAAATAAA
Found at i:45750912 original size:11 final size:11
Alignment explanation
Indices: 45750875--45750918 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
45750865 AAATATTATA
45750875 AAACAAATAAT
1 AAACAAATAAT
* *
45750886 AAATAAATAGAA
1 AAACAAATA-AT
45750898 AAACAAATAAT
1 AAACAAATAAT
45750909 AAACAAATAA
1 AAACAAATAA
45750919 AAAAACAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (11 bp):
AAACAAATAAT
Found at i:45754228 original size:15 final size:15
Alignment explanation
Indices: 45754208--45754243 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
45754198 GTGGCATAAG
45754208 TTGAAGCAATAGAAA
1 TTGAAGCAATAGAAA
45754223 TTGAAGCAATAGAAA
1 TTGAAGCAATAGAAA
45754238 TTGAAG
1 TTGAAG
45754244 AAGTTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (15 bp):
TTGAAGCAATAGAAA
Found at i:45766763 original size:3 final size:3
Alignment explanation
Indices: 45766755--45766789 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
45766745 AATTCTTTTG
45766755 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
45766790 CTGGGGGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:45774473 original size:23 final size:22
Alignment explanation
Indices: 45774422--45774473 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
45774412 TAAAGATTTT
*
45774422 ATAATAAT-AGAAATAATTAAA
1 ATAATAATGTGAAATAATTAAA
*
45774443 ATATTAATGTGAAACTAATT-AA
1 ATAATAATGTGAAA-TAATTAAA
45774465 ATACATAAT
1 ATA-ATAAT
45774474 CGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 9 0.36
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
ATAATAATGTGAAATAATTAAA
Found at i:45775381 original size:78 final size:78
Alignment explanation
Indices: 45775273--45775463 Score: 278
Period size: 78 Copynumber: 2.5 Consensus size: 78
45775263 TATAGCATTG
* * *
45775273 TTTGGACGC-TT-TCACTTAAGATTGTCATATAAGTTGTTTAAGAATATCATATAAGCTATGATA
1 TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTATTTAAGAATATCATATAAGCTATGATA
45775336 GTTTGTAGCGTCA
66 GTTTGTAGCGTCA
* *
45775349 TTTGGACGCTTTATCACTTCAGATTGCCATATAAGCTATTTAAGAATGTCATATAAGCTATGATA
1 TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTATTTAAGAATATCATATAAGCTATGATA
*
45775414 GTTTGTAGCGTCT
66 GTTTGTAGCGTCA
* * * *
45775427 TTTGGACTCTTTATCAATTGAGATTACCATATAAGCT
1 TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCT
45775464 GCGTTAATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
76 9 0.09
77 2 0.02
78 92 0.89
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (78 bp):
TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTATTTAAGAATATCATATAAGCTATGATA
GTTTGTAGCGTCA
Found at i:45775754 original size:21 final size:20
Alignment explanation
Indices: 45775729--45775772 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
45775719 AGTCTACCTT
*
45775729 AAAATAAATGGAGAAGGGAGA
1 AAAATAAAGGGAGAA-GGAGA
*
45775750 AAAATAGAGGGAGAAGGAGA
1 AAAATAAAGGGAGAAGGAGA
45775770 AAA
1 AAA
45775773 GAATGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (20 bp):
AAAATAAAGGGAGAAGGAGA
Found at i:45794801 original size:12 final size:12
Alignment explanation
Indices: 45794784--45794820 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
45794774 AGCCACACAC
45794784 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
45794796 CCGTGTGCTAAG
1 CCGTGTGCTAGG
45794808 CCGTGTGCTAGG
1 CCGTGTGCTAGG
45794820 C
1 C
45794821 TGTGCAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:45799626 original size:41 final size:41
Alignment explanation
Indices: 45799581--45799662 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
45799571 CACGGCCGAG
* *
45799581 CCACACGAACGTGTGTCCCTTGTTTTTAAGAAAATTTTCTA
1 CCACACGAACGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
***
45799622 CCACACGGGTGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
1 CCACACGAACGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
45799663 AGTTTTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (41 bp):
CCACACGAACGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
Found at i:45801753 original size:66 final size:66
Alignment explanation
Indices: 45801674--45801798 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
45801664 CCCGTGTGCC
* * * *
45801674 AGGCCATGTGAAAACTGTAGGATATACTGACTTGTGCCACATGGCCAAGCCCTACGCCCATGTGT
1 AGGCCATGTGAAAACTATAGGATATACTGACTTGTGCCACACGACCAAGCCCCACGCCCATGTGT
45801739 T
66 T
* * *
45801740 AGGCCGTGTGAAAACTATAGGGTATACTGACTTGTGCTACACGACCAAGCCCCACGCCC
1 AGGCCATGTGAAAACTATAGGATATACTGACTTGTGCCACACGACCAAGCCCCACGCCC
45801799 GTGATCTAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (66 bp):
AGGCCATGTGAAAACTATAGGATATACTGACTTGTGCCACACGACCAAGCCCCACGCCCATGTGT
T
Found at i:45801813 original size:66 final size:65
Alignment explanation
Indices: 45801674--45801817 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 65
45801664 CCCGTGTGCC
* * * * *
45801674 AGGCCATGTGAAAACTGTAGGATATACTGACTTGTGCCACATGGCCAAGCCCTACGCCCATGTGT
1 AGGCCGTGTGAAAACTATAGGATATACTGACTTGTGCCACACGACCAAGCCCCACGCCCA-GTGT
45801739 T
65 T
* *
45801740 AGGCCGTGTGAAAACTATAGGGTATACTGACTTGTGCTACACGACCAAGCCCCACGCCC-GTGAT
1 AGGCCGTGTGAAAACTATAGGATATACTGACTTGTGCCACACGACCAAGCCCCACGCCCAGTG-T
45801804 CT
65 -T
*
45801806 AGTCCGTGTGAA
1 AGGCCGTGTGAA
45801818 GCTACTGACT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 3 0.04
65 1 0.01
66 64 0.94
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (65 bp):
AGGCCGTGTGAAAACTATAGGATATACTGACTTGTGCCACACGACCAAGCCCCACGCCCAGTGTT
Found at i:45805965 original size:48 final size:46
Alignment explanation
Indices: 45805853--45805984 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
45805843 TCACCCACCA
* * * * * *
45805853 AACACAACCAATCATAGCCTACAAACACAACC-ATATGTACCCTGCG
1 AACACAACCAAT-ATACCCTCCAAACACAACCAATATATAACATCCG
* *
45805899 GACACAACCAAATTTACCCTCCAAACACAACCATATATATAACATCCG
1 AACACAACC-AATATACCCTCCAAACACAACCA-ATATATAACATCCG
45805947 AACACAACCAAGTATACCCTCCAAACACAACCAATATA
1 AACACAACCAA-TATACCCTCCAAACACAACCAATATA
45805985 CTCTTCAACA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
46 24 0.33
47 10 0.14
48 38 0.53
ACGTcount: A:0.45, C:0.34, G:0.05, T:0.16
Consensus pattern (46 bp):
AACACAACCAATATACCCTCCAAACACAACCAATATATAACATCCG
Found at i:45805980 original size:23 final size:22
Alignment explanation
Indices: 45805845--45805985 Score: 120
Period size: 23 Copynumber: 6.1 Consensus size: 22
45805835 TAAAGCTATC
*
45805845 ACCCACCAAACACAACCAATCAT
1 ACCCTCCAAACACAACCAAT-AT
* * *
45805868 AGCCTACAAACACAACCATATGT
1 ACCCTCCAAACACAACCA-ATAT
* ** *
45805891 ACCCTGCGGACACAACCAAATTT
1 ACCCTCCAAACACAACC-AATAT
45805914 ACCCTCCAAACACAACCATATATAT
1 ACCCTCCAAACACAACC--A-ATAT
* * *
45805939 AACATCCGAACACAACCAAGTAT
1 ACCCTCCAAACACAACCAA-TAT
45805962 ACCCTCCAAACACAACCAATAT
1 ACCCTCCAAACACAACCAATAT
45805984 AC
1 AC
45805986 TCTTCAACAT
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
22 6 0.06
23 66 0.71
24 4 0.04
25 17 0.18
ACGTcount: A:0.44, C:0.36, G:0.05, T:0.15
Consensus pattern (22 bp):
ACCCTCCAAACACAACCAATAT
Found at i:45806875 original size:26 final size:26
Alignment explanation
Indices: 45806846--45806929 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
45806836 TAAAACCAAA
45806846 TATTAGCCAAGAAATACAATATCTAC
1 TATTAGCCAAGAAATACAATATCTAC
** *
45806872 TATTTTCAAGCCAA-AAA-ACAACT-TAAAA
1 TA--TT--AGCCAAGAAATACAA-TATCTAC
*
45806900 TCTTAGCCAAGAAATACAATATCTAC
1 TATTAGCCAAGAAATACAATATCTAC
45806926 TATT
1 TATT
45806930 TTCAAGCCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
24 6 0.14
25 4 0.10
26 13 0.31
28 9 0.21
29 4 0.10
30 6 0.14
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (26 bp):
TATTAGCCAAGAAATACAATATCTAC
Found at i:45806884 original size:30 final size:29
Alignment explanation
Indices: 45806850--45806943 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 29
45806840 ACCAAATATT
45806850 AGCCAAGAAATACAATATCTACTATTTTCA
1 AGCCAA-AAATACAATATCTACTATTTTCA
* ** *
45806880 AGCCAAAAA-ACAA-CT-TAAAATCTT--
1 AGCCAAAAATACAATATCTACTATTTTCA
45806904 AGCCAAGAAATACAATATCTACTATTTTCA
1 AGCCAA-AAATACAATATCTACTATTTTCA
45806934 AGCCAAAAAT
1 AGCCAAAAAT
45806944 CAACTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
24 6 0.12
25 3 0.06
26 10 0.20
27 2 0.04
28 10 0.20
29 7 0.14
30 12 0.24
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (29 bp):
AGCCAAAAATACAATATCTACTATTTTCA
Found at i:45806906 original size:54 final size:54
Alignment explanation
Indices: 45806843--45806955 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
45806833 CTTTAAAACC
*
45806843 AAATATTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTA
1 AAATCTTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTA
*
45806897 AAATCTTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAATCAACTTA
1 AAATCTTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTA
45806951 AAATC
1 AAATC
45806956 AGGTGATATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (54 bp):
AAATCTTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTA
Found at i:45810755 original size:12 final size:12
Alignment explanation
Indices: 45810738--45810765 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45810728 GTCTTGCATA
45810738 TAATGAAAATTT
1 TAATGAAAATTT
45810750 TAATGAAAATTT
1 TAATGAAAATTT
45810762 TAAT
1 TAAT
45810766 TACCTACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (12 bp):
TAATGAAAATTT
Found at i:45812286 original size:28 final size:28
Alignment explanation
Indices: 45812246--45812302 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
45812236 TATATATATA
*
45812246 TATATATGAGAAAAGCATAGGCTTACTT
1 TATATAGGAGAAAAGCATAGGCTTACTT
*
45812274 TATATAGGAGAAAAGTATAGGCTTACTT
1 TATATAGGAGAAAAGCATAGGCTTACTT
45812302 T
1 T
45812303 TAGTATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (28 bp):
TATATAGGAGAAAAGCATAGGCTTACTT
Found at i:45816392 original size:12 final size:13
Alignment explanation
Indices: 45816375--45816407 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
45816365 AAATTGTCAC
45816375 ATATT-TTTTTTA
1 ATATTATTTTTTA
45816387 ATATTTATTTTTTA
1 ATA-TTATTTTTTA
45816401 ATATTAT
1 ATATTAT
45816408 ATCCTATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 6 0.32
14 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATATTATTTTTTA
Found at i:45821452 original size:3 final size:3
Alignment explanation
Indices: 45821444--45821470 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45821434 TTTGGATCTG
45821444 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
45821471 AATACTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45823385 original size:70 final size:66
Alignment explanation
Indices: 45823296--45823426 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 66
45823286 TAAGAAAAGG
**
45823296 CAAAACTACGTCATTTTGATAAATATTTATCTTTATTAAACTTAAAAGTCAAAAACATTATATTA
1 CAAAACTACGTCATTTTGATAAATATTTA-C-CCATTAAA-TTAAAAG-CAAAAACATTATATTA
45823361 AAATA
62 AAATA
* * *
45823366 CAAAACTACGTTC-TTTTGATAAATGTTTACCCATTAAATTAAAAGCAAAACCTTTATATTA
1 CAAAACTACG-TCATTTTGATAAATATTTACCCATTAAATTAAAAGCAAAAACATTATATTA
45823427 TTTATGTAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
66 14 0.25
67 7 0.13
68 6 0.11
69 1 0.02
70 25 0.45
71 2 0.04
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (66 bp):
CAAAACTACGTCATTTTGATAAATATTTACCCATTAAATTAAAAGCAAAAACATTATATTAAAAT
A
Found at i:45829853 original size:43 final size:42
Alignment explanation
Indices: 45829766--45829870 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
45829756 AAGGTTACTA
* * * *
45829766 AGATTATGTGTAAGACCATATCTGAGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATAACTAAGATATGACATCGATACG
*
45829808 AGACTT-CGTGTAAGACCATAACTAAGCTATTGACATCGATACG
1 AGA-TTACGTGTAAGACCATAACTAAGATA-TGACATCGATACG
*
45829851 AGATTACATGTAAGACCATA
1 AGATTACGTGTAAGACCATA
45829871 TCTGGGATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAACTAAGATATGACATCGATACG
Found at i:45837519 original size:45 final size:45
Alignment explanation
Indices: 45837435--45837550 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
45837425 CCGAGTTGTG
* * *
45837435 TTTTTGTGTAAGACCACGTCTGGGAAGTTGTCATTGATATATGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTA
* *
45837480 TTTTCGTGTAAGACCACGTCTAGGACGTTGGT-ATCGATATATGTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTT-GTCATCGATATATGTA
* * *
45837525 GTTACGTGTAAGACCATGTCTGGGAC
1 TTTTCGTGTAAGACCACGTCTGGGAC
45837551 ATCGGCATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 59 0.97
46 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (45 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTA
Found at i:45845439 original size:45 final size:45
Alignment explanation
Indices: 45845379--45845498 Score: 168
Period size: 45 Copynumber: 2.7 Consensus size: 45
45845369 TTCCAATTTA
* * *
45845379 TGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCAATATATG
* *
45845424 TGTTTTCGTGTAAGACCACGTCTAGGACATTGGCATCAATATGTG
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCAATATATG
* * *
45845469 TGGTTACGTGTAAGACCATGTCTGGGACAT
1 TGTTTTCGTGTAAGACCACGTCTGGGACAT
45845499 CAACATCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (45 bp):
TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCAATATATG
Found at i:45846381 original size:26 final size:26
Alignment explanation
Indices: 45846352--45846408 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
45846342 GTCTTTATAT
*
45846352 ATATATATATAGGTGTGAGGTGTTTG
1 ATATATATATAGGTGTAAGGTGTTTG
45846378 ATATATATATAGGTGTAAGGTGTTTG
1 ATATATATATAGGTGTAAGGTGTTTG
45846404 ATATA
1 ATATA
45846409 AGATGTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (26 bp):
ATATATATATAGGTGTAAGGTGTTTG
Found at i:45853413 original size:16 final size:17
Alignment explanation
Indices: 45853382--45853414 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45853372 TTCATAAGTA
45853382 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
45853399 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
45853415 GTTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:45853760 original size:46 final size:47
Alignment explanation
Indices: 45853695--45854019 Score: 466
Period size: 46 Copynumber: 7.1 Consensus size: 47
45853685 TTATCTTTGA
* * * * *
45853695 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
45853741 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
45853787 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
* **
45853833 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
45853879 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
45853925 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
45853971 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
45854017 CAT
1 CAT
45854020 AGAGCACACT
Statistics
Matches: 262, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
45 5 0.02
46 257 0.98
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
Found at i:45855875 original size:11 final size:11
Alignment explanation
Indices: 45855859--45855906 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
45855849 CTTTATATAC
45855859 TAATAAAATAA
1 TAATAAAATAA
*
45855870 TAATAAAATATCT
1 TAATAAAATA--A
* *
45855883 TATTAAAATAT
1 TAATAAAATAA
45855894 TAATAAAATAA
1 TAATAAAATAA
45855905 TA
1 TA
45855907 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:45861379 original size:93 final size:93
Alignment explanation
Indices: 45861266--45861438 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
45861256 TGCCCATAAG
* * *
45861266 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
45861331 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
45861359 CGAACTTGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTTAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
45861424 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
45861439 CAAATATCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:45861434 original size:46 final size:46
Alignment explanation
Indices: 45861259--45861434 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
45861249 TGTAACCTGC
* * *
45861259 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
45861305 TCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * * *
45861355 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
45861398 CCATAAGTTAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
45861435 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:45865312 original size:19 final size:19
Alignment explanation
Indices: 45865284--45865322 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
45865274 AGAACGAACG
45865284 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
45865302 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
45865322 A
1 A
45865323 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:45869490 original size:27 final size:26
Alignment explanation
Indices: 45869462--45869655 Score: 253
Period size: 27 Copynumber: 7.2 Consensus size: 26
45869452 AGGTAAATCA
* * *
45869462 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* **
45869489 GTCATTTTACCCTATGGTGTTATTTTA
1 GTCATTTTACCCTATGG-GGTATTTCG
45869516 GTCATTTTACCCTATGTGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
45869543 GTCATTTTACCCAATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
45869570 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
45869597 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
45869624 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
45869651 GTCAT
1 GTCAT
45869656 CATTTCGGCC
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
26 2 0.01
27 149 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:45876607 original size:43 final size:43
Alignment explanation
Indices: 45876461--45876611 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
45876451 AGTTACCGAG
* * *
45876461 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TAT
1 ATGTGATAACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* *
45876503 ATTGTGA-ATACGTGTAAGACCATGTCTAGGACATTGACATCG-T
1 A-TGTGATA-ACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* ** * * * *
45876546 -TGTTCAATTTCGTTTAAGACCCTGTCAAGGACATTGGCATCGAT
1 ATG-T-GATAACATGTAAGACCATGTCTAGGACATTGGCATCGAT
45876590 ATGTGATAACATGTAAGACCAT
1 ATGTGATAACATGTAAGACCAT
45876612 ATCTGGGATA
Statistics
Matches: 83, Mismatches: 18, Indels: 15
0.72 0.16 0.13
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 75 0.90
44 2 0.02
45 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATGTCTAGGACATTGGCATCGAT
Found at i:45880533 original size:48 final size:48
Alignment explanation
Indices: 45880461--45880740 Score: 221
Period size: 48 Copynumber: 5.9 Consensus size: 48
45880451 GACATTTGGG
* * *
45880461 TGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
45880509 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACTA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * **
45880557 TGTTGTGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
45880604 TTGATATGTGCGCTAGTGTAAGACCATGT-TCGGGACATGGCATCGACAA
1 -TGATATGAGAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCA
* ** * * *
45880653 TGAGACAAGAG---GTGTAAAACCATGTCTGAGACATTGCATCGGCC-
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
45880697 TCGACATGTGAGCCAATGTAAGACCATGTTTGGAACACGGCATC
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
45880741 TACAAGCCAA
Statistics
Matches: 175, Mismatches: 49, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
44 1 0.01
45 32 0.18
46 1 0.01
47 2 0.01
48 138 0.79
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:45880642 original size:96 final size:96
Alignment explanation
Indices: 45880471--45880740 Score: 275
Period size: 96 Copynumber: 2.8 Consensus size: 96
45880461 TGATATGTGT
*
45880471 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATG
*
45880536 TTTGGAACATGGCATCGACTATGTTGTGAAA
66 TTCGGAACATGGCATCGACTATGTTGTGAAA
* * * * * *
45880567 GCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-CATTGATATGTGCGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-CGATATGAGAGCCAGTGTAAGACCAT
* * *
45880631 GTTCGGGACATGGCATCGAC-A--ATGAGACAA
65 GTTCGGAACATGGCATCGACTATGTTGTGA-AA
* * * * * * *
45880661 G--AGGTGTAAAACCATGTCT-GAGACATTGCATCGGCCTCGACATGTGAGCCAATGTAAGACCA
1 GCCA-GTGTAAGACCATGTCTAG-GACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCA
* *
45880723 TGTTTGGAACACGGCATC
64 TGTTCGGAACATGGCATC
45880741 TACAAGCCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
92 2 0.01
93 64 0.44
94 4 0.03
95 3 0.02
96 72 0.50
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATG
TTCGGAACATGGCATCGACTATGTTGTGAAA
Found at i:45880758 original size:38 final size:38
Alignment explanation
Indices: 45880707--45880783 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
45880697 TCGACATGTG
45880707 AGCCAATGTAAGACCATGTTTGGAACACGGCATCTACA
1 AGCCAATGTAAGACCATGTTTGGAACACGGCATCTACA
*
45880745 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
1 AGCCAATGTAAGACCATGTTTGGAACACGGCATCTACA
45880783 A
1 A
45880784 TTCACCCTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (38 bp):
AGCCAATGTAAGACCATGTTTGGAACACGGCATCTACA
Found at i:45885939 original size:30 final size:30
Alignment explanation
Indices: 45885905--45885965 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45885895 TCCTTAACTC
45885905 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45885935 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45885965 A
1 A
45885966 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:45890380 original size:30 final size:30
Alignment explanation
Indices: 45890346--45890406 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45890336 TCCTTAACTC
45890346 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45890376 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45890406 A
1 A
45890407 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:45891977 original size:5 final size:5
Alignment explanation
Indices: 45891967--45891991 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45891957 ACTCAAAGGG
45891967 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
45891992 TGTAAAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:45895980 original size:31 final size:33
Alignment explanation
Indices: 45895939--45896000 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
45895929 TAAACTTAAA
* *
45895939 TAAATATTAAAAATTATATTACTTT-TTATAGT
1 TAAATATTAAAAATAATATTAATTTATTATAGT
*
45895971 TAAAT-TTAAATATAATATTAATTTATTATA
1 TAAATATTAAAAATAATATTAATTTATTATA
45896001 AAAATTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
TAAATATTAAAAATAATATTAATTTATTATAGT
Found at i:45896781 original size:14 final size:15
Alignment explanation
Indices: 45896764--45896797 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
45896754 AGAGAGAAGT
45896764 AAAAAAAAAAAC-AA
1 AAAAAAAAAAACTAA
*
45896778 AAAAACAAAAACTAA
1 AAAAAAAAAAACTAA
45896793 AAAAA
1 AAAAA
45896798 GGAGAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAACTAA
Found at i:45897683 original size:19 final size:18
Alignment explanation
Indices: 45897658--45897722 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 18
45897648 ATTAATTAAT
45897658 TTTTAAAATTTTTAAAAA
1 TTTTAAAATTTTTAAAAA
*
45897676 TATTTAAAAATATTTTTATAAA
1 T-TTT--AAA-ATTTTTAAAAA
45897698 TTTTAATAA-TTTTAAATAA
1 TTTTAA-AATTTTTAAA-AA
45897717 TTTTAA
1 TTTTAA
45897723 TTTTCAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.18
19 14 0.36
20 1 0.03
21 6 0.15
22 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTAAAATTTTTAAAAA
Found at i:45897721 original size:10 final size:9
Alignment explanation
Indices: 45897658--45897722 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
45897648 ATTAATTAAT
*
45897658 TTTTAAAAT
1 TTTTAAAAA
45897667 TTTTAAAAA
1 TTTTAAAAA
45897676 TATTTAAAAATA
1 T-TTT-AAAA-A
*
45897688 TTTTTATAAA
1 -TTTTAAAAA
*
45897698 TTTTAATAA
1 TTTTAAAAA
45897707 TTTTAAATAA
1 TTTTAAA-AA
45897717 TTTTAA
1 TTTTAA
45897723 TTTTCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 22 0.48
10 12 0.26
11 7 0.15
12 4 0.09
13 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:45898130 original size:46 final size:46
Alignment explanation
Indices: 45898063--45898163 Score: 202
Period size: 46 Copynumber: 2.2 Consensus size: 46
45898053 GTCAAAAAAA
45898063 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
1 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
45898109 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
1 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
45898155 CAAAACTAT
1 CAAAACTAT
45898164 TATATTGTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (46 bp):
CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
Found at i:45901441 original size:48 final size:47
Alignment explanation
Indices: 45901328--45901441 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
45901318 GTCACAGTAA
* *
45901328 TGCAGATAAACTACCACATAATCAAATTGTGGACAAGCCATCACTTT
1 TGCAGATAAACTACCACATAATAAAATTGTGGACAAGCCACCACTTT
* * ** *
45901375 TGCATATATACTGTCACATAATAAAATTTGTGGATAAGCCACCACTTT
1 TGCAGATAAACTACCACATAATAAAA-TTGTGGACAAGCCACCACTTT
45901423 T-CTAGATAAACTACCACAT
1 TGC-AGATAAACTACCACAT
45901442 TCTTCCACCT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
47 22 0.41
48 32 0.59
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTACCACATAATAAAATTGTGGACAAGCCACCACTTT
Found at i:45901511 original size:18 final size:18
Alignment explanation
Indices: 45901488--45901522 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45901478 ATATGACCAC
*
45901488 AAAATCACTTTTTACTTA
1 AAAATCACTTTTCACTTA
45901506 AAAATCACTTTTCACTT
1 AAAATCACTTTTCACTT
45901523 TGGCATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATCACTTTTCACTTA
Found at i:45905798 original size:25 final size:27
Alignment explanation
Indices: 45905761--45905813 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
45905751 TCAAACATGC
45905761 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
45905787 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
45905813 A
1 A
45905814 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:45907332 original size:26 final size:26
Alignment explanation
Indices: 45907302--45907357 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
45907292 TGAAATGCCC
*
45907302 ATCATGGAACATTTACGTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45907328 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45907354 ATCA
1 ATCA
45907358 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45915192 original size:56 final size:57
Alignment explanation
Indices: 45915028--45915194 Score: 216
Period size: 56 Copynumber: 3.0 Consensus size: 57
45915018 CTTACATGTT
** * *
45915028 ATCACATATCGATGCC-ACTGTCCTAAACAG-GGTTTTACTCGCACACATATAT-TAGA
1 ATCACATATCGATGCCAAC-GTATTAAAC-GTGGTCTTACTCGCACACATATATCGAGA
*
45915084 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATCGA-A
1 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGAGA
* * *
45915140 ATCACATATCGATGCTAACGTATTAAATGTGGTCTTACTCGCACAAATATATCGA
1 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
45915195 TCCCATAGTC
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
55 1 0.01
56 95 0.96
57 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (57 bp):
ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGAGA
Found at i:45916958 original size:30 final size:30
Alignment explanation
Indices: 45916922--45916988 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
45916912 TCACTAATAA
* * *
45916922 AATATGTGAAAAGTGAATAATTAGAATTAT
1 AATATGTGAAAAGTAAATAACTAGAATCAT
*
45916952 AATATGTGAAAAGTAAATAGCTAGAATCAT
1 AATATGTGAAAAGTAAATAACTAGAATCAT
*
45916982 AACATGT
1 AATATGT
45916989 TTCCTGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.30
Consensus pattern (30 bp):
AATATGTGAAAAGTAAATAACTAGAATCAT
Found at i:45918912 original size:22 final size:22
Alignment explanation
Indices: 45918880--45918929 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
45918870 TCCAAAATTA
45918880 GGCACAACTACACAACTCATAT
1 GGCACAACTACACAACTCATAT
*
45918902 GGCACACCTACACAACTCATAT
1 GGCACAACTACACAACTCATAT
45918924 GGCACA
1 GGCACA
45918930 TAACATAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.12, T:0.16
Consensus pattern (22 bp):
GGCACAACTACACAACTCATAT
Found at i:45931143 original size:23 final size:21
Alignment explanation
Indices: 45931078--45931127 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
45931068 GCCACACGAG
45931078 CGTGTGATAACTGGGCTAGGC
1 CGTGTGATAACTGGGCTAGGC
45931099 CGTGTGATAACTGGGCTAGGC
1 CGTGTGATAACTGGGCTAGGC
45931120 CGTGTGAT
1 CGTGTGAT
45931128 CCACACGGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (21 bp):
CGTGTGATAACTGGGCTAGGC
Found at i:45935170 original size:3 final size:3
Alignment explanation
Indices: 45935162--45935219 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
45935152 ATTATAAGTA
* *
45935162 AAT AAT AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT -CT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
45935205 -AT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AA
45935220 AAGAATAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.20
3 34 0.76
4 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:45935210 original size:13 final size:13
Alignment explanation
Indices: 45935149--45935218 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
45935139 TATGTTTACT
*
45935149 TATATTATAAGTAA
1 TATAATATAA-TAA
45935163 -ATAATAATAATAA
1 TATAAT-ATAATAA
*
45935176 TA-ATTACTAA-AA
1 TATAATA-TAATAA
45935188 TAT-A-ATAATAA
1 TATAATATAATAA
*
45935199 TCTAATATAATAA
1 TATAATATAATAA
45935212 TATAATA
1 TATAATA
45935219 AAAGAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
10 3 0.07
11 5 0.11
12 6 0.14
13 25 0.57
14 5 0.11
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:45935212 original size:8 final size:8
Alignment explanation
Indices: 45935154--45935219 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 8
45935144 TTACTTATAT
45935154 TATAAGTAA
1 TATAA-TAA
45935163 -ATAATAA
1 TATAATAA
45935170 TAATAATAA
1 T-ATAATAA
45935179 TTACTAA-AA
1 -TA-TAATAA
45935188 TATAATAA
1 TATAATAA
*
45935196 TA-ATCTAA
1 TATA-ATAA
45935204 TATAATAA
1 TATAATAA
45935212 TATAATAA
1 TATAATAA
45935220 AAGAATAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 7 0.15
8 26 0.54
9 11 0.23
10 4 0.08
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:45937658 original size:15 final size:15
Alignment explanation
Indices: 45937638--45937668 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45937628 GTCTATAGAA
45937638 ATGGTTTATTTCCGT
1 ATGGTTTATTTCCGT
45937653 ATGGTTTATTTCCGT
1 ATGGTTTATTTCCGT
45937668 A
1 A
45937669 CGCAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (15 bp):
ATGGTTTATTTCCGT
Found at i:45943950 original size:20 final size:19
Alignment explanation
Indices: 45943892--45943950 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
45943882 ACTTGTTTTA
*
45943892 AAACAATTTTAAGTTGATTG
1 AAAC-ATTTTAACTTGATTG
**
45943912 AAA-ATATTTAACTCAATTG
1 AAACAT-TTTAACTTGATTG
45943931 AAACCATTTTAACTTGATTG
1 AAA-CATTTTAACTTGATTG
45943951 TATTATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 14 0.45
21 2 0.06
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
AAACATTTTAACTTGATTG
Found at i:45944606 original size:23 final size:23
Alignment explanation
Indices: 45944578--45944671 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
45944568 ATGTGTGTAT
** *
45944578 CTTTTCATATTCAAACCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
45944601 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
45944624 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
45944647 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
45944670 CT
1 CT
45944672 ATTCTAACTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:45949178 original size:23 final size:23
Alignment explanation
Indices: 45949087--45949180 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
45949077 ATGTGTGTAT
* *
45949087 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
45949110 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * * *
45949133 CTATTCATATTCAAATTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
*
45949156 CTTTTCATATTTAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
45949179 CT
1 CT
45949181 CTTCTAACTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.03, T:0.49
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:45957641 original size:49 final size:49
Alignment explanation
Indices: 45957588--45957762 Score: 226
Period size: 49 Copynumber: 3.5 Consensus size: 49
45957578 CTGGTACGCA
* *
45957588 TAGTAGCCTGCATTTAGTACTACACATGGGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * *
45957637 TAGTAGCCTGCACTTAGTACTACACA-CCTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGC-GA-CCAA-TTATCCGGTACACG
* * *
45957688 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
45957737 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
45957763 CGTGACCTCA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 62 0.57
50 6 0.06
51 39 0.36
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:45957734 original size:100 final size:100
Alignment explanation
Indices: 45957575--45957763 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 100
45957565 TAGCTAAAGC
* * * * *
45957575 TATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGGGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAG
45957640 TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
*
45957675 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAATAATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAG
45957740 TAGCCTGCACTTAGTACTACACAC
66 TAGCCTGCACTTAGTACTACACAC
45957764 GTGACCTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
Found at i:45965667 original size:15 final size:16
Alignment explanation
Indices: 45965650--45965709 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
45965640 TTAATATTAT
45965650 TTAATATTATTATAT-
1 TTAATATTATTATATA
* *
45965665 TTACTTTTATT-TATA
1 TTAATATTATTATATA
* *
45965680 TTATTCTTATTAT-TA
1 TTAATATTATTATATA
*
45965695 TTAATATTAGTATAT
1 TTAATATTATTATAT
45965710 GTTTTATTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 3 0.09
15 30 0.86
16 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (16 bp):
TTAATATTATTATATA
Found at i:45965736 original size:21 final size:22
Alignment explanation
Indices: 45965704--45965939 Score: 75
Period size: 24 Copynumber: 10.4 Consensus size: 22
45965694 ATTAATATTA
*
45965704 GTATATGTTTT-AT-TATATAT
1 GTATATATTTTAATATATATAT
45965724 GTATATATCTTTAATATATATAT
1 GTATATAT-TTTAATATATATAT
* *
45965747 GTATATATATGT-ATATATTTAT
1 GTATATAT-TTTAATATATATAT
* *
45965769 GTAGTAT-TATTAATAGTCGT-T-T
1 GTA-TATATTTTAATA-T-ATATAT
* *
45965791 -TTTTTATTTCTAATATGTATATATTAT
1 GTATATATTT-T-A-A--TATATA-TAT
* *
45965818 GTAAATAATTTAATACTATATTAT
1 GTATATATTTTAATA-TATA-TAT
* *
45965842 GTATACATTTTATATATATATTAC
1 GTATATATTTTA-ATATATA-TAT
*
45965866 GTATATATATCTT--T-TAAATAT
1 GTATATAT-T-TTAATATATATAT
45965887 -TATAT-TTTT-ATATATATCAT
1 GTATATATTTTAATATATAT-AT
45965907 GTATATATTTTTAATACTATATTAT
1 GTATATA-TTTTAATA-TATA-TAT
*
45965932 TTATATAT
1 GTATATAT
45965940 ATTTTTACAT
Statistics
Matches: 162, Mismatches: 24, Indels: 56
0.67 0.10 0.23
Matches are distributed among these distances:
17 2 0.01
18 2 0.01
19 5 0.03
20 16 0.10
21 14 0.09
22 23 0.14
23 30 0.19
24 38 0.23
25 18 0.11
26 7 0.04
27 2 0.01
28 5 0.03
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (22 bp):
GTATATATTTTAATATATATAT
Found at i:45965753 original size:10 final size:10
Alignment explanation
Indices: 45965738--45965764 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
45965728 ATATCTTTAA
45965738 TATATATATG
1 TATATATATG
45965748 TATATATATG
1 TATATATATG
45965758 TATATAT
1 TATATAT
45965765 TTATGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:45965899 original size:37 final size:38
Alignment explanation
Indices: 45965867--45965941 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 38
45965857 ATATATTACG
*
45965867 TATATATATCTTTTAAATATTATATT-TTTATATATATCA
1 TATATATAT-TTTT-AATACTATATTATTTATATATATCA
*
45965906 TGTATATATTTTTAATACTATATTATTTATATATAT
1 TATATATATTTTTAATACTATATTATTTATATATAT
45965942 TTTTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 10 0.30
38 15 0.45
39 8 0.24
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (38 bp):
TATATATATTTTTAATACTATATTATTTATATATATCA
Found at i:45965929 original size:14 final size:13
Alignment explanation
Indices: 45965868--45965976 Score: 61
Period size: 14 Copynumber: 8.2 Consensus size: 13
45965858 TATATTACGT
45965868 ATATATATCTTTTAA
1 ATATATAT-TTTT-A
45965883 ATATTATATTTTT-
1 ATA-TATATTTTTA
**
45965896 ATATATA-TCAT-
1 ATATATATTTTTA
*
45965907 GTATATATTTTTA
1 ATATATATTTTTA
45965920 ATACTATATTATTT-
1 ATA-TATATT-TTTA
45965934 ATATATATTTTTA
1 ATATATATTTTTA
45965947 CATAT-TATCTTATGT-
1 -ATATATAT-TT-T-TA
45965962 ATATAT-TTTTTA
1 ATATATATTTTTA
45965974 ATA
1 ATA
45965977 ACTGTATTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
11 9 0.12
12 13 0.17
13 16 0.21
14 20 0.26
15 12 0.16
16 6 0.08
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (13 bp):
ATATATATTTTTA
Found at i:45965936 original size:25 final size:25
Alignment explanation
Indices: 45965887--45966080 Score: 134
Period size: 27 Copynumber: 7.8 Consensus size: 25
45965877 TTTTAAATAT
*
45965887 TATATTTTT-ATA-TATATCATGTA
1 TATATTTTTAATACTATATTATGTA
*
45965910 TATATTTTTAATACTATATTATTTATA
1 TATATTTTTAATACTATATTA--TGTA
* *
45965937 TATATTTTTACATATTATCTTATGTA
1 TATATTTTTA-ATACTATATTATGTA
*
45965963 TATATTTTTTAATAACTGTATTATGTA
1 TATA-TTTTTAAT-ACTATATTATGTA
* * ** *
45965990 TGTGTTTTTAACGCTGTATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
45966015 CATATTTTTAATAC-----TATGTA
1 TATATTTTTAATACTATATTATGTA
* * *
45966035 TATACTTTTTATTCCTATTATTACGTA
1 TATA-TTTTTAATACTA-TATTATGTA
45966062 TATA-TTTTAATACGTATAT
1 TATATTTTTAATAC-TATAT
45966081 GTAAATAAGT
Statistics
Matches: 133, Mismatches: 23, Indels: 28
0.72 0.12 0.15
Matches are distributed among these distances:
20 9 0.07
21 8 0.06
23 9 0.07
24 3 0.02
25 37 0.28
26 18 0.14
27 40 0.30
28 9 0.07
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:45965964 original size:28 final size:27
Alignment explanation
Indices: 45965887--45966031 Score: 110
Period size: 25 Copynumber: 5.6 Consensus size: 27
45965877 TTTTAAATAT
*
45965887 TATATTTTT-ATA-TATATCATG--TA
1 TATATTTTTAATACTATATTATGTATA
*
45965910 TATATTTTTAATACTATATTATTTATA
1 TATATTTTTAATACTATATTATGTATA
* *
45965937 TATATTTTTACATATTATCTTATGTATA
1 TATATTTTTA-ATACTATATTATGTATA
*
45965965 TAT-TTTTTAATAACTGTATTATG--TA
1 TATATTTTTAAT-ACTATATTATGTATA
* * ** *
45965990 TGTGTTTTTAACGCTGTATTATG--TA
1 TATATTTTTAATACTATATTATGTATA
*
45966015 CATATTTTTAATACTAT
1 TATATTTTTAATACTAT
45966032 GTATATACTT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
23 9 0.09
24 3 0.03
25 34 0.35
26 9 0.09
27 26 0.27
28 17 0.17
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (27 bp):
TATATTTTTAATACTATATTATGTATA
Found at i:45966419 original size:48 final size:48
Alignment explanation
Indices: 45966363--45966636 Score: 350
Period size: 48 Copynumber: 5.7 Consensus size: 48
45966353 TAAGATGCTA
* * * *
45966363 ATGCCATGTCCCAGACATAGTCTTACAATAGCTCTCGTAACAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
* * * *** *
45966411 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTTAGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
*
45966459 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
* * * *** * *
45966507 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
45966555 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
* *
45966603 ATGCCATGTTCCAAACATGGTCTTACACTGGCTC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTC
45966637 ACATGTACCC
Statistics
Matches: 188, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 188 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
Found at i:45966527 original size:96 final size:96
Alignment explanation
Indices: 45966363--45966640 Score: 502
Period size: 96 Copynumber: 2.9 Consensus size: 96
45966353 TAAGATGCTA
* * *
45966363 ATGCCATGTCCCAGACATAGTCTTACAATAGCTCTCGTAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
*
45966428 TGGTCTTACACTGGCTCACATATTTAGGCCG
66 TGGTCTTACACTGGCTCACATATTGAGGCCG
45966459 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
*
45966524 TGGTCTTACACTGGCTCACATATTGAGGCTG
66 TGGTCTTACACTGGCTCACATATTGAGGCCG
*
45966555 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
45966620 TGGTCTTACACTGGCTCACAT
66 TGGTCTTACACTGGCTCACAT
45966641 GTACCCTAAC
Statistics
Matches: 176, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 176 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATTGAGGCCG
Found at i:45968864 original size:13 final size:13
Alignment explanation
Indices: 45968846--45968877 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45968836 AGTTAAAATA
45968846 TTTATTCTTTCCT
1 TTTATTCTTTCCT
*
45968859 TTTATTCTTTTCT
1 TTTATTCTTTCCT
45968872 TTTATT
1 TTTATT
45968878 GAACACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTCTTTCCT
Found at i:45969198 original size:14 final size:14
Alignment explanation
Indices: 45969175--45969204 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45969165 CAAACAGTTC
45969175 TTTTTCTTCTTCTT
1 TTTTTCTTCTTCTT
*
45969189 TTTTTTTTCTTCTT
1 TTTTTCTTCTTCTT
45969203 TT
1 TT
45969205 CATTTCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTCTTCTT
Found at i:45970247 original size:35 final size:35
Alignment explanation
Indices: 45970193--45970263 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
45970183 TTTTACTCGG
*
45970193 TCGAGTTATTTATTCAAACTCAAATATCATCGGAA
1 TCGAGTTATTCATTCAAACTCAAATATCATCGGAA
45970228 TCGAGTTATTCA-TCTAAACTCAAATATCATCGGAA
1 TCGAGTTATTCATTC-AAACTCAAATATCATCGGAA
45970263 T
1 T
45970264 AATTTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (35 bp):
TCGAGTTATTCATTCAAACTCAAATATCATCGGAA
Found at i:45973551 original size:3 final size:3
Alignment explanation
Indices: 45973543--45973585 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45973533 CAAATTGCAA
45973543 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45973586 GTATTGCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45979677 original size:22 final size:21
Alignment explanation
Indices: 45979648--45979697 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
45979638 TTTAATATCA
45979648 TTAAAAAATTTACAT-AATTTC
1 TTAAAAAA-TTACATAAATTTC
45979669 TTAATAAAATTACATAAATTTC
1 TTAA-AAAATTACATAAATTTC
*
45979691 TTCAAAA
1 TTAAAAA
45979698 TTGATCCCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAAAATTACATAAATTTC
Found at i:45981588 original size:263 final size:260
Alignment explanation
Indices: 45981137--45981920 Score: 889
Period size: 266 Copynumber: 3.0 Consensus size: 260
45981127 TAATCACACC
* * *
45981137 TGTGAAATTAAGTATTGATAAGTTCTTGAGGTTAAATGTTGTGCAAGCATGATTTATAGTCCAAG
1 TGTGAAATTACGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCAAG
* * *
45981202 ACATACATGCCTCCACATTGATCATCACAAATC--TTCTAATCTTTTTTTACCAGTTGTTGTTGC
66 ACATACGTGCCTTCACATTGATCATTACAAATCTTTTCTAATCTTTTTTTACCAGTTGTTGTTGC
* * *
45981265 TCTAGAAGGGTAATGATTCTTTATACTTTATGCGGTGTATTTATGTATTTGCCCTTAACATAATA
131 TCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTTCCCTTAACATAATA
* * *
45981330 CTAAGGAACCTCCCTTTACTTTTCACAGGTTCAATCGAAATTTGAAGGAAGAACGTA-ATTATAA
196 CTAAGGAACCTCCCTTTGCTTTTCACAGGTTCAACCGAAATTTGAAGGAAGAAAGTACA-TATAA
45981394 T
260 T
* * * *
45981395 TGTGAAATTTCGTATTGGTAACTTCTTGAGGCCAAATGTTGGGCAAGCATGATTTATAGTCCAAG
1 TGTGAAATTACGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCAAG
* * * * * *
45981460 ATATACGTTCCTTTATATTGGTCATTACAAATCTTATTCTAATCTTTTTTTTTCCAGTTGTTTGT
66 ACATACGTGCCTTCACATTGATCATTACAAATCTT-TTCTAATC-TTTTTTTACCAGTTG-TTGT
* * * *
45981525 TGCTCTAGAAGGGTAATGATTCGTCATAATTTATGCGATGTATTTATGTATTTTCCCTTAACATA
128 TGCTCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTTCCCTTAACATA
* ** * *
45981590 ATACTGAGGAAACCTCGTTTTGCTTTTCACACGTTCAACCAAAATTTG-AGGTAA-AAAGTACAT
193 ATACTAAGG-AACCTCCCTTTGCTTTTCACAGGTTCAACCGAAATTTGAAGG-AAGAAAGTACAT
**
45981653 ATTTT
256 ATAAT
* * *
45981658 TACCGGTGAAATTACATATTGATAACTTTGTTGAGACTAAATGTTGTGCAAGCATGATTTATAGT
1 T----GTGAAATTACGTATTGATAAC-TTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGT
** * * * * * *
45981723 CCGGGACATAAGTGCCTTCACGTTGATCATTATAAATCTTGTTTTAATCTTTTTTTGCTAGTTGT
61 CCAAGACATACGTGCCTTCACATTGATCATTACAAATCTT-TTCTAATCTTTTTTTACCAGTTGT
* * * * * *
45981788 TCTTACTCCAGAAGGGTAATGATTCCTAATCCTTTATGCGGTATATTTATGTATTTTCCCTTTAC
125 TGTTGCTCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTTCCCTTAAC
* * * * * *
45981853 ATAATACTGAGGGAACCTCCCTTCGCTTTTCAC-GTCTTCAACCGAAATTTTAGGGAAG-AAGAA
190 ATAATACT-AAGGAACCTCCCTTTGCTTTTCACAG-GTTCAACCGAAATTTGAAGGAAGAAAGTA
45981916 CATAT
253 CATAT
45981921 TTACACTAGT
Statistics
Matches: 436, Mismatches: 73, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
258 83 0.19
261 8 0.02
262 14 0.03
263 85 0.19
264 35 0.08
266 105 0.24
267 35 0.08
268 71 0.16
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (260 bp):
TGTGAAATTACGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCAAG
ACATACGTGCCTTCACATTGATCATTACAAATCTTTTCTAATCTTTTTTTACCAGTTGTTGTTGC
TCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTTCCCTTAACATAATA
CTAAGGAACCTCCCTTTGCTTTTCACAGGTTCAACCGAAATTTGAAGGAAGAAAGTACATATAAT
Found at i:45981959 original size:7 final size:7
Alignment explanation
Indices: 45981943--45981973 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
45981933 ACCTTAATCT
45981943 TAAA-CC
1 TAAACCC
45981949 TAAACCC
1 TAAACCC
45981956 TAAACCC
1 TAAACCC
45981963 TAAACCC
1 TAAACCC
45981970 TAAA
1 TAAA
45981974 TCATAATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:45982308 original size:385 final size:389
Alignment explanation
Indices: 45981586--45982308 Score: 898
Period size: 389 Copynumber: 1.9 Consensus size: 389
45981576 TTTCCCTTAA
** * * *
45981586 CATAATACTGAGGAAACCTCGTTTTGCTTTTCACACGTTCAACCAAAATTTGAGGTAAAAAGTAC
1 CATAATACTGAGGAAACCTCCCTTTGCTTTTCACACGTTCAACCAAAAATTGAGGGAAAAAGAAC
* * ** * * *
45981651 ATATTTTTACCGGTGAAATTACATATTGATAACTTTGTTGAGACTAAATGTTGTGCAAGCATGAT
66 ATAATTATACAAGTAAAATTACATATTGATAACTTTCTTGAGACCAAATGTTGTGCAAGCATGAT
* * * * * * *
45981716 TTATAGTCCGGGACATAAGTGCCTTCACGTTGATCATTATAAATCTTGTTTTAATCTTTTTTTGC
131 TTATAGTCCGAGACATAAGTGCCTTCACGTTAATCATTACAAATCTTATTCTAATCATTTTTTCC
* * * * * *
45981781 TAGTTGTTCTTACTCCAGAAGGGTAATGATTCCTAATCCTTTATGCGGTATATTTATGTATTTTC
196 CAGTTGTTCTTACTCCAGAAGGGTAATGATTACTAATACTTTATGCGGCATATTTACGTATTTTA
* * * * *
45981846 CCTTTACATAATACTGAGGGAACCTCCCTTCGCTTTTCACGTCTTCAACCGAAATTTTAGGGAAG
261 CCTTAACATAATACTAAGAGAACCTCCCTTCGCTTTTCACATCTTCAACCGAAATTTGAGGGAAG
45981911 AAGAACATATTTACACTAGTAAACCTTAATCTTAAACCTAAACCCTAAACCCTAAACCCTAAAT
326 AAGAACATATTTACACTAGTAAACCTTAATCTTAAACCTAAACCCTAAACCCTAAACCCTAAAT
* * * * *
45981975 CATAATACTGAGGGAACCTCCCTTTGCTTTTTACATGTTCAACCAAAAATTGAGGGAAGAAGAAT
1 CATAATACTGAGGAAACCTCCCTTTGCTTTTCACACGTTCAACCAAAAATTGAGGGAAAAAGAAC
* * * *
45982040 TTAATTATACAAGTAAAATTA-AGTATTGATAAC-TTCTTGAGGCCAAATGTTGTGGAAGCATGG
66 ATAATTATACAAGTAAAATTACA-TATTGATAACTTTCTTGAGACCAAATGTTGTGCAAGCATGA
* * *
45982103 TTTATATTCCGAGACATACGTGCCTTCATGTTAATCATTACAAATCTTATTCTAAT-ATTTTTTC
130 TTTATAGTCCGAGACATAAGTGCCTTCACGTTAATCATTACAAATCTTATTCTAATCATTTTTTC
* * * * * * * *
45982167 CCAGTTTTTCTTGCTCTAGAAGGGTAATTA-TAGTAATACTTTATGTGGCGTTTTTACGTA-TTT
195 CCAGTTGTTCTTACTCCAGAAGGGTAATGATTACTAATACTTTATGCGGCATATTTACGTATTTT
* ** * *
45982230 ACCTTAACATAATACTAAGAGAACCTCTCTTTTCTTTTCACATCTTTAATCGAAATTTGAGGGAA
260 ACCTTAACATAATACTAAGAGAACCTCCCTTCGCTTTTCACATCTTCAACCGAAATTTGAGGGAA
*
45982295 TAAGAACATATTTA
325 GAAGAACATATTTA
45982309 TACCTGTAAT
Statistics
Matches: 277, Mismatches: 56, Indels: 6
0.82 0.17 0.02
Matches are distributed among these distances:
385 70 0.25
386 22 0.08
387 31 0.11
388 74 0.27
389 80 0.29
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (389 bp):
CATAATACTGAGGAAACCTCCCTTTGCTTTTCACACGTTCAACCAAAAATTGAGGGAAAAAGAAC
ATAATTATACAAGTAAAATTACATATTGATAACTTTCTTGAGACCAAATGTTGTGCAAGCATGAT
TTATAGTCCGAGACATAAGTGCCTTCACGTTAATCATTACAAATCTTATTCTAATCATTTTTTCC
CAGTTGTTCTTACTCCAGAAGGGTAATGATTACTAATACTTTATGCGGCATATTTACGTATTTTA
CCTTAACATAATACTAAGAGAACCTCCCTTCGCTTTTCACATCTTCAACCGAAATTTGAGGGAAG
AAGAACATATTTACACTAGTAAACCTTAATCTTAAACCTAAACCCTAAACCCTAAACCCTAAAT
Found at i:45985263 original size:24 final size:23
Alignment explanation
Indices: 45985224--45985282 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
45985214 ATTGAAATAG
45985224 GAAAGAATAAAAAAAAATCA-TA
1 GAAAGAATAAAAAAAAATCATTA
45985246 TGAAAGAATTAAAAAAAAATCATTA
1 -GAAAGAA-TAAAAAAAAATCATTA
*
45985271 GAAAGAAGAAAA
1 GAAAGAATAAAA
45985283 TGATTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 11 0.33
24 20 0.61
25 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.12, T:0.15
Consensus pattern (23 bp):
GAAAGAATAAAAAAAAATCATTA
Found at i:45987277 original size:40 final size:40
Alignment explanation
Indices: 45987222--45987302 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
45987212 TTTAGGAACT
*
45987222 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAATTGA
1 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
45987262 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
1 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
45987302 A
1 A
45987303 CCAACAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (40 bp):
AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
Found at i:45988680 original size:16 final size:16
Alignment explanation
Indices: 45988647--45988680 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45988637 GGTAAGTGTT
* *
45988647 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
45988663 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
45988679 AA
1 AA
45988681 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:45991504 original size:21 final size:21
Alignment explanation
Indices: 45991478--45991518 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45991468 AGACGAGCAA
* *
45991478 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
45991499 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
45991519 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:45993456 original size:16 final size:16
Alignment explanation
Indices: 45993423--45993456 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45993413 GGAGATTGTT
* *
45993423 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
45993439 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
45993455 AA
1 AA
45993457 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:45994499 original size:103 final size:103
Alignment explanation
Indices: 45994320--45994527 Score: 317
Period size: 103 Copynumber: 2.0 Consensus size: 103
45994310 GCTATATCTG
* * * * *
45994320 ATTTTTCTATTCTAAGTATAGTGTTGATTTTTCCGTTGCTTGTATTCTACTAGTTTGAACTCCCT
1 ATTTTTCTATTCTAAGTACAATGCTGATTTTTCCATTGCTTGTATTCTACTAGCTTGAACTCCCT
45994385 GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
66 GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
* * *
45994423 ATTTTTCTATTCTGAGTACAATGCTGATTTTTCTATTGCTTGTATTCTACTAGCTTGAACTCCGT
1 ATTTTTCTATTCTAAGTACAATGCTGATTTTTCCATTGCTTGTATTCTACTAGCTTGAACTCCCT
* * *
45994488 GTTTTGTCTTTATTGCCATATATGCTATTTCCATAAGA
66 GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
45994526 AT
1 AT
45994528 AACCTAGTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 94 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (103 bp):
ATTTTTCTATTCTAAGTACAATGCTGATTTTTCCATTGCTTGTATTCTACTAGCTTGAACTCCCT
GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
Found at i:45995917 original size:14 final size:15
Alignment explanation
Indices: 45995900--45995932 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45995890 TTTGAAACAG
*
45995900 AAAACA-TTTACTTA
1 AAAACATTTTAATTA
45995914 AAAACATTTTAATTA
1 AAAACATTTTAATTA
45995929 AAAA
1 AAAA
45995933 TAATTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAACATTTTAATTA
Found at i:46011716 original size:34 final size:34
Alignment explanation
Indices: 46011631--46011737 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 34
46011621 GATTCTTTGT
* *
46011631 CTGCATACTG-TACTGATATGGGCTAAGGCCGAAA
1 CTGC-TACTGTTACTGAAATGGGCTAAGGCCTAAA
** * *
46011665 CTGCTTTTATCACTGAAATGGGCTAAGGCCTAAA
1 CTGCTACTGTTACTGAAATGGGCTAAGGCCTAAA
* * *
46011699 CTGCTACTGTTATTGAAAAGAGGCTAAGGCTCTTAA
1 CTGCTACTGTTACTGAAATG-GGCTAAGGC-CTAAA
46011735 CTG
1 CTG
46011738 AAACTAAAAC
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
33 2 0.04
34 39 0.68
35 9 0.16
36 7 0.12
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (34 bp):
CTGCTACTGTTACTGAAATGGGCTAAGGCCTAAA
Found at i:46013661 original size:84 final size:84
Alignment explanation
Indices: 46013573--46013761 Score: 279
Period size: 84 Copynumber: 2.2 Consensus size: 84
46013563 ACCAATATCG
*
46013573 AATAAAATCTTGTTAAACGGCAGGAATAAATCTCAAAAAATATTTTATTTAACTCAATTCAAATT
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCTCAAAAAAGATTTTATTTAACTCAATTCAAATT
* *
46013638 AGAAAACAAAATAAAATCA
66 AGAAAACAAAAGAAAATAA
* * ** * * *
46013657 AATAAAATCTTTTTAAATGGTGGGAATAAATCTCAAAACAGATTTTATTTAATTTAATTCAAATT
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCTCAAAAAAGATTTTATTTAACTCAATTCAAATT
*
46013722 AGGAAACAAAAGAAAATAA
66 AGAAAACAAAAGAAAATAA
46013741 AATAAAATCTTGTTAAACGGC
1 AATAAAATCTTGTTAAACGGC
46013762 TGTAACACCC
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (84 bp):
AATAAAATCTTGTTAAACGGCAGGAATAAATCTCAAAAAAGATTTTATTTAACTCAATTCAAATT
AGAAAACAAAAGAAAATAA
Found at i:46015549 original size:6 final size:6
Alignment explanation
Indices: 46015538--46015578 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
46015528 GAAACTTTGA
* *
46015538 AAAAAG AAAAAG AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
46015579 TAGAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:46016584 original size:14 final size:13
Alignment explanation
Indices: 46016550--46016575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46016540 CAAATGGGTA
46016550 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
46016563 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
46016576 CAGTTTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTGCAAAT
Found at i:46018163 original size:14 final size:14
Alignment explanation
Indices: 46018140--46018179 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46018130 ACAGAAAAGT
*
46018140 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
46018154 AAATCATTTTACGG
1 AAAACATTTTACAG
46018168 AAAACATTTTAC
1 AAAACATTTTAC
46018180 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46018165 original size:34 final size:35
Alignment explanation
Indices: 46018105--46018171 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46018095 CAAACATCAG
* *
46018105 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46018140 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46018172 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46018341 original size:87 final size:87
Alignment explanation
Indices: 46018235--46018426 Score: 255
Period size: 87 Copynumber: 2.2 Consensus size: 87
46018225 TCTATTCTAA
* * * *
46018235 TTTGGAAATAAAATAAAATCAAATAAAAT-TTTGTTAAACGACGGGAATAAATCTCA-AAATAGG
1 TTTGGAAAAAAAATCAAATCAAAT-AAATCTTTATTAAACGACGGGAATAAATC-CAGAAATAGA
*
46018298 TTTAATTTAATTTAATTTATCGTT
64 TTTAATTTAATTTAATTTATCATT
*
46018322 TTTGGAAAAAAAATCAAATCAAATAAATCTTTATTAAACGGCGGGAATAAATCCAGAAATAGATT
1 TTTGGAAAAAAAATCAAATCAAATAAATCTTTATTAAACGACGGGAATAAATCCAGAAATAGATT
* *
46018387 TTATTTTATTTAATTTATCATT
66 TAATTTAATTTAATTTATCATT
*
46018409 TTT-GACAACAAAATCAAA
1 TTTGGA-AAAAAAATCAAA
46018427 ATTTAATAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
86 8 0.09
87 85 0.91
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (87 bp):
TTTGGAAAAAAAATCAAATCAAATAAATCTTTATTAAACGACGGGAATAAATCCAGAAATAGATT
TAATTTAATTTAATTTATCATT
Found at i:46018475 original size:86 final size:86
Alignment explanation
Indices: 46018198--46018489 Score: 242
Period size: 87 Copynumber: 3.4 Consensus size: 86
46018188 AAACATACCC
* * *
46018198 TAAATCCCGAAACAGATTTTATTTAATTCT-ATTCTA--A--TTTGGAAATAAAATAAAATCAAA
1 TAAATCCAGAAACAGATTTTATTTAATT-TAATT-TATCATTTTTGGAAAAAAAATCAAATCAAA
* ** * *
46018258 TAAAATTTTGTTAAACGACGGGAA
64 T-AAATCTCATTAAACGGCAGGAA
* * * *
46018282 TAAATCTCA-AAATAGGTTTAATTTAATTTAATTTATCGTTTTTGGAAAAAAAATCAAATCAAAT
1 TAAATC-CAGAAACAGATTTTATTTAATTTAATTTATCATTTTTGGAAAAAAAATCAAATCAAAT
* *
46018346 AAATCTTTATTAAACGGCGGGAA
65 AAATC-TCATTAAACGGCAGGAA
* * * **
46018369 TAAATCCAGAAATAGATTTTATTTTATTTAATTTATCATTTTT-GACAACAAAATCAAAATTTAA
1 TAAATCCAGAAACAGATTTTATTTAATTTAATTTATCATTTTTGGA-AAAAAAATC-AAATCAAA
46018433 TAAATC-CATTAAACGGCAGGAA
64 TAAATCTCATTAAACGGCAGGAA
* * *
46018455 TCAATCCCA-AAACGGATTTTATTTACCTTTAATTT
1 TAAAT-CCAGAAACAGATTTTATTTA-ATTTAATTT
46018490 CCCGTTTGAA
Statistics
Matches: 172, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
83 3 0.02
84 25 0.15
85 1 0.01
86 39 0.23
87 92 0.53
88 12 0.07
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (86 bp):
TAAATCCAGAAACAGATTTTATTTAATTTAATTTATCATTTTTGGAAAAAAAATCAAATCAAATA
AATCTCATTAAACGGCAGGAA
Found at i:46018550 original size:89 final size:89
Alignment explanation
Indices: 46018451--46018667 Score: 296
Period size: 89 Copynumber: 2.4 Consensus size: 89
46018441 TTAAACGGCA
* *
46018451 GGAATCAATCCCAAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATAGAAA-CAAAATA
1 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATA-AAATCAAAATA
* *
46018515 ATATAATAAAA-TCTATTGAACAG-CG
65 ATAGAATAAAATTC-ATCGAA-AGACG
*
46018540 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGGAAATAAAATCAAAATAA
1 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATAAAATCAAAATAA
* *
46018605 TAGAATAAAATTCGTCGAATGACG
66 TAGAATAAAATTCATCGAAAGACG
* * *
46018629 GGAATAAATCTCGAAACGAATTTTATTTACTTTTAATTT
1 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTT
46018668 TGGAAAAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
88 4 0.03
89 109 0.95
90 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (89 bp):
GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATAAAATCAAAATAA
TAGAATAAAATTCATCGAAAGACG
Found at i:46020473 original size:12 final size:12
Alignment explanation
Indices: 46020453--46020487 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
46020443 AATTTTGGGC
46020453 AAGAATAGGAAT
1 AAGAATAGGAAT
*
46020465 AAGAGTAGGAAT
1 AAGAATAGGAAT
46020477 AAGAATAGGAA
1 AAGAATAGGAA
46020488 AGCGCACGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (12 bp):
AAGAATAGGAAT
Found at i:46021736 original size:20 final size:19
Alignment explanation
Indices: 46021682--46021756 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
46021672 ATTATTCTAG
46021682 AAAATTTT-TAATTTTTTT
1 AAAATTTTATAATTTTTTT
**
46021700 AACTTTTTTATATATTTTTTT
1 AA-AATTTTATA-ATTTTTTT
*
46021721 GAAAATTTTATAATTTTTAT
1 -AAAATTTTATAATTTTTTT
*
46021741 AAATATTTTAAAATTT
1 AAA-ATTTTATAATTT
46021757 AAAATTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.04
19 7 0.15
20 20 0.43
21 15 0.33
22 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (19 bp):
AAAATTTTATAATTTTTTT
Done.