Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 145 of 320
Found at i:47503524 original size:43 final size:43
Alignment explanation
Indices: 47503378--47503536 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
47503368 TATGTGTTAT
* *
47503378 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTA
** * *
47503422 CGTGTAAGACCACGTCTGGGACATTGGTGTCG-TACTTGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
** * *
47503464 CGTGTAAGATTATGTCTGGGACAATGGCATCGATATTTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
* *
47503507 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
47503537 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 29 0.31
43 35 0.38
44 29 0.31
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:47514503 original size:24 final size:25
Alignment explanation
Indices: 47514476--47514531 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
47514466 CTTTTTTTAT
*
47514476 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
47514500 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
47514525 -AAATAAA
1 TAAATAAA
47514532 TATTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:47514517 original size:25 final size:23
Alignment explanation
Indices: 47514488--47514552 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
47514478 AATAAAAAAC
*
47514488 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
47514513 TTTAAAACATAAAAATAAAT--A
1 TTTAAAACATAAAAATAAATACA
*
47514534 -TTAAAACA-ATAAATAAATA
1 TTTAAAACATAAAAATAAATA
47514553 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 4 0.11
24 4 0.11
25 11 0.30
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:47514547 original size:19 final size:20
Alignment explanation
Indices: 47514514--47514552 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
47514504 TCAAATACAT
47514514 TTAAAACATAAAAATAAATA
1 TTAAAACATAAAAATAAATA
*
47514534 TTAAAACA-ATAAATAAATA
1 TTAAAACATAAAAATAAATA
47514553 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAAAACATAAAAATAAATA
Found at i:47514551 original size:23 final size:23
Alignment explanation
Indices: 47514498--47514556 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
47514488 TTTAAAATAT
*
47514498 AATAAATCAAATACAT-TTAAAAC
1 AATAAAT-AAATAAATATTAAAAC
47514521 -AT-AA-AAATAAATATTAAAAC
1 AATAAATAAATAAATATTAAAAC
47514541 AATAAATAAATAAATA
1 AATAAATAAATAAATA
47514557 ATGGGACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 4 0.13
22 4 0.13
23 9 0.29
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (23 bp):
AATAAATAAATAAATATTAAAAC
Found at i:47515820 original size:58 final size:58
Alignment explanation
Indices: 47515730--47515898 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
47515720 ACGCCTATCG
47515730 AATATGAAAAAGGG-TGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCA
1 AATATG-AAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCA
* *
47515788 AATATGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATGGTTTTGACCATCA
1 AATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCA
*
47515846 AATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGTATGGTTTCGAC
1 AATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGAC
47515899 TATTGTTTAG
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
57 7 0.07
58 98 0.93
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (58 bp):
AATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCA
Found at i:47515898 original size:29 final size:29
Alignment explanation
Indices: 47515726--47515892 Score: 237
Period size: 29 Copynumber: 5.8 Consensus size: 29
47515716 ATCGACGCCT
47515726 ATCGAATATGAAAAAGGG-TGGTGACGACC
1 ATCGAATATG-AAAAGGGATGGTGACGACC
**
47515755 ATCGAATATGAAAAGGGATGGTTTCGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
*
47515784 ATCAAATATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* ***
47515813 ATTGAATATGAAAAGGGATGGTTTTGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
*
47515842 ATCAAATATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
*
47515871 ATCGAATATGAAAAGGTATGGT
1 ATCGAATATGAAAAGGGATGGT
47515893 TTCGACTATT
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
28 7 0.06
29 113 0.94
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:47518416 original size:20 final size:20
Alignment explanation
Indices: 47518387--47518427 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47518377 AGCACATGTA
47518387 TTCATAAAATTTCAAAATTT
1 TTCATAAAATTTCAAAATTT
* *
47518407 TTCATCAAATTTCAGAATTT
1 TTCATAAAATTTCAAAATTT
47518427 T
1 T
47518428 GCATTTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (20 bp):
TTCATAAAATTTCAAAATTT
Found at i:47522687 original size:43 final size:42
Alignment explanation
Indices: 47522564--47522754 Score: 176
Period size: 43 Copynumber: 4.5 Consensus size: 42
47522554 CAATGTCATA
* * *
47522564 TCCCAGATATGGTCTTACATGC-TAA-CACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACA--CATAATCACA-ATAGATGCCAATG
* * * * *
47522607 TCCTAGACAGGGTCTTACTCAAAATCA-ATTGACGATGCCAATG
1 TCCCAGACATGGTCTTACACATAATCACAAT-A-GATGCCAATG
*
47522650 TCCCAGACATGGTCTTACACATAATCGTATAAT-GATGCCAATG
1 TCCCAGACATGGTCTTACACATAATC--ACAATAGATGCCAATG
*
47522693 TCCCAGACATGGTCTTACACATAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACATAATCACAATA-GATGCCAATG
47522736 AT-CCAGACATGGTCTTACA
1 -TCCCAGACATGGTCTTACA
47522755 TGTAATCTCA
Statistics
Matches: 123, Mismatches: 15, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
41 6 0.05
42 3 0.02
43 110 0.89
44 1 0.01
45 1 0.01
46 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACATAATCACAATAGATGCCAATG
Found at i:47522761 original size:86 final size:86
Alignment explanation
Indices: 47522564--47522761 Score: 224
Period size: 86 Copynumber: 2.3 Consensus size: 86
47522554 CAATGTCATA
* * * *
47522564 TCCCAGATATGGTCTTACATGCTAA-CACATATCGATGCCACTGTCCTAGACAGGGTCTTACTCA
1 TCCCAGACATGGTCTTACATG-TAATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACA
* *
47522628 AAATCAATTGACGATGCCAATG
65 AAATCAAATGACAATGCCAATG
** ** *
47522650 TCCCAGACATGGTCTTACACATAATCGTATAAT-GATGCCAATGTCCCAGACATGGTCTTACACA
1 TCCCAGACATGGTCTTACATGTAATCACAT-ATCGATGCCAATGTCCCAGACAGGGTCTTACACA
*
47522714 TAATCACAAT-ACAATGCCAATG
65 AAATCA-AATGACAATGCCAATG
47522736 AT-CCAGACATGGTCTTACATGTAATC
1 -TCCCAGACATGGTCTTACATGTAATC
47522762 TCATCTAGGT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
85 3 0.03
86 86 0.91
87 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (86 bp):
TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACAA
AATCAAATGACAATGCCAATG
Found at i:47544694 original size:6 final size:6
Alignment explanation
Indices: 47544683--47544758 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
47544673 AGACAACCAA
*
47544683 ATTTTT ATTTTT ATTTTT A-TTTT A-GTTT A-TTTT ATTTTT ATTTATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT
* * *
47544729 TTTTCTT ATTATT -TTCTT ATTTATT ATTTT
1 ATTT-TT ATTTTT ATTTTT ATTT-TT ATTTT
47544759 CAAATATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 17 0.29
6 26 0.45
7 15 0.26
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:47544705 original size:11 final size:11
Alignment explanation
Indices: 47544683--47544758 Score: 70
Period size: 10 Copynumber: 7.0 Consensus size: 11
47544673 AGACAACCAA
47544683 ATTTTTATTTTT
1 ATTTTTA-TTTT
47544695 ATTTTTATTTT
1 ATTTTTATTTT
*
47544706 A-GTTTATTTT
1 ATTTTTATTTT
47544716 ATTTTTA-TTT
1 ATTTTTATTTT
*
47544726 ATTTTT-TCTT
1 ATTTTTATTTT
*
47544736 ATTATTT-TCTT
1 ATT-TTTATTTT
47544747 ATTTATTATTTT
1 ATTT-TTATTTT
47544759 CAAATATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 24 0.44
11 21 0.38
12 10 0.18
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:47544717 original size:15 final size:15
Alignment explanation
Indices: 47544685--47544758 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
47544675 ACAACCAAAT
47544685 TTTTATTTTTA--T-
1 TTTTATTTTTATTTA
47544697 TTTTA-TTTTAGTTTA
1 TTTTATTTTTA-TTTA
47544712 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
*
47544727 TTTT-TTCTTA-TTA
1 TTTTATTTTTATTTA
*
47544740 TTTTCTTATTTA-TTA
1 TTTTATT-TTTATTTA
47544755 TTTT
1 TTTT
47544759 CAAATATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
11 5 0.09
12 5 0.09
13 7 0.13
14 8 0.15
15 23 0.43
16 5 0.09
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:47544737 original size:25 final size:26
Alignment explanation
Indices: 47544685--47544759 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
47544675 ACAACCAAAT
*
47544685 TTTTATTTTTATTT-TTATTTTAGTTTA
1 TTTTATTTTTATTTATTATTTT--CTTA
47544712 TTTTATTTTTATTTATT-TTTTCTTA
1 TTTTATTTTTATTTATTATTTTCTTA
*
47544737 TTATT-TTCTTATTTATTATTTTC
1 TT-TTATTTTTATTTATTATTTTC
47544760 AAATATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 16 0.37
26 7 0.16
27 18 0.42
28 2 0.05
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (26 bp):
TTTTATTTTTATTTATTATTTTCTTA
Found at i:47546194 original size:15 final size:15
Alignment explanation
Indices: 47546174--47546203 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47546164 CATTTTATTT
*
47546174 ATATTAGGATAATTA
1 ATATTAAGATAATTA
47546189 ATATTAAGATAATTA
1 ATATTAAGATAATTA
47546204 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:47546231 original size:27 final size:26
Alignment explanation
Indices: 47546170--47546232 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
47546160 ATTCCATTTT
47546170 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
47546197 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
47546225 ATTTTATT
1 ATTTTATT
47546233 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:47556691 original size:18 final size:18
Alignment explanation
Indices: 47556640--47556692 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
47556630 GGCTAAGGAC
47556640 TAAATTAGAAATCAAAATTAT
1 TAAA-TAGAAAT--AAATTAT
*
47556661 TAAA-AGATGATAAATTAT
1 TAAATAGA-AATAAATTAT
47556679 TAAATAGAAATAAA
1 TAAATAGAAATAAA
47556693 AATCATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 16 0.57
19 6 0.21
20 2 0.07
21 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (18 bp):
TAAATAGAAATAAATTAT
Found at i:47568016 original size:55 final size:54
Alignment explanation
Indices: 47567921--47568070 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
47567911 CTACTTTGTT
* ** * *
47567921 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
47567975 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
47568030 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
47568071 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:47568033 original size:27 final size:27
Alignment explanation
Indices: 47567893--47568070 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
47567883 TAAATTGTAC
47567893 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
47567920 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
47567946 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
47567974 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
47568002 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
47568029 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
47568056 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47568071 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:47568034 original size:82 final size:81
Alignment explanation
Indices: 47567894--47568049 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
47567884 AAATTGTACA
* * * *
47567894 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
47567959 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
47567975 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
47568038 TGTGCGAGTTGA
63 TGTGCGAATTGA
47568050 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:47585613 original size:11 final size:10
Alignment explanation
Indices: 47585590--47585635 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
47585580 TGTAAAAATG
*
47585590 GAAACAAAAA
1 GAAAAAAAAA
*
47585600 -AAAAAAGAA
1 GAAAAAAAAA
47585609 GAAAAAAAAA
1 GAAAAAAAAA
47585619 -AGAAAAAAAA
1 GA-AAAAAAAA
47585629 GAAAAAA
1 GAAAAAA
47585636 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.27
10 21 0.70
11 1 0.03
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:47585613 original size:14 final size:14
Alignment explanation
Indices: 47585596--47585637 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
47585586 AATGGAAACA
47585596 AAAAAAAAAAGAAG
1 AAAAAAAAAAGAAG
47585610 AAAAAAAAAAGAA-
1 AAAAAAAAAAGAAG
47585623 AAAAAAGAAAA-AAG
1 AAAAAA-AAAAGAAG
47585637 A
1 A
47585638 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAG
Found at i:47585624 original size:20 final size:19
Alignment explanation
Indices: 47585590--47585635 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
47585580 TGTAAAAATG
* *
47585590 GAAACAAAAAAAAAAAGAA
1 GAAAAAAAAAAAAAAAAAA
47585609 GAAAAAAAAAAGAAAAAAAA
1 GAAAAAAAAAA-AAAAAAAA
47585629 GAAAAAA
1 GAAAAAA
47585636 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAAAAAAAAA
Found at i:47596973 original size:39 final size:39
Alignment explanation
Indices: 47596919--47597044 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
47596909 TTCAGTGATG
*
47596919 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
47596958 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
47596997 TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
47597036 TATGTCCGG
1 TATATCCGG
47597045 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:47597071 original size:78 final size:78
Alignment explanation
Indices: 47596919--47597078 Score: 198
Period size: 78 Copynumber: 2.1 Consensus size: 78
47596909 TTCAGTGATG
* * * **
47596919 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
47596984 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
47596997 TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGTAGG
1 TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
47597061 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
47597075 TATA
1 TATA
47597079 CCGGGTTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 5 0.07
78 65 0.93
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (78 bp):
TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:47602682 original size:27 final size:27
Alignment explanation
Indices: 47602652--47602829 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47602642 ATATTGAGCC
* * * *
47602652 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47602679 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47602706 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47602734 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47602761 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47602788 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47602815 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47602830 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47602791 original size:82 final size:81
Alignment explanation
Indices: 47602673--47602828 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47602663 TGCTATATAA
* *
47602673 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47602738 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47602755 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47602819 CACTTAGTGC
65 CACTTAGTGC
47602829 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47623043 original size:34 final size:34
Alignment explanation
Indices: 47622970--47623056 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
47622960 TGTACTGAAT
* *
47622970 TGGGCTAAGGCCCACACTGCTACTATTACCATAA
1 TGGGCTAAGGCCCACACTGATACTACTACCATAA
* * *
47623004 TGGGCTAAGGCCCACACTGATATTGCTACTGATAA
1 TGGGCTAAGGCCCACACTGATACTACTAC-CATAA
* *
47623039 -GGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
47623057 TTTACACTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 41 0.91
35 4 0.09
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTACTACCATAA
Found at i:47626139 original size:42 final size:43
Alignment explanation
Indices: 47626020--47626191 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
47626010 CATAGGATTC
* * *
47626020 CGATATGTGATTTTGTGTAAGACCATGTCTGGGA-TGTTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
* *
47626063 CGATTTGA-GATTTACGTGTAAGACCATGTCTGGGACA-TCGGCGT
1 CGATAT-ATGATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
* *
47626107 C-ATATATGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * * *
47626149 CGATATTTGATTACATGTAAGACCACGTCCGGGAC-GCTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
47626192 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
42 28 0.27
43 52 0.50
44 25 0.24
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
CGATATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:47629809 original size:28 final size:29
Alignment explanation
Indices: 47629776--47629832 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
47629766 CTCTGAAATA
*
47629776 CTGATAT-CATGGCCTGAAGCCAAATCAG
1 CTGATATGCATGGCCCGAAGCCAAATCAG
47629804 CTGATATGCATGGCCCGAAGCCAAATCAG
1 CTGATATGCATGGCCCGAAGCCAAATCAG
47629833 TTTATCACGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (29 bp):
CTGATATGCATGGCCCGAAGCCAAATCAG
Found at i:47632231 original size:47 final size:47
Alignment explanation
Indices: 47631745--47632267 Score: 749
Period size: 47 Copynumber: 11.1 Consensus size: 47
47631735 GAAATGATAG
47631745 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
47631794 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47631841 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47631888 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
47631935 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
47631982 TAGGGCCTAATAGCCGAGGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
47632029 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
47632076 TAAGGCCTAATAGCTGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47632123 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47632170 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
47632217 CAAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47632264 TAAG
1 TAAG
47632268 TCCCGAAAGG
Statistics
Matches: 445, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
47 410 0.92
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47632442 original size:37 final size:37
Alignment explanation
Indices: 47632386--47632464 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47632376 CCGAGCTCTA
* * *
47632386 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47632423 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47632460 AAGAC
1 AAGAC
47632465 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47635307 original size:27 final size:26
Alignment explanation
Indices: 47635259--47635318 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
47635249 GCGAGGCTGC
*
47635259 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
47635286 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
47635312 CAGATAT
1 CAGATAT
47635319 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47645414 original size:28 final size:26
Alignment explanation
Indices: 47645364--47645449 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
47645354 AGCATGGCTG
* * *
47645364 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
47645390 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
47645418 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
47645445 CCAGA
1 CCAGA
47645450 TCAAATCAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47650654 original size:27 final size:26
Alignment explanation
Indices: 47650624--47650708 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
47650614 AGCATGGCTG
47650624 CCAGAACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATAAT-GTGGCAAAGCCA
*
47650651 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAAAGCCA
* **
47650678 CCAGATCAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATAA-TGTGGCAAAGCCA
47650705 CCAG
1 CCAG
47650709 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 49 0.94
28 2 0.04
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAAAGCCA
Found at i:47657045 original size:44 final size:45
Alignment explanation
Indices: 47656979--47657088 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 45
47656969 GTGTTGCAGA
* *
47656979 AAAGGATTTGGCCCGGATGGGTAATCTGTTGATCTCAAATAT-AG
1 AAAGGATCTAGCCCGGATGGGTAATCTGTTGATCTCAAATATAAG
*
47657023 AAAGGATCTAGCCCGGACGGGTAATCTGTTGATCTCAAATATAAG
1 AAAGGATCTAGCCCGGATGGGTAATCTGTTGATCTCAAATATAAG
*
47657068 AAA-GATCTAGCCGGGATGGGT
1 AAAGGATCTAGCCCGGATGGGT
47657089 GTTCTTTGAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 55 0.92
45 5 0.08
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (45 bp):
AAAGGATCTAGCCCGGATGGGTAATCTGTTGATCTCAAATATAAG
Found at i:47660162 original size:40 final size:40
Alignment explanation
Indices: 47659931--47660155 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
47659921 TTGAATGATG
* * * *
47659931 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
47659971 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47660011 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
47660050 TCCGGG-TCAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
47660090 TCCGGGTTAAGTCTCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47660131 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47660156 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.21
40 115 0.72
41 11 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47660162 original size:80 final size:79
Alignment explanation
Indices: 47659984--47660191 Score: 237
Period size: 80 Copynumber: 2.6 Consensus size: 79
47659974 GGACTAAGAT
* * * *
47659984 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCTCGAAGGTATTGGTGCGAGTTACTA
47660048 AATCCGGGTCAAGTC
65 AATCCGGGTCAAGTC
*
47660063 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCTCGAAGGTATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCTCGAAGGTATTGGTGCGAGTTACTA
*
47660128 TAA-CCGGG-CTATGTC
65 -AATCCGGGTC-AAGTC
** * *
47660143 CCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAAT-TCCGAAGGTAT
1 CCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCT-CGAAGGTAT
47660192 GTGATTTGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 54 0.48
80 56 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCTCGAAGGTATTGGTGCGAGTTACTAA
ATCCGGGTCAAGTC
Found at i:47666414 original size:19 final size:19
Alignment explanation
Indices: 47666392--47666429 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
47666382 TTTAAATTTA
47666392 AATT-TTTATTTTATTTTCT
1 AATTCTTTA-TTTATTTTCT
47666411 AATTCTTTATTTATTTTCT
1 AATTCTTTATTTATTTTCT
47666430 TCGAACAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTCTTTATTTATTTTCT
Found at i:47671230 original size:40 final size:40
Alignment explanation
Indices: 47671146--47671370 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
47671136 TTGAATGATG
* * *
47671146 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
47671185 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
47671226 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47671265 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
47671304 AACCGGGCTGAGTCCCGAAGGCATTTGTGCGAGGCACT-AT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47671344 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47671371 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 34 0.22
40 114 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:47679505 original size:40 final size:40
Alignment explanation
Indices: 47679275--47679498 Score: 242
Period size: 40 Copynumber: 5.6 Consensus size: 40
47679265 CGAATGATGT
* * * *
47679275 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTATAA
* * *
47679315 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTCACTATA-A
* * * *
47679355 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACCA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
* * *
47679393 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
47679434 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
*
47679474 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47679499 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
Found at i:47679512 original size:80 final size:80
Alignment explanation
Indices: 47679274--47679517 Score: 275
Period size: 80 Copynumber: 3.1 Consensus size: 80
47679264 TCGAATGATG
* * * *
47679274 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACCATAACCGGGCTAAG-TCCCGAAGGCAT
47679337 TTGTGCGAGTTACTA-A
64 TTGTGCGAGTTACTATA
* * * * *
47679353 TTCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACCA-AATCTGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCATAA-CCGGGCTAAGTCCCGAAGGCAT
47679416 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* * *
47679433 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCATAACCGGGCTAAGTCCCGAAGGCATTT
**
47679498 GAACGAG-TAGCTATA
66 GTGCGAGTTA-CTATA
47679513 TCCGG
1 TCCGG
47679518 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.01
79 59 0.43
80 75 0.54
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:47679521 original size:119 final size:119
Alignment explanation
Indices: 47679281--47679505 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 119
47679271 ATGTCCGGGC
*
47679281 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
* * * ** *
47679346 TTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACCAAATCTGGGT
66 TCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGT
* * * *
47679400 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCG
* *
47679463 AGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
64 AGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGT
47679506 AGCTATATCC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 3 0.03
119 62 0.69
120 25 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
TCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGT
Found at i:47679529 original size:119 final size:119
Alignment explanation
Indices: 47679285--47679531 Score: 261
Period size: 119 Copynumber: 2.1 Consensus size: 119
47679275 CCGGGCTAAG
* *
47679285 TCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTCAC
* * ** * *
47679350 TAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACCAAATCTGGGTTAAG
66 TAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGTTAAA
* * * *
47679404 TCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTC
1 TCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTC
* * * *
47679467 ACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGTTAAA
64 ACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CCAAATCTCGGTTAAA
*
47679523 TTCCGAAGG
1 TCCCGAAGG
47679532 TACGTGATTT
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
118 3 0.03
119 74 0.70
120 29 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTCAC
TAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGTTAAA
Found at i:47701780 original size:15 final size:15
Alignment explanation
Indices: 47701758--47701802 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
47701748 TTCAAGTATA
47701758 CAAATTTGGTTTATG
1 CAAATTTGGTTTATG
**
47701773 TGAATTTGGTTTATG
1 CAAATTTGGTTTATG
47701788 CAAATTTGGTTTATG
1 CAAATTTGGTTTATG
47701803 GATTTTCGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (15 bp):
CAAATTTGGTTTATG
Found at i:47706973 original size:46 final size:46
Alignment explanation
Indices: 47706923--47707048 Score: 193
Period size: 46 Copynumber: 2.7 Consensus size: 46
47706913 TGGTTGAGCA
*
47706923 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
47706969 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
47707015 -CCTG-AGCTCGTTAAGTTGAGTCCGATTTCACTTA
1 TCC-GAAG-TCGTTGAGTTGAGTCCGAGTTCACTTA
47707049 GGGGTGGGTT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
45 4 0.05
46 71 0.95
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:47714513 original size:46 final size:47
Alignment explanation
Indices: 47714460--47714624 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 47
47714450 TTGAGCATCC
*
47714460 GAACTCGTTGAGTTCAGTCCGAGTTCACCTATGGATGCGAATGTAC-
1 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTACT
* * *
47714506 GAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--GTA-CT
47714553 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT-CT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTACT
*
47714599 GAACTCGTTGAGTTGAGTCTGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
47714625 GTGAGATGTA
Statistics
Matches: 100, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 52 0.52
47 25 0.25
48 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTACT
Found at i:47714565 original size:47 final size:47
Alignment explanation
Indices: 47714506--47714671 Score: 200
Period size: 47 Copynumber: 3.6 Consensus size: 47
47714496 GCGAATGTAC
47714506 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
* *
47714553 GAACTCGTTGAGTTGAGTCCGAGTTCACCT-ATGGATGCGAA-T--G--TCT
1 GAACTCGTTGAGTTGAGTCCGAGTT--CGTGA--GATG-TAACTAGGCATCT
* *
47714599 GAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
*
47714646 AAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
47714672 ACTTATGGAT
Statistics
Matches: 100, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 27 0.27
47 51 0.51
48 2 0.02
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
Found at i:47714613 original size:93 final size:92
Alignment explanation
Indices: 47714454--47714717 Score: 420
Period size: 93 Copynumber: 2.8 Consensus size: 92
47714444 GGATGGTTGA
*
47714454 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACCTATGGATGCGAATGTACGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT-CGAACTCGTTGAGT
*
47714519 TGAGTCCGAGTTCGTGAGATGTAACTAG
65 TGAGTCTGAGTTCGTGAGATGTAACTAG
*
47714547 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTC-GAACTCGTTGAGT
47714612 TGAGTCTGAGTTCGTGAGATGTAACTAG
65 TGAGTCTGAGTTCGTGAGATGTAACTAG
* * * * * *
47714640 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCGAA-CTCGTTGAGT
47714705 TGAGTCTGAGTTC
65 TGAGTCTGAGTTC
47714718 ACTTAGGGGC
Statistics
Matches: 159, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 3 0.02
93 156 0.98
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCGAACTCGTTGAGTT
GAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:47716804 original size:48 final size:48
Alignment explanation
Indices: 47716730--47716929 Score: 183
Period size: 48 Copynumber: 4.2 Consensus size: 48
47716720 CCAATGCCAT
* *
47716730 GTCTTACA-ATGGCACATATATA-ATCGCCGATGCCATGTCCCATACATG
1 GTCTTACATA-GGAACATATA-ACATCGCCGATGCCATGTCCCAGACATG
* * * * *
47716778 GTCTTACACAGGAACATATAACATCGCCAATGCCATCTCTCAAACATG
1 GTCTTACATAGGAACATATAACATCGCCGATGCCATGTCCCAGACATG
* * * **
47716826 GTCTTACATAGGCACATATATCAAT-GCTGATGCCATGTCTTAGACATG
1 GTCTTACATAGGAACATATAAC-ATCGCCGATGCCATGTCCCAGACATG
* * * *
47716874 GTCTTACATA-GACACATATATCATCACCGCTGCAATGTCCCAGACATG
1 GTCTTACATAGGA-ACATATAACATCGCCGATGCCATGTCCCAGACATG
*
47716922 TTCTTACA
1 GTCTTACA
47716930 ATGGCACACA
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
47 4 0.03
48 119 0.94
49 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (48 bp):
GTCTTACATAGGAACATATAACATCGCCGATGCCATGTCCCAGACATG
Found at i:47716921 original size:96 final size:96
Alignment explanation
Indices: 47716730--47716981 Score: 251
Period size: 96 Copynumber: 2.6 Consensus size: 96
47716720 CCAATGCCAT
*
47716730 GTCTTACAATGGCACATATATAATCGCCGATGCCATGTCCCATACATGGTCTTACACAGGAACAT
1 GTCTTACAATGGCACATATATAATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * *
47716795 ATAACATCGCCAATGCCATCTCTCAAACATG
66 ATAACATCACCAATGCAATCTCCCAAACATG
* ** *
47716826 GTCTTAC-ATAGGCACATATATCAAT-GCTGATGCCATGTCTTAGACATGGTCTTACATA-GACA
1 GTCTTACAAT-GGCACATATAT-AATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGA-A
* ** * *
47716888 CATATATCATCACCGCTGCAATGTCCCAGACATG
63 CATATAACATCACCAATGCAATCTCCCAAACATG
* * * * * * *
47716922 TTCTTACAATGGCACACATCTCGGAT-GTCAATGCCATGTCCCAGACATGGTTTTACACAG
1 GTCTTACAATGGCACATATAT--AATCGCCGATGCCATGTCCCAGACATGGTCTTACACAG
47716982 AATCTCATTT
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
95 4 0.03
96 88 0.70
97 33 0.26
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (96 bp):
GTCTTACAATGGCACATATATAATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
ATAACATCACCAATGCAATCTCCCAAACATG
Found at i:47728848 original size:77 final size:78
Alignment explanation
Indices: 47728758--47728925 Score: 227
Period size: 77 Copynumber: 2.2 Consensus size: 78
47728748 GGACTAAGAT
* *
47728758 CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCGAAGGCATTGGTGCGAG-CACTA
*
47728821 -AATCCGGGTTA-ATC
64 TAA-CCGGGCTATATC
* *
47728835 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTGAGTCCGAAGGCATTTGTGCGAGCACTATA
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTGGTGCGAGCACTATA
*
47728900 ACCGGGCTATGTC
66 ACCGGGCTATATC
47728913 CCGAAGGCATTTG
1 CCGAAGGCATTTG
47728926 AACGAGTAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
77 45 0.56
78 36 0.44
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTGGTGCGAGCACTATA
ACCGGGCTATATC
Found at i:47728851 original size:39 final size:39
Alignment explanation
Indices: 47728706--47728925 Score: 211
Period size: 39 Copynumber: 5.6 Consensus size: 39
47728696 TGAATGATGT
* * * *
47728706 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAA-TCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
47728746 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCT-A-ATCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
47728786 CCGGGCTAA-GCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47728823 TCCGGGTTAATCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
47728863 CCGGGCTGAGT-CCGAAGGCATTTGTGCGAG-CACTATAA
1 CCGGGCT-AATCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47728901 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTA-ATCCCGAAGGCATTTG
47728926 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
37 1 0.01
38 50 0.32
39 64 0.41
40 31 0.20
41 9 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47728932 original size:117 final size:117
Alignment explanation
Indices: 47728705--47728958 Score: 268
Period size: 117 Copynumber: 2.2 Consensus size: 117
47728695 TTGAATGATG
* *
47728705 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAA-TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
47728770 GTGCGAGTTACTAATTCCGGGCTAAGCCGAAGGCATTGGTGCGAGTTA-CTAAA
65 GTGCGAGTCACTAATACCGGGCTAAGCCGAAGGCATTGGAACGAG-TAGCTAAA
* * * * *
47728823 TCCGGGTTAATCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTGAG-TCCGAAGGCATTT
1 TCCGGGTTAATCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * *
47728886 GTGCGAG-CACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
65 GTGCGAGTCACTAAT-ACCGGGCTAAG--CCGAAGGCATTGGAACGAGTAGCTAAA
*
47728940 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTT-AATCCCGAAGG
47728959 TACGTGATTT
Statistics
Matches: 115, Mismatches: 15, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
114 2 0.02
115 12 0.10
116 26 0.23
117 59 0.51
118 16 0.14
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (117 bp):
TCCGGGTTAATCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
TGCGAGTCACTAATACCGGGCTAAGCCGAAGGCATTGGAACGAGTAGCTAAA
Found at i:47737050 original size:40 final size:40
Alignment explanation
Indices: 47736820--47737043 Score: 242
Period size: 40 Copynumber: 5.6 Consensus size: 40
47736810 CGAATGATGT
* * * *
47736820 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTATAA
* * *
47736860 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTCACTATA-A
* * * *
47736900 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACCA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
* * *
47736938 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
47736979 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
*
47737019 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47737044 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
Found at i:47737057 original size:80 final size:80
Alignment explanation
Indices: 47736819--47737062 Score: 275
Period size: 80 Copynumber: 3.1 Consensus size: 80
47736809 TCGAATGATG
* * * *
47736819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACCATAACCGGGCTAAG-TCCCGAAGGCAT
47736882 TTGTGCGAGTTACTA-A
64 TTGTGCGAGTTACTATA
* * * * *
47736898 TTCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACCA-AATCTGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCATAA-CCGGGCTAAGTCCCGAAGGCAT
47736961 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* * *
47736978 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCATAACCGGGCTAAGTCCCGAAGGCATTT
**
47737043 GAACGAG-TAGCTATA
66 GTGCGAGTTA-CTATA
47737058 TCCGG
1 TCCGG
47737063 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.01
79 59 0.43
80 75 0.54
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:47737066 original size:119 final size:119
Alignment explanation
Indices: 47736826--47737050 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 119
47736816 ATGTCCGGGC
*
47736826 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
* * * ** *
47736891 TTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACCAAATCTGGGT
66 TCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGT
* * * *
47736945 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCG
* *
47737008 AGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
64 AGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGT
47737051 AGCTATATCC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 3 0.03
119 62 0.69
120 25 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
TCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGT
Found at i:47737074 original size:119 final size:119
Alignment explanation
Indices: 47736830--47737076 Score: 261
Period size: 119 Copynumber: 2.1 Consensus size: 119
47736820 CCGGGCTAAG
* *
47736830 TCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTCAC
* * ** * *
47736895 TAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACCAAATCTGGGTTAAG
66 TAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGTTAAA
* * * *
47736949 TCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTC
1 TCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTC
* * * *
47737012 ACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGTTAAA
64 ACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CCAAATCTCGGTTAAA
*
47737068 TTCCGAAGG
1 TCCCGAAGG
47737077 TACGTGATTT
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
118 3 0.03
119 74 0.70
120 29 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTCAC
TAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAAATCTCGGTTAAA
Found at i:47744051 original size:42 final size:42
Alignment explanation
Indices: 47744005--47744113 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
47743995 ACAATTCGAA
* *
47744005 TATATATGTGGCACTTAGTGTGCGATTCAAGAA-AGCATCAGC
1 TATATATATGGCACTTAGTGTGCGATT-AAGAATAACATCAGC
** *
47744047 TATATATATGGCACTTAGTGTGCTG-TTTGGAATAACATCGGC
1 TATATATATGGCACTTAGTGTGC-GATTAAGAATAACATCAGC
*
47744089 TATACATATGGCACTTAGTGTGCGA
1 TATATATATGGCACTTAGTGTGCGA
47744114 GACCGGGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.07
42 53 0.91
43 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TATATATATGGCACTTAGTGTGCGATTAAGAATAACATCAGC
Found at i:47744501 original size:17 final size:19
Alignment explanation
Indices: 47744458--47744507 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
47744448 AGCATGATTT
*
47744458 TATTAATCATAATATAATA
1 TATTAATCATAATATAAAA
*
47744477 TATAAATCAT-AT-TAAAA
1 TATTAATCATAATATAAAA
47744494 TATTAATCAATAAT
1 TATTAATC-ATAAT
47744508 GAACCTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 11 0.42
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAATCATAATATAAAA
Found at i:47752799 original size:17 final size:19
Alignment explanation
Indices: 47752763--47752808 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
47752753 TGATTTTATT
*
47752763 AATCATAATATAATATATA
1 AATCATAATATAAAATATA
47752782 AATCAT-AT-TAAAATATA
1 AATCATAATATAAAATATA
47752799 AATCAATAAT
1 AATC-ATAAT
47752809 GAACCTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 12 0.50
18 4 0.17
19 8 0.33
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATCATAATATAAAATATA
Found at i:47755977 original size:39 final size:40
Alignment explanation
Indices: 47755767--47755989 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
47755757 TTGAATGCTG
* * * * * *
47755767 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
47755807 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47755847 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47755887 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
47755927 TCCAGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47755966 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47755990 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:47766733 original size:85 final size:84
Alignment explanation
Indices: 47766614--47766769 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
47766604 GAAACACACT
* *
47766614 TCGCATACACAGTGCCCACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAACTCGCACACA
1 TCGCACACACAGTGCCCACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAACTCGCACACA
*
47766679 TAGTGCTCGATTGAAGAAC
66 CAGTGCTCGATTGAAGAAC
* * * * *
47766698 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATAGTGCTCGGTTGAAGAGCTTGCACA
1 TCGCACACACAGTGCC-C-ACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAACTCGCACA
47766762 CACAGTGC
64 CACAGTGC
47766770 CTCATAATTC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 14 0.23
85 45 0.73
86 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (84 bp):
TCGCACACACAGTGCCCACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAACTCGCACACA
CAGTGCTCGATTGAAGAAC
Found at i:47766769 original size:28 final size:28
Alignment explanation
Indices: 47766642--47766769 Score: 150
Period size: 28 Copynumber: 4.5 Consensus size: 28
47766632 CTGACTGATT
47766642 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTGAAGAAC
47766670 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTGAAGAAC
* * * *
47766698 TCGCACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTG-CTCGATTGA-AGAAC
* * *
47766727 TGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACATAGTGCTCGATTGAAGAAC
* *
47766755 TTGCACACACAGTGC
1 TCGCACACATAGTGC
47766770 CTCATAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
28 63 0.74
29 22 0.26
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTGAAGAAC
Found at i:47766845 original size:40 final size:40
Alignment explanation
Indices: 47766801--47767055 Score: 438
Period size: 40 Copynumber: 6.4 Consensus size: 40
47766791 CCTTCGAGGT
*
47766801 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
47766841 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
47766881 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
47766921 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
47766961 TTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
47767001 TTAGCCCGGATACATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
47767041 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
47767056 ATAACTCTCA
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 201 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:47773982 original size:435 final size:436
Alignment explanation
Indices: 47773117--47773994 Score: 1244
Period size: 435 Copynumber: 2.0 Consensus size: 436
47773107 AAATAAAATA
* * * **
47773117 AAAATTTGTATTTATACTTTGGATTCAATGGTATGGATGACACACGCATCAAAAAAACAAGGGAC
1 AAAAGTTGTATTTATACTTAGGATTCAAGGGTATGGATGACACACAAAT-AAAAAAACAAGGGAC
* * *
47773182 TTTGCAAATTTTAATTATTTCGCAAGGGAAGGGATTCAAACTTGGGACCTCATTTAATTTCCATA
65 TTTGCAAATTTTAATTATTTCACAAAGGAAAGGATTCAAACTTGGGACCTCATTTAATTTCCATA
* *
47773247 TTTTCTCATATTTCTTTTAACCATTAGGATTTTTCCTCATTCTTAAAATAATTTTTCAATAATTA
130 CTTTCTCATATTTCTTTTAACCATTAGGATTTTTCCTCATTCTTAAAATAATTTTGCAATAATTA
* *
47773312 TTTTAAAAACAAGACATGTCACATACTAGGGTTTAAGAAAAAAATTTGCAAAATAATAAAAATCA
195 TTTTAAAAACAAGACATGTCACATACTAGGCTTTAAGAAAAAAATTTGAAAAATAATAAAAATCA
* * * * *
47773377 TGCGAGAGAATGGATTTAAACTTGGGTTTCAAGAAACGCTTCACTAACACTTAACCAAAAAACCA
260 CGCCAGAGAAGGGATTGAAACTTGGGTTTCAAGAAACACTTCACTAACACTTAACCAAAAAACCA
** *
47773442 TTACCTATTTTATTTCCTAAAAATGCATAGATAATCTAAAAAATTAAGGCATGACAACTCTCTCT
325 ACACCTATTTTATTTCCTAAAAATACATAGATAATCTAAAAAATTAAGGCATGACAACTCTCTCT
*
47773507 TGATTCAAAAACCTGATTCTACTAACCCCCGATTTTTGGGATATTAC
390 CGATTCAAAAACCTGATTCTACTAACCCCCGATTTTTGGGATATTAC
* * * *
47773554 AAAAGTTGTATTTATACTTAGGTTTCAAGGGTATGGATGACACACAAAT-TAAGAACAAGGGATT
1 AAAAGTTGTATTTATACTTAGGATTCAAGGGTATGGATGACACACAAATAAAAAAACAAGGGACT
**
47773618 TTGCAACA-TTTAATTATTTCACAAAGGAAAGTTTTCAAACTTGGGACCTCATTTAATTTCCATA
66 TTGCAA-ATTTTAATTATTTCACAAAGGAAAGGATTCAAACTTGGGACCTCATTTAATTTCCATA
* * * *
47773682 CTTTCTCATGTTTCTTTTAACCATTAGGTTTTTTCCTCATTCTTGAAATAATTTTGCAATATTTA
130 CTTTCTCATATTTCTTTTAACCATTAGGATTTTTCCTCATTCTTAAAATAATTTTGCAATAATTA
* * * *
47773747 TTTTAAAAACAAGGCATGTCACATATTAGGCTTTAAG-ACAAAATTTGAAAAATAATAAAAATGA
195 TTTTAAAAACAAGACATGTCACATACTAGGCTTTAAGAAAAAAATTTGAAAAATAATAAAAATCA
* * * * *
47773811 CGCCAGAGAAGGGATTGGAACTTGGGTTTTAAGAAACATTTCACTAATACTTAACCAACAAACCA
260 CGCCAGAGAAGGGATTGAAACTTGGGTTTCAAGAAACACTTCACTAACACTTAACCAAAAAACCA
* * *
47773876 ACACCTCA-TTTATTTCCTAAAAGTACATAGATAATCTAAAAAGTTAAGGCATGACCACTCTCTC
325 ACACCT-ATTTTATTTCCTAAAAATACATAGATAATCTAAAAAATTAAGGCATGACAACTCTCTC
* ** *
47773940 TCGATTCACAAA-CTCGATTCTACTAACCCTTGATTTTTTGGGATGTTAC
389 TCGATTCAAAAACCT-GATTCTACTAACCCCCGA-TTTTTGGGATATTAC
*
47773989 ATAAGT
1 AAAAGT
47773995 AAAAGCTTGA
Statistics
Matches: 389, Mismatches: 48, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
433 2 0.01
434 161 0.41
435 182 0.47
436 1 0.00
437 43 0.11
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (436 bp):
AAAAGTTGTATTTATACTTAGGATTCAAGGGTATGGATGACACACAAATAAAAAAACAAGGGACT
TTGCAAATTTTAATTATTTCACAAAGGAAAGGATTCAAACTTGGGACCTCATTTAATTTCCATAC
TTTCTCATATTTCTTTTAACCATTAGGATTTTTCCTCATTCTTAAAATAATTTTGCAATAATTAT
TTTAAAAACAAGACATGTCACATACTAGGCTTTAAGAAAAAAATTTGAAAAATAATAAAAATCAC
GCCAGAGAAGGGATTGAAACTTGGGTTTCAAGAAACACTTCACTAACACTTAACCAAAAAACCAA
CACCTATTTTATTTCCTAAAAATACATAGATAATCTAAAAAATTAAGGCATGACAACTCTCTCTC
GATTCAAAAACCTGATTCTACTAACCCCCGATTTTTGGGATATTAC
Found at i:47775998 original size:23 final size:23
Alignment explanation
Indices: 47775968--47776049 Score: 107
Period size: 23 Copynumber: 3.6 Consensus size: 23
47775958 TAAGCTGATG
47775968 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
47775991 AACAGTAAGCTCTGA-CGAGCTG-
1 AACAGTAAGCTCT-ATTGAGCTGA
47776013 AACAGTAAGCTC-ATATGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
47776036 GAACAGTAAGCTCT
1 -AACAGTAAGCTCT
47776050 TACGAGCTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.02
22 18 0.35
23 19 0.37
24 13 0.25
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:47776018 original size:45 final size:46
Alignment explanation
Indices: 47775966--47776059 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
47775956 CCTAAGCTGA
47775966 TGAACAGTAAGCTC-TATTGAGCTGA-AACAGTAAGCTCTGACGAGC
1 TGAACAGTAAGCTCATA-TGAGCTGAGAACAGTAAGCTCTGACGAGC
*
47776011 TGAACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTGACGAGC
47776057 TGA
1 TGA
47776060 TATATCGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 22 0.48
46 24 0.52
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (46 bp):
TGAACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTGACGAGC
Found at i:47776058 original size:46 final size:45
Alignment explanation
Indices: 47775966--47776059 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
47775956 CCTAAGCTGA
47775966 TGAACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTGACGAGC
1 TGAACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTGACGAGC
*
47776011 TGAACAGTAAGCTC-ATATGAGCTGAGAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAGCTCTAT-TGAGCTGA-AACAGTAAGCTCTGACGAGC
47776057 TGA
1 TGA
47776060 TATATCGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 2 0.04
45 22 0.48
46 22 0.48
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTGACGAGC
Found at i:47782031 original size:23 final size:22
Alignment explanation
Indices: 47781985--47782048 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
47781975 TCTTCTTTAC
*
47781985 TATTCTAA-TCTTTTAT-TTAT
1 TATTCTAATTATTTTATCTTAT
*
47782005 TATTCT-ATTTTATTTATCTTAGT
1 TATTCTAATTAT-TTTATCTTA-T
*
47782028 TATTTTAATTATTTTATCTTA
1 TATTCTAATTATTTTATCTTA
47782049 CTTGGATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.03
20 8 0.22
21 5 0.14
22 3 0.08
23 15 0.42
24 4 0.11
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTCTAATTATTTTATCTTAT
Found at i:47789561 original size:31 final size:31
Alignment explanation
Indices: 47789520--47789583 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
47789510 CCTTTTCATA
*
47789520 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
47789551 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
47789582 TT
1 TT
47789584 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:47789829 original size:24 final size:24
Alignment explanation
Indices: 47789777--47789942 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
47789767 GCTTTATCAT
*
47789777 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
47789802 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
47789826 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
47789849 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
47789873 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
47789897 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47789920 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47789943 TCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 44 0.34
24 73 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47789853 original size:47 final size:48
Alignment explanation
Indices: 47789776--47789942 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
47789766 TGCTTTATCA
* *
47789776 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
47789825 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
47789872 GATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
47789919 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
47789943 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 69 0.63
48 27 0.25
49 13 0.12
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:47789882 original size:71 final size:71
Alignment explanation
Indices: 47789777--47789942 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
47789767 GCTTTATCAT
* *
47789777 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
47789841 GCCCTTTA
64 GCCCTTTA
* * *
47789849 ATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
47789914 CCTTTA
66 CCTTTA
47789920 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47789943 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:47790020 original size:20 final size:20
Alignment explanation
Indices: 47789992--47790058 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
47789982 TTATGAATAC
* *
47789992 ATCAAGTGCATATCATACGT
1 ATCATGTGCATATCATACAT
47790012 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47790032 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47790052 ACCATGT
1 ATCATGT
47790059 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47791316 original size:27 final size:27
Alignment explanation
Indices: 47791281--47791360 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
47791271 GGGCATATTC
* *
47791281 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
47791308 GTCACTTTACCCTACGGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
47791335 ATCACTTTACCCTACAGGGGCTTTAC
1 GTCACTTTACCCTACAGGGGCTTTAC
47791361 AGTCTTTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:47791456 original size:27 final size:27
Alignment explanation
Indices: 47791426--47791511 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
47791416 GTAAATCTAC
47791426 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
47791453 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAAGGTATTTCTATAATTTTGT
* * *
47791479 AGAAAGTCAAGGGTATTTCTATAACTTTGT
1 --AAA-CCAAAGGTATTTCTATAATTTTGT
47791509 AAA
1 AAA
47791512 TCAGGGGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.44
28 7 0.14
29 19 0.38
30 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:47791539 original size:27 final size:27
Alignment explanation
Indices: 47791509--47791671 Score: 161
Period size: 27 Copynumber: 6.0 Consensus size: 27
47791499 ATAACTTTGT
47791509 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
47791536 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
47791563 AAACCAGTGGTATTTTAGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
*
47791590 AAA-CTAGGGGTATTTCGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
47791617 AAAT-TGAGGGTATTTTTGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * * *
47791644 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
47791671 A
1 A
47791672 GACTAGGGTT
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 106 0.96
28 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:47791575 original size:54 final size:54
Alignment explanation
Indices: 47791516--47791693 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 54
47791506 TGTAAATCAG
* *
47791516 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAA-CCA
1 GGGTATTTTAGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAATCCA
* **
47791569 GTGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAATTGA
1 G-GGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAATCCA
* * * ** * * * *
47791624 GGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAATCCA
47791677 GGGT-TTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
47791694 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 12 0.11
53 6 0.06
54 85 0.79
55 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAATCCA
Found at i:47791610 original size:81 final size:81
Alignment explanation
Indices: 47791514--47791679 Score: 262
Period size: 81 Copynumber: 2.0 Consensus size: 81
47791504 TTTGTAAATC
*
47791514 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
*
47791578 TAGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
** *
47791595 AGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
47791660 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
47791676 AGGG
1 AGGG
47791680 TTTTTAGTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 76 0.97
82 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:47791717 original size:27 final size:27
Alignment explanation
Indices: 47791686--47791915 Score: 280
Period size: 27 Copynumber: 8.5 Consensus size: 27
47791676 AGGGTTTTTA
* *
47791686 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
47791713 GTAATTCTATAAATCAAGGGTTAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47791740 GTAATTCTATAAATCAAGGGTAACACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47791767 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47791794 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47791821 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47791848 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47791875 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47791902 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
47791916 TGGGGGTACT
Statistics
Matches: 183, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:47791731 original size:79 final size:81
Alignment explanation
Indices: 47791514--47791733 Score: 196
Period size: 81 Copynumber: 2.7 Consensus size: 81
47791504 TTTGTAAATC
** * *** *
47791514 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATT-TCACAAACC-AGTGGTATT
1 AGGGGTATTTCAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCT-ACAAACCAAG-GGTATT
*
47791577 TTAGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
* * ***** *
47791595 AGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTCAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTATTTT
*
47791660 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* ** * *
47791676 A-GGGT-TTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGT
1 AGGGGTATTTCAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGT
47791734 TAAACAGTAA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
79 40 0.34
80 4 0.03
81 72 0.61
82 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTCAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:47791950 original size:27 final size:27
Alignment explanation
Indices: 47791929--47792018 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
47791919 GGGTACTTTG
*
47791929 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
47791956 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
47791983 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
47792010 GTAATTTTA
1 GTAATTTTA
47792019 GGAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:47792032 original size:27 final size:27
Alignment explanation
Indices: 47791929--47792033 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
47791919 GGGTACTTTG
* *
47791929 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
47791956 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
47791983 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
47792010 GTAATTTTAGGAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
47792034 CTAAATAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:47807456 original size:30 final size:30
Alignment explanation
Indices: 47807411--47807470 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47807401 ATTTAATACG
* *
47807411 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTCCCCCTA
* *
47807441 AACTTTTGCATAATTACACTTTTCCCCCTA
1 AACTTTGGCAAAATTACACTTTTCCCCCTA
47807471 GGCTCGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTCCCCCTA
Found at i:47816960 original size:16 final size:16
Alignment explanation
Indices: 47816921--47816954 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
47816911 CCTCAAAAGT
*
47816921 CATCCCTCACCACACA
1 CATCTCTCACCACACA
47816937 CATCTCTCA-CACACA
1 CATCTCTCACCACACA
47816952 CAT
1 CAT
47816955 TTTCTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (16 bp):
CATCTCTCACCACACA
Found at i:47826950 original size:37 final size:37
Alignment explanation
Indices: 47826900--47826971 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
47826890 GACAAAACTG
47826900 TACGCTGAGTAAAACTCAGTGATATTTCTATAATCTT
1 TACGCTGAGTAAAACTCAGTGATATTTCTATAATCTT
47826937 TACGCTGAGTAAAACTCAGTGATATTTCTATAATC
1 TACGCTGAGTAAAACTCAGTGATATTTCTATAATC
47826972 CTAACATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (37 bp):
TACGCTGAGTAAAACTCAGTGATATTTCTATAATCTT
Found at i:47828408 original size:13 final size:12
Alignment explanation
Indices: 47828390--47828430 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
47828380 GCCATACGTA
47828390 TTTCTCCTTTGCT
1 TTTCTCCTTT-CT
47828403 TTTCTCTCTTTCT
1 TTTCTC-CTTTCT
47828416 TTT-T-CTTTCT
1 TTTCTCCTTTCT
47828426 TTTCT
1 TTTCT
47828431 TTTAAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 1 0.04
13 11 0.42
14 4 0.15
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTCTCCTTTCT
Found at i:47828545 original size:17 final size:18
Alignment explanation
Indices: 47828495--47828552 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
47828485 TTATTAATTT
*
47828495 TATAACATATATACATATA
1 TATAACATATA-ATATATA
* * *
47828514 TATATCTTATTATATA-A
1 TATAACATATAATATATA
47828531 TATAACATATAATATATA
1 TATAACATATAATATATA
47828549 -ATAA
1 TATAA
47828553 GTTAACATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 18 0.58
18 5 0.16
19 8 0.26
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAACATATAATATATA
Found at i:47829009 original size:21 final size:20
Alignment explanation
Indices: 47828977--47829016 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47828967 TTTGAACATG
47828977 AATTAATGCAAATTCTATGT
1 AATTAATGCAAATTCTATGT
* *
47828997 AATTTATGTCAAATTTTATG
1 AATTAATG-CAAATTCTATG
47829017 ATTTTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
AATTAATGCAAATTCTATGT
Found at i:47831919 original size:20 final size:20
Alignment explanation
Indices: 47831896--47831938 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
47831886 CACACAGGCA
* *
47831896 TGTCCCAAACTACACGGGTG
1 TGTCCCAAACCACACGGATG
47831916 TGTCCCAAACCACACGGATG
1 TGTCCCAAACCACACGGATG
47831936 TGT
1 TGT
47831939 GACCCCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (20 bp):
TGTCCCAAACCACACGGATG
Found at i:47840037 original size:24 final size:23
Alignment explanation
Indices: 47840010--47840055 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47840000 CCTATTACAT
47840010 GGCTCTTT-GTGAGCATTCCTGATA
1 GGCT-TTTCGTGAGC-TTCCTGATA
*
47840034 GGCTTTTCGTGAGCTTCTTGAT
1 GGCTTTTCGTGAGCTTCCTGAT
47840056 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (23 bp):
GGCTTTTCGTGAGCTTCCTGATA
Found at i:47842382 original size:42 final size:43
Alignment explanation
Indices: 47842271--47842385 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
47842261 AAAGCTAGTA
* * * *
47842271 CAATGCCAACGTCCTAGAC-GTGATCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAAATAT
*
47842314 CAATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATAT
1 CAATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATAT
* * *
47842357 -GATGTCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCCCAGACAGGGTCTTACA
47842386 CATAATCTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 25 0.40
43 36 0.58
44 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATAT
Found at i:47843843 original size:16 final size:16
Alignment explanation
Indices: 47843822--47843855 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
47843812 AACTTGCCTG
47843822 ATGATTATGTAAAT-TT
1 ATGATTATG-AAATATT
47843838 ATGATTATGAAATATT
1 ATGATTATGAAATATT
47843854 AT
1 AT
47843856 ATAGATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
ATGATTATGAAATATT
Found at i:47852023 original size:27 final size:26
Alignment explanation
Indices: 47851967--47852023 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
47851957 CAACCTTAAC
* * *
47851967 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
47851993 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
47852020 CCTA
1 CCTA
47852024 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:47855582 original size:63 final size:63
Alignment explanation
Indices: 47855504--47855631 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
47855494 GCTAAGTGAC
47855504 GCCACTTAGGGACTAGGGAGGTGGCATTAGTAGCTAGCAAGGAGATCCAAGGTTCAAATCCTA
1 GCCACTTAGGGACTAGGGAGGTGGCATTAGTAGCTAGCAAGGAGATCCAAGGTTCAAATCCTA
*
47855567 GCCACTTAGGGACTAGGGAGGTGGCATTAGTAGCTAGTAAGGAGATCCAAGGTTCAAATCCTA
1 GCCACTTAGGGACTAGGGAGGTGGCATTAGTAGCTAGCAAGGAGATCCAAGGTTCAAATCCTA
47855630 GC
1 GC
47855632 TTAGTATTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (63 bp):
GCCACTTAGGGACTAGGGAGGTGGCATTAGTAGCTAGCAAGGAGATCCAAGGTTCAAATCCTA
Found at i:47859910 original size:44 final size:44
Alignment explanation
Indices: 47859846--47859952 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
47859836 TAGGATCCGA
* *
47859846 TATGTGTTATCGTGTAAGACCACATCTGGGACGTTGGCATCG-ACT
1 TATGTTTTA-CGTGTAAGACCACATCTGGGACATTGGCATCGTA-T
*
47859891 TATGTTTTACGTGTAAGACCTCATCTGGGACATTGGCATCGTAT
1 TATGTTTTACGTGTAAGACCACATCTGGGACATTGGCATCGTAT
*
47859935 T-TGATTT-CGTGTAAGACC
1 TATGTTTTACGTGTAAGACC
47859953 CTGTTTGGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.19
43 5 0.09
44 32 0.56
45 9 0.16
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (44 bp):
TATGTTTTACGTGTAAGACCACATCTGGGACATTGGCATCGTAT
Found at i:47859962 original size:42 final size:42
Alignment explanation
Indices: 47859855--47859995 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 42
47859845 ATATGTGTTA
* *
47859855 TCGTGTAAGACCAC-ATCTGGGACGTTGGCATCG-ACTTATGTTT
1 TCGTGTAAGACC-CTATCTGGGACATTGGCATCGTA-TT-TGATT
47859898 TACGTGTAAGA-CCTCATCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCCT-ATCTGGGACATTGGCATCGTATTTGATT
* * * *
47859941 TCGTGTAAGACCCTGTTTGGGACAGTGGCATCAATATTTGATT
1 TCGTGTAAGACCCTATCTGGGACATTGGCATC-GTATTTGATT
* *
47859984 ACATGTAAGACC
1 TCGTGTAAGACC
47859996 ACGTCTTGGA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
42 25 0.30
43 29 0.35
44 29 0.35
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCCTATCTGGGACATTGGCATCGTATTTGATT
Found at i:47860222 original size:17 final size:17
Alignment explanation
Indices: 47860200--47860237 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
47860190 GTGACAAAAG
47860200 TATGAGAAAGTATGATA
1 TATGAGAAAGTATGATA
*
47860217 TATGAGAAAGTATGCTA
1 TATGAGAAAGTATGATA
47860234 TATG
1 TATG
47860238 TGCAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.24, T:0.32
Consensus pattern (17 bp):
TATGAGAAAGTATGATA
Found at i:47871327 original size:26 final size:26
Alignment explanation
Indices: 47871291--47871346 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
47871281 AAGCCCATGC
47871291 TTGAATTTTTGATTTTGATGAATATT
1 TTGAATTTTTGATTTTGATGAATATT
47871317 TTGAATTTTTGATTTTGATGAATATT
1 TTGAATTTTTGATTTTGATGAATATT
47871343 TTGA
1 TTGA
47871347 GTTGTGCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (26 bp):
TTGAATTTTTGATTTTGATGAATATT
Found at i:47882153 original size:104 final size:104
Alignment explanation
Indices: 47881973--47882196 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
47881963 TGTATATAAA
** * * *
47881973 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTACCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47882038 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
47882077 AGGGGTTGCTAAGTGCTGATTACCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTACCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47882141 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
47882181 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47882197 GATATCCATT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTACCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47882248 original size:71 final size:72
Alignment explanation
Indices: 47882115--47882266 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
47882105 TCATTGGTGG
* *
47882115 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47882180 GAGGGGT
66 GAGGGGT
***
47882187 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47882251 GAGGGGT
66 GAGGGGT
47882258 TGCTAAGTG
1 TGCTAAGTG
47882267 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:47883989 original size:27 final size:27
Alignment explanation
Indices: 47883959--47884136 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
47883949 ATATTGAGCC
* *
47883959 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
47883986 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47884013 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47884041 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
47884068 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
47884095 CGCACACTTAGTGCTACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
47884122 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47884137 GTACAATTTA
Statistics
Matches: 122, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47884071 original size:55 final size:54
Alignment explanation
Indices: 47883959--47884136 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
47883949 ATATTGAGCC
* * * * *
47883959 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
47884013 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
47884068 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCTACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
47884122 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47884137 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:47897038 original size:17 final size:19
Alignment explanation
Indices: 47897016--47897056 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
47897006 TATGTTTTGT
47897016 ATTTGAAT-TTTT-GATGA
1 ATTTGAATATTTTGGATGA
*
47897033 ATTTGAATATTTTGGATTA
1 ATTTGAATATTTTGGATGA
47897052 ATTTG
1 ATTTG
47897057 TGAAAATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (19 bp):
ATTTGAATATTTTGGATGA
Found at i:47901218 original size:47 final size:47
Alignment explanation
Indices: 47901139--47901543 Score: 666
Period size: 47 Copynumber: 8.6 Consensus size: 47
47901129 TATTTGAATA
*
47901139 AATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
47901188 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
47901235 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
47901282 AATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
47901329 AATGTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
47901376 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
47901423 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
47901470 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
47901517 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
47901544 TCCTGAAGGG
Statistics
Matches: 335, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 323 0.96
49 12 0.04
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:47903046 original size:29 final size:29
Alignment explanation
Indices: 47903013--47903086 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47903003 GTTGTGAGAT
* * *
47903013 TGGCACTAAGTCTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
47903042 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
47903071 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47903087 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47903520 original size:40 final size:40
Alignment explanation
Indices: 47903393--47903668 Score: 245
Period size: 40 Copynumber: 6.9 Consensus size: 40
47903383 TCGAATGATG
** *
47903393 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
47903433 TCCGGACTAAGAT-TCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* * *
47903473 TCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
47903513 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
47903553 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * ** * * * *
47903593 TCCGTGCCAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
47903633 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
47903669 CGTGTATTCG
Statistics
Matches: 194, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 175 0.90
41 18 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:47907831 original size:47 final size:47
Alignment explanation
Indices: 47907752--47907968 Score: 335
Period size: 47 Copynumber: 4.6 Consensus size: 47
47907742 TATTTGAATA
*
47907752 AATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
47907801 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
47907848 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
47907895 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
47907942 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
47907969 TCCCGAAGGG
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 145 0.92
49 12 0.08
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:47910020 original size:42 final size:42
Alignment explanation
Indices: 47909974--47910132 Score: 120
Period size: 42 Copynumber: 3.6 Consensus size: 42
47909964 CTACATATCG
* *
47909974 ATGCCATATCCCAGATATGGTCTTATACAAAATCTCACGTCA
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCACATCA
* * * * *** * *
47910016 ATGCCGACGCCATGTCCCAAACATGGTATTACACGGGACCTCACATCG
1 AT------GCCATATCCCAGATATGGTCTTACACAAAATCTCACATCA
* * * *
47910064 GTGCCATGTCCCAGAAATGGTCTTACACAAAATCTCATATCA
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCACATCA
*
47910106 ATTCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
47910133 TGAAATCACA
Statistics
Matches: 86, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
42 56 0.65
48 30 0.35
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCACATCA
Found at i:47910094 original size:90 final size:90
Alignment explanation
Indices: 47909937--47910100 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
47909927 TTCCAAATCT
* * * * * * *
47909937 ATGTCCCAGACATGGTCTTACATGGGTCTACATATCGATGCCATATCCCAGATATGGTCTTATAC
1 ATGTCCCAAACATGGTATTACACGGGCCTACACATCGATGCCATATCCCAGAAATGGTCTTACAC
47910002 AAAATCTCACGTCAATGCCGACGCC
66 AAAATCTCACGTCAATGCCGACGCC
* *
47910027 ATGTCCCAAACATGGTATTACACGGGACCT-CACATCGGTGCCATGTCCCAGAAATGGTCTTACA
1 ATGTCCCAAACATGGTATTACACGGG-CCTACACATCGATGCCATATCCCAGAAATGGTCTTACA
47910091 CAAAATCTCA
65 CAAAATCTCA
47910101 TATCAATTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
90 62 0.97
91 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (90 bp):
ATGTCCCAAACATGGTATTACACGGGCCTACACATCGATGCCATATCCCAGAAATGGTCTTACAC
AAAATCTCACGTCAATGCCGACGCC
Found at i:47910191 original size:48 final size:49
Alignment explanation
Indices: 47910109--47910232 Score: 148
Period size: 48 Copynumber: 2.6 Consensus size: 49
47910099 CATATCAATT
* *
47910109 CCATATCCCAGATATGGTCTTACA-TGAAATCACATACCGAGGCCGACGA
1 CCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGACCGA-GA
* * *
47910158 -CATATCCCAGATATGGTCTTACACT-AACA-CACATATCAATACCGATA
1 CCATATCCCAGATATGGTCTTACACTGAA-ATCACATACCAAGACCGAGA
*
47910205 CCATGTCCCAGATATGGTCTTACACTGA
1 CCATATCCCAGATATGGTCTTACACTGA
47910233 CTATCATATC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
47 1 0.02
48 61 0.94
49 3 0.05
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (49 bp):
CCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGACCGAGA
Found at i:47910241 original size:48 final size:48
Alignment explanation
Indices: 47910162--47910276 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 48
47910152 CGACGACATA
* *
47910162 TCCCAGATATGGTCTTACACTAACACACATATCAATACCGATACCATG
1 TCCCAGATATGGTCTTACACTAACACACATATCAACACCAATACCATG
* * * *
47910210 TCCCAGATATGGTCTTACACTGACTA-TCATATCAACGCCAATGCCATG
1 TCCCAGATATGGTCTTACACTAAC-ACACATATCAACACCAATACCATG
** *
47910258 TCTTAGACATGGTCTTACA
1 TCCCAGATATGGTCTTACA
47910277 ATGGCTCTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 56 0.98
49 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (48 bp):
TCCCAGATATGGTCTTACACTAACACACATATCAACACCAATACCATG
Found at i:47920572 original size:42 final size:42
Alignment explanation
Indices: 47920422--47920574 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 42
47920412 AAGTTCCAAA
* * *
47920422 GCCATGTCCCAGACATGGTCTTACATGG-GTCTACATATCGAT
1 GCCATATCCCAGACATGGTCTTACACGGAATCT-CATATCGAT
* * * *
47920464 GCCATATCCTAGATATGGTCTTATAC-GACATCTCACGTCGGTGCTGAT
1 GCCATATCCCAGACATGGTCTTACACGGA-ATCTCA--T--AT-C-GAT
* *
47920512 GCCATGTCCCAGACATGGTCTTACACGGAATCTCATATCAAT
1 GCCATATCCCAGACATGGTCTTACACGGAATCTCATATCGAT
*
47920554 GCCATATCCCAGATATGGTCT
1 GCCATATCCCAGACATGGTCT
47920575 CACATCAAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 44 0.51
43 4 0.05
44 2 0.02
46 2 0.02
47 1 0.01
48 31 0.36
49 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACACGGAATCTCATATCGAT
Found at i:47920723 original size:41 final size:41
Alignment explanation
Indices: 47920678--47920759 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
47920668 TCTTACACTA
*
47920678 GCTATCATATCAATGCCGATGCCATGTCTCAGACATGGTCT
1 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
47920719 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
1 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
47920760 TACACTGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
Found at i:47923987 original size:20 final size:20
Alignment explanation
Indices: 47923964--47924001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47923954 AAAATGAATA
*
47923964 GTAATTGTCATGAATTATTT
1 GTAAATGTCATGAATTATTT
*
47923984 GTAAATGTTATGAATTAT
1 GTAAATGTCATGAATTAT
47924002 CCAGTAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (20 bp):
GTAAATGTCATGAATTATTT
Found at i:47949483 original size:43 final size:43
Alignment explanation
Indices: 47949435--47949699 Score: 404
Period size: 43 Copynumber: 6.2 Consensus size: 43
47949425 GCATGAAACT
* * *
47949435 CGGTGATGTGTATTTGGGCCTTCGTGCCTAGTAGGCTTCGTAC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
47949478 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
47949521 CGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
47949564 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCATGCTTCGTGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
47949607 CAGTGATGTGTATTCAGGCTTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * **
47949650 CGGTGATGTGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
47949693 CGGTGAT
1 CGGTGAT
47949700 TCGAGCAAGG
Statistics
Matches: 201, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 201 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.33
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:47949840 original size:29 final size:29
Alignment explanation
Indices: 47949807--47949905 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
47949797 ATGATTAGAG
*
47949807 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
47949836 GCACTATGTGTGCGAGA-T-CAGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* *
47949864 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
47949894 GCACTATGTGTG
1 GCACTATGTGTG
47949906 TGAGATCGGT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
28 7 0.13
29 37 0.71
30 8 0.15
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:47949926 original size:29 final size:29
Alignment explanation
Indices: 47949836--47949990 Score: 113
Period size: 29 Copynumber: 5.4 Consensus size: 29
47949826 CTTTAACCGA
* *
47949836 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* ** *
47949865 GCACTGTGTGTGCGA-ATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CGGTAACTGAG
* *
47949894 GCACTATGTGTGTGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * * *
47949923 GCACTGTGTGTGCGAGTTC-TTCAACCGA-
1 GCACTATGTGTGCGAGATCGGT-AACTGAG
* *
47949951 GCACTATGTGTGCGAGATCGGTCAGTG-G
1 GCACTATGTGTGCGAGATCGGTAACTGAG
*
47949979 GCACTAAGTGTG
1 GCACTATGTGTG
47949991 TGACATGAGA
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
28 38 0.40
29 50 0.53
30 7 0.07
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAACTGAG
Found at i:47949992 original size:58 final size:58
Alignment explanation
Indices: 47949804--47949972 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
47949794 CGAATGATTA
* *
47949804 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
*
47949862 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGTGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
47949920 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
47949973 CAGTGGGCAC
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 30 0.29
58 75 0.71
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Done.