Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 123 of 230
Found at i:35812758 original size:99 final size:103
Alignment explanation
Indices: 35812586--35813049 Score: 505
Period size: 100 Copynumber: 4.4 Consensus size: 103
35812576 ATTTGGGTAA
35812586 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * * *
35812651 ATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATG
63 ACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
* * *
35812692 AGAGGTCCCATGTAAGACCATGTCTGGGA-AAGGCATTGGCA-CC-GAG-ATGAGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
* *
35812753 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
*
35812791 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACATTGGCATCCTTGAGATC
1 AGAGA-TCCCATGTAAGACCATGTCTGGG--A---CA-T-G--G--CATTGGCATCC-TGAGA--
* * * * *
35812855 ATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCACCAAGACG
51 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
* * *
35812908 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCA-CC-GAG-ATGAGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
*
35812970 TAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
* *
35813008 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35813050 GTACATGAAA
Statistics
Matches: 303, Mismatches: 34, Indels: 48
0.79 0.09 0.12
Matches are distributed among these distances:
99 71 0.23
100 83 0.27
101 1 0.00
102 3 0.01
103 3 0.01
104 2 0.01
105 14 0.05
106 36 0.12
107 1 0.00
108 1 0.00
109 1 0.00
110 1 0.00
111 9 0.03
112 4 0.01
114 3 0.01
115 1 0.00
117 69 0.23
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
Found at i:35812934 original size:117 final size:117
Alignment explanation
Indices: 35812738--35812949 Score: 307
Period size: 117 Copynumber: 1.8 Consensus size: 117
35812728 TGGCACCGAG
* * * * *
35812738 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGAACATGGCATGGGCACCAAGACGAGAACTCCCATG
* *
35812803 TAAGACCATATCTGGGATATGGCATTGGCAGTACATTGGCATCCTTGAGATC
66 TAAGACCATATCTGGAACATGGCATTGGCAGTACATTGGCATCCTTGAGATC
* * * **
35812855 ATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCACCAAGACGAGAGGTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGAACATGGCATGGGCACCAAGACGAGAACTCCCATG
*
35812920 TAAGACCATGTCTGGAACATGGCATTGGCA
66 TAAGACCATATCTGGAACATGGCATTGGCA
35812950 CCGAGATGAG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 82 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (117 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGAACATGGCATGGGCACCAAGACGAGAACTCCCATG
TAAGACCATATCTGGAACATGGCATTGGCAGTACATTGGCATCCTTGAGATC
Found at i:35812975 original size:167 final size:166
Alignment explanation
Indices: 35812689--35812999 Score: 462
Period size: 167 Copynumber: 1.9 Consensus size: 166
35812679 TGGCACCAAG
* * *
35812689 ATGAGAGGTCCCATGTAAGACCATGTCTGGGAAAGGCATTGGCACCGAGATGAGAGGTCCCCCGT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGAAAGGCATTGGCACCAAGACGAGAGGTCCCACGT
* * *
35812754 AAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGG
66 AAGACCATGTCTGGAACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGGG
* *
35812819 ATATGGCATTGGCAGTACATTGGCATCCTTGAGATC
131 ACATGGCATGGGCAGTACATTGGCATCCTTGAGATC
* *
35812855 ATGAGAGGTCCCATGTAAGACCATGT-TTGGAACATGGCATTGGCACCAAGACGAGAGGTCCCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGAA-A-GGCATTGGCACCAAGACGAGAGGTCCCAC
* ** * *
35812919 GTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTG
64 GTAAGACCATGTCTGGAACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTG
35812984 GGACATGGCATGGGCA
129 GGACATGGCATGGGCA
35813000 CCAATATGAG
Statistics
Matches: 128, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 5 0.04
166 27 0.21
167 96 0.75
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (166 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGAAAGGCATTGGCACCAAGACGAGAGGTCCCACGT
AAGACCATGTCTGGAACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGGG
ACATGGCATGGGCAGTACATTGGCATCCTTGAGATC
Found at i:35813036 original size:217 final size:216
Alignment explanation
Indices: 35812620--35813055 Score: 811
Period size: 217 Copynumber: 2.0 Consensus size: 216
35812610 TGGGACATGG
* *
35812620 CATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC
1 CATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCAC
*
35812685 CAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAAAGGCATTGGCACCGAGATGAGAGGTCCC
66 CAAGACGAGAGGTCCCATGTAAGACCATGTCTGGGAAAGGCATTGGCACCGAGATGAGAGGTCCC
*
35812750 CCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATC
131 CCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCCATGTAAGACCATATC
35812815 TGGGATATGGCATTGGCAGTA
196 TGGGATATGGCATTGGCAGTA
35812836 CATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCAC
1 CATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCAC
35812901 CAAGACGAGAGGTCCCATGTAAGACCATGTCT-GGAACATGGCATTGGCACCGAGATGAGAGGTC
66 CAAGACGAGAGGTCCCATGTAAGACCATGTCTGGGAA-A-GGCATTGGCACCGAGATGAGAGGTC
35812965 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCCATGTAAGACCATA
129 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCCATGTAAGACCATA
35813030 TCTGGGATATGGCATTGGCAGTA
194 TCTGGGATATGGCATTGGCAGTA
35813053 CAT
1 CAT
35813056 GAAACATCCC
Statistics
Matches: 214, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
215 4 0.02
216 95 0.44
217 115 0.54
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (216 bp):
CATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCAC
CAAGACGAGAGGTCCCATGTAAGACCATGTCTGGGAAAGGCATTGGCACCGAGATGAGAGGTCCC
CCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCCATGTAAGACCATATC
TGGGATATGGCATTGGCAGTA
Found at i:35813071 original size:266 final size:269
Alignment explanation
Indices: 35812586--35813098 Score: 696
Period size: 266 Copynumber: 1.9 Consensus size: 269
35812576 ATTTGGGTAA
* *
35812586 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCC-TAAGATCA-GAGAGGTCCC
* * * *
35812651 ATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTC
64 ATGTAAGACCATGTCTGGAACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTC
* * ** * *
35812716 TGGGAAAGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGG
129 TGGGAAAGGCATGGGCACCAAGATGAGAACTCCCACGTAAGACCATATCTGGGACATGGCATGGG
* * *
35812781 CACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACATTGGCATC
194 CA-CGACATGAGAACTCCCATGTAAGACCATATCTGAGACATGGCATTGGCAGTACATTGGCATC
35812846 CTTGAGATCATG
258 CTTGAGATCATG
* *
35812858 AGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCA-CC-AAGA-C-GAGAGGTCCCAT
1 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCCTAAGATCAGAGAGGTCCCAT
* *
35812919 GTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTG
66 GTAAGACCATGTCTGGAACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTG
* * * * *
35812984 GGACATGGCATGGGCACCAATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGC
131 GGA-AAGGCATGGGCACCAAGATGAGAACTCCCACGTAAGACCATATCTGGGACATGGCATGGGC
* *
35813049 A-GTACATGA-AACATCCCATGTAAGACCATGTCTGAGACATGGCTTTGGCA
195 ACG-ACATGAGAAC-TCCCATGTAAGACCATATCTGAGACATGGCATTGGCA
35813099 TGTTATTATC
Statistics
Matches: 212, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
265 4 0.02
266 112 0.53
267 51 0.24
268 1 0.00
269 3 0.01
271 2 0.01
272 39 0.18
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (269 bp):
AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCCTAAGATCAGAGAGGTCCCAT
GTAAGACCATGTCTGGAACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTG
GGAAAGGCATGGGCACCAAGATGAGAACTCCCACGTAAGACCATATCTGGGACATGGCATGGGCA
CGACATGAGAACTCCCATGTAAGACCATATCTGAGACATGGCATTGGCAGTACATTGGCATCCTT
GAGATCATG
Found at i:35818662 original size:80 final size:80
Alignment explanation
Indices: 35818529--35818688 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
35818519 AACCACATGA
35818529 ATACATTCATGGAAAAAACCTAACCTTTTAACGATTTTACAAATTAGTCCCTGGGCTAGCTAGAT
1 ATACATTCATGGAAAAAACCTAACCTTTTAACGATTTTACAAATTAGTCCCTGGGCTAGCTAGAT
35818594 TAAGCTACAACGACT
66 TAAGCTACAACGACT
*
35818609 ATACATTCATGGAAAAAACCTAACCTTTTAAC-AGTTTTGCAAATTAGTCCCTGGGCTAGCTAGA
1 ATACATTCATGGAAAAAACCTAACCTTTTAACGA-TTTTACAAATTAGTCCCTGGGCTAGCTAGA
35818673 TTAAGCTACAACGACT
65 TTAAGCTACAACGACT
35818689 CCAAAAACAT
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
79 1 0.01
80 77 0.99
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (80 bp):
ATACATTCATGGAAAAAACCTAACCTTTTAACGATTTTACAAATTAGTCCCTGGGCTAGCTAGAT
TAAGCTACAACGACT
Found at i:35819497 original size:24 final size:24
Alignment explanation
Indices: 35819459--35819515 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
35819449 ATAGAATATG
* *
35819459 CCACAAAGGTATTTACAGAATACA
1 CCACAAAGGCATTTACAAAATACA
* * *
35819483 CCACAAAGGCGTTTATAAAATACG
1 CCACAAAGGCATTTACAAAATACA
*
35819507 CTACAAAGG
1 CCACAAAGG
35819516 TGTCATAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (24 bp):
CCACAAAGGCATTTACAAAATACA
Found at i:35821680 original size:17 final size:17
Alignment explanation
Indices: 35821658--35821697 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
35821648 CAACTTGAAT
*
35821658 TCTTTTTCATTTTTTTC-
1 TCTTTTTC-TCTTTTTCG
35821675 TCTTTTTCTCTTTTTCG
1 TCTTTTTCTCTTTTTCG
35821692 TCTTTT
1 TCTTTT
35821698 CTTGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (17 bp):
TCTTTTTCTCTTTTTCG
Found at i:35822975 original size:5 final size:5
Alignment explanation
Indices: 35822965--35823023 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
35822955 GATTAAATAT
** * **
35822965 TATAA TATAA TATAA TATAA TATAA TACTATA TATTT TATTA TATTT TATAA
1 TATAA TATAA TATAA TATAA TATAA TA-TA-A TATAA TATAA TATAA TATAA
35823017 TATAA TA
1 TATAA TA
35823024 GTAGTACATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 40 0.87
6 3 0.07
7 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (5 bp):
TATAA
Found at i:35823620 original size:51 final size:50
Alignment explanation
Indices: 35823556--35823664 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 50
35823546 ATATTTTTAG
* *
35823556 TAATA-ATTATATATTATAATATTATTTTATGTAATAGTAATGTAATACATTA
1 TAATATATTATATA-TAT-ATATTATTTTATGTAATACTAATATAATA-ATTA
* *
35823608 TAATATATTATATATATATATTATTTTATGTATTACTAATATACTAATT-
1 TAATATATTATATATATATATTATTTTATGTAATACTAATATAATAATTA
35823657 TAATATAT
1 TAATATAT
35823665 CGTTTTAAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
49 8 0.15
50 3 0.06
51 25 0.48
52 8 0.15
53 8 0.15
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (50 bp):
TAATATATTATATATATATATTATTTTATGTAATACTAATATAATAATTA
Found at i:35823785 original size:17 final size:16
Alignment explanation
Indices: 35823755--35823787 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
35823745 AATTTTATAG
35823755 ATTTTAAAAATTATTA
1 ATTTTAAAAATTATTA
35823771 ATTTTAAAAATTTATTA
1 ATTTTAAAAA-TTATTA
35823788 TACATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTAAAAATTATTA
Found at i:35828682 original size:12 final size:12
Alignment explanation
Indices: 35828665--35828689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35828655 TGCTTTTGTG
35828665 AGTTCAAATTAT
1 AGTTCAAATTAT
35828677 AGTTCAAATTAT
1 AGTTCAAATTAT
35828689 A
1 A
35828690 TTTTTTAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AGTTCAAATTAT
Found at i:35833479 original size:20 final size:21
Alignment explanation
Indices: 35833454--35833493 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
35833444 AGATTTTTTT
*
35833454 AAATTTATAATTTTT-TAAAA
1 AAATTTAAAATTTTTATAAAA
35833474 AAATTTAAAATTTTTATAAA
1 AAATTTAAAATTTTTATAAA
35833494 TATTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTTAAAATTTTTATAAAA
Found at i:35833512 original size:18 final size:19
Alignment explanation
Indices: 35833424--35833518 Score: 59
Period size: 19 Copynumber: 5.0 Consensus size: 19
35833414 TATTTTATTA
* *
35833424 AAATTTTTATATATATTTTT
1 AAATTTTTAAAAATA-TTTT
* ** *
35833444 AGATTTTTTTAAAT-TTAT
1 AAATTTTTAAAAATATTTT
* * *
35833462 AATTTTTTAAAAAAATTTA
1 AAATTTTTAAAAATATTTT
*
35833481 AAATTTTTATAAATATTTT
1 AAATTTTTAAAAATATTTT
*
35833500 GAA-TTTTAAAAATTATTTT
1 AAATTTTTAAAAA-TATTTT
35833519 CAAAATTTGA
Statistics
Matches: 56, Mismatches: 17, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
18 20 0.36
19 25 0.45
20 11 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAATTTTTAAAAATATTTT
Found at i:35836193 original size:100 final size:100
Alignment explanation
Indices: 35835968--35836275 Score: 409
Period size: 102 Copynumber: 3.0 Consensus size: 100
35835958 CCACGTTGCA
*
35835968 AGCATCCATATATTTTCAGAATTTGTTGCATGCATAACATACTCATTCATTGTGATTACGCACAA
1 AGCATCCATATATTTTCAGAATTTGTTGCATGCATAACATACTCATTCACTGTGATTA--CACAA
* *
35836033 CCATAGAAAATTACACAGAATTCATACCAAACATTTG
64 CCATAGAAAATTACACAGAATTCATAGCAGACATTTG
* * * * * *
35836070 ATCATCCATATATATTCAGAATTTGTTGCTTGCATAGCATACTCATTCACTGTGATTACATAGCC
1 AGCATCCATATATTTTCAGAATTTGTTGCATGCATAACATACTCATTCACTGTGATTACACAACC
* *
35836135 ATAGAAAATTATACAAAATTCATAGCAGACATTTG
66 ATAGAAAATTACACAGAATTCATAGCAGACATTTG
* * * *
35836170 AGCATCCATATATTTTCACAATTTGTTGCATGCATAATATAATCATTCACCGTGATTACACACAA
1 AGCATCCATATATTTTCAGAATTTGTTGCATGCATAACATACTCATTCACTGTGATT--ACACAA
* * * *
35836235 CCGTAGAAAATTACATAGAGTTCATAGCAGACATTCG
64 CCATAGAAAATTACACAGAATTCATAGCAGACATTTG
35836272 AGCA
1 AGCA
35836276 CAACAACACA
Statistics
Matches: 177, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 85 0.48
102 92 0.52
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (100 bp):
AGCATCCATATATTTTCAGAATTTGTTGCATGCATAACATACTCATTCACTGTGATTACACAACC
ATAGAAAATTACACAGAATTCATAGCAGACATTTG
Found at i:35838972 original size:27 final size:27
Alignment explanation
Indices: 35838942--35838993 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
35838932 AAAATAATTA
*
35838942 AATTTAA-TATGTTCATAATTTGAGTGC
1 AATTTAATTAT-TTCATAATTAGAGTGC
*
35838969 AATTTAATTATTTTATAATTAGAGT
1 AATTTAATTATTTCATAATTAGAGT
35838994 ATGAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (27 bp):
AATTTAATTATTTCATAATTAGAGTGC
Found at i:35842351 original size:27 final size:27
Alignment explanation
Indices: 35842317--35842472 Score: 168
Period size: 27 Copynumber: 5.8 Consensus size: 27
35842307 AAATGGTCGT
35842317 AATACCCCCGAAGGGTAAAATTACCGA
1 AATACCCCCGAAGGGTAAAATTACCGA
* * * *
35842344 AATGCCCCTGAAGGATAAAATTATCGA
1 AATACCCCCGAAGGGTAAAATTACCGA
* * * * *
35842371 AATGCCCTCGAAAGGTAAATTTACTGA
1 AATACCCCCGAAGGGTAAAATTACCGA
*
35842398 AATACCCCCGAAGGGTAAAATTATCGA
1 AATACCCCCGAAGGGTAAAATTACCGA
*** * *
35842425 AATACCATTGAAAGGTAAAATTACCAA
1 AATACCCCCGAAGGGTAAAATTACCGA
*
35842452 AATACCCCCGATGGGTAAAAT
1 AATACCCCCGAAGGGTAAAAT
35842473 GGCCGTAATG
Statistics
Matches: 101, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
AATACCCCCGAAGGGTAAAATTACCGA
Found at i:35842400 original size:54 final size:54
Alignment explanation
Indices: 35842325--35842472 Score: 188
Period size: 54 Copynumber: 2.7 Consensus size: 54
35842315 GTAATACCCC
* * * * *
35842325 CGAAGGGTAAAATTACCGAAATGCCCCTGAAGGATAAAATTATCGAAATGCCCT
1 CGAAAGGTAAAATTACCGAAATACCCCCGAAGGATAAAATTATCGAAATACCAT
* * *
35842379 CGAAAGGTAAATTTACTGAAATACCCCCGAAGGGTAAAATTATCGAAATACCAT
1 CGAAAGGTAAAATTACCGAAATACCCCCGAAGGATAAAATTATCGAAATACCAT
* * * *
35842433 TGAAAGGTAAAATTACCAAAATACCCCCGATGGGTAAAAT
1 CGAAAGGTAAAATTACCGAAATACCCCCGAAGGATAAAAT
35842473 GGCCGTAATG
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (54 bp):
CGAAAGGTAAAATTACCGAAATACCCCCGAAGGATAAAATTATCGAAATACCAT
Found at i:35845472 original size:54 final size:54
Alignment explanation
Indices: 35845414--35845545 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 54
35845404 GATCGCGTCC
* *
35845414 AAGCCGTGTGTCC-GCCCGTGTGAGTTTTCAAA-ATAGGCCACACGGTCGTGTCGT
1 AAGCCGTGTG-CCAGCCCGTGTGA-TATTCAAAGATAGGCCACACAGTCGTGTCGT
* * * * *
35845468 AAGCCATGTGCCAGACCGTGTGTATATTCAAAGTTGGGTCACACAGTCGTGTCGT
1 AAGCCGTGTGCCAGCCCGTGTG-ATATTCAAAGATAGGCCACACAGTCGTGTCGT
*
35845523 AGGCCGTGTGCCAGCCCGTGTGA
1 AAGCCGTGTGCCAGCCCGTGTGA
35845546 CAAACTAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
53 2 0.03
54 25 0.38
55 38 0.58
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (54 bp):
AAGCCGTGTGCCAGCCCGTGTGATATTCAAAGATAGGCCACACAGTCGTGTCGT
Found at i:35847170 original size:28 final size:27
Alignment explanation
Indices: 35847128--35847208 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
35847118 CTCGCTAGTG
*
35847128 AGGA-TTCACTAGTGTTTTCAGCGAACT
1 AGGAGTTCACCAGTGTTTT-AGCGAACT
* *
35847155 AGGAGTTCCCCAGTGTTTTGGCGAACT
1 AGGAGTTCACCAGTGTTTTAGCGAACT
* * *
35847182 GGGAGTTCACCAGTGTTCTATCGAACT
1 AGGAGTTCACCAGTGTTTTAGCGAACT
35847209 GGTTCCTGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 33 0.73
28 12 0.27
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (27 bp):
AGGAGTTCACCAGTGTTTTAGCGAACT
Found at i:35853569 original size:18 final size:18
Alignment explanation
Indices: 35853548--35853586 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
35853538 GATTGAGAGT
* *
35853548 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
35853566 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
35853584 GAA
1 GAA
35853587 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:35861338 original size:54 final size:54
Alignment explanation
Indices: 35861280--35861393 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
35861270 TCACCCATGC
* * * *
35861280 AACTCACTAAGA-TGCCCCACACACCCGTGTGCTAGGCTGTGTGCTTGGTCGTGT
1 AACTCACTAA-ATTGCCACACACACCCGTGTGCCAGGCCGTGTACTTGGTCGTGT
* *
35861334 AACTCTCTAAATTGCCACACACGCCCGTGTGCCAGGCCGTGTACTTGGTCGTGT
1 AACTCACTAAATTGCCACACACACCCGTGTGCCAGGCCGTGTACTTGGTCGTGT
*
35861388 AGCTCA
1 AACTCA
35861394 TTGACTTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (54 bp):
AACTCACTAAATTGCCACACACACCCGTGTGCCAGGCCGTGTACTTGGTCGTGT
Found at i:35864471 original size:25 final size:26
Alignment explanation
Indices: 35864432--35864501 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
35864422 CGTTCTGACC
35864432 CACAGCTCGTGTGAGCA-AGCCCATTT
1 CACAGCTCGTGTGAGCATA-CCCATTT
* *
35864458 CACAGCT-GTGTGAGCATACTCTTTT
1 CACAGCTCGTGTGAGCATACCCATTT
*
35864483 CATAGCTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
35864502 TATGTAAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 20 0.51
26 19 0.49
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTT
Found at i:35870353 original size:50 final size:50
Alignment explanation
Indices: 35870299--35870435 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
35870289 TATTGAGGTT
*
35870299 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
* * * * *
35870349 ATGAGAGGTTCCTCGTAAGACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
* ** * **
35870399 ATGAAAACTCCCATGTAAGACCAAATCTGGGATATGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGG
35870436 AATTAGCAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
Found at i:35870719 original size:20 final size:20
Alignment explanation
Indices: 35870694--35870732 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35870684 TGAGTTATTT
35870694 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
35870714 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
35870733 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:35871555 original size:202 final size:198
Alignment explanation
Indices: 35871178--35871580 Score: 551
Period size: 198 Copynumber: 2.0 Consensus size: 198
35871168 GTGATTTGAA
* ** *
35871178 AAATAACCAAGGATAGTAGAAATGAAATTAGAGACTGAATGAGATATAGAATTAATTCTTATTGA
1 AAATAACCAAGGATAGTAGAAATGAAATTAGAGACTGAATGAGATATAAAATTAAAGCTTATCGA
*
35871243 GTCTATTTTCACATGAAAGAAACGGTGTAGGAAAATGAATTTTATATTGATATTTTAATTTTAGT
66 GTCTATTTTCACATGAAAGAAACGGTGTAGGAAAATGAATTTTATATTGATATTTGAATTTTAGT
** *
35871308 GAGACAGGGTTAGAATGGTTTTTGAAGTCCCCTGTTCTAACTTTAGAAAATCATTAAAAATTGTA
131 GAGACAGGGTTAGAATGGTTTTCAAAGTCCCCTATTCTAACTTTAGAAAATCATTAAAAATTGTA
*
35871373 TCG
196 TAG
* * * *
35871376 AAATCACCAAGGATAGTAGAAATGGAATTATAGATTCG-ATGAGATATAAAATTAAAGCTTATCG
1 AAATAACCAAGGATAGTAGAAATGAAATTAGAGACT-GAATGAGATATAAAATTAAAGCTTATCG
* * *
35871440 AGTCTTTTTTTCA-ATGAAAGAAACGGTGTAGGCAAAA-GAATTTGATATTTTGAGATATTTGAC
65 AGTC-TATTTTCACATGAAAGAAACGGTGTAGG-AAAATGAATTT--TATATT--GATATTTGAA
* * *
35871503 TTTTAGTGAGATAGGGTTAGAATGGTTTTCAAAGTCCCCTATTCTGACTTTAGAAAATTATTAAA
124 TTTTAGTGAGACAGGGTTAGAATGGTTTTCAAAGTCCCCTATTCTAACTTTAGAAAATCATTAAA
35871568 AATTGTATAG
189 AATTGTATAG
35871578 AAA
1 AAA
35871581 GAATTATGAG
Statistics
Matches: 179, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
198 83 0.46
199 12 0.07
200 5 0.03
202 79 0.44
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (198 bp):
AAATAACCAAGGATAGTAGAAATGAAATTAGAGACTGAATGAGATATAAAATTAAAGCTTATCGA
GTCTATTTTCACATGAAAGAAACGGTGTAGGAAAATGAATTTTATATTGATATTTGAATTTTAGT
GAGACAGGGTTAGAATGGTTTTCAAAGTCCCCTATTCTAACTTTAGAAAATCATTAAAAATTGTA
TAG
Found at i:35878160 original size:50 final size:48
Alignment explanation
Indices: 35878121--35878262 Score: 149
Period size: 50 Copynumber: 2.9 Consensus size: 48
35878111 TATTGAGGTT
*
35878121 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATT-G-ACCAAG
* * *
35878171 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGTGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCAT-TG-ACCAAG
** *** * *
35878221 ATGAGAACTCCCGTGTAAGACCATATCTGGGATATGGCATTG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATTG
35878263 GCAGTAGAGG
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 2 0.03
50 77 0.96
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (48 bp):
ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATTGACCAAG
Found at i:35878307 original size:49 final size:49
Alignment explanation
Indices: 35878137--35878314 Score: 152
Period size: 50 Copynumber: 3.6 Consensus size: 49
35878127 GGTCCCACGT
* * * *
35878137 AAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCCCAT--
1 AAGACCATGTCTGGGACATGGCATTGGCA-CGATATGAGA--ACTCCCATGG
* *
35878187 AAGACCATGTCTGGGACATGGCA-TGTGCACCGATATGAGAACTCCCGTGT
1 AAGACCATGTCTGGGACATGGCATTG-GCA-CGATATGAGAACTCCCATGG
* *
35878237 AAGACCATATCTGGGATATGGCATTGGCA-G-TA-GAGGAAACATCCCATGG
1 AAGACCATGTCTGGGACATGGCATTGGCACGATATGA-G-AAC-TCCCATGG
* *
35878286 AAGACCATGTTTGGGACATGGCTTTGGCA
1 AAGACCATGTCTGGGACATGGCATTGGCA
35878315 TGTTATTATC
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 9 0.08
49 33 0.31
50 59 0.55
51 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (49 bp):
AAGACCATGTCTGGGACATGGCATTGGCACGATATGAGAACTCCCATGG
Found at i:35878541 original size:20 final size:20
Alignment explanation
Indices: 35878516--35878554 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35878506 TGAGTTATTT
35878516 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
35878536 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
35878555 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:35883257 original size:15 final size:15
Alignment explanation
Indices: 35883237--35883267 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35883227 TGGCATACTC
35883237 TAACAGTTGGGCCCA
1 TAACAGTTGGGCCCA
35883252 TAACAGTTGGGCCCA
1 TAACAGTTGGGCCCA
35883267 T
1 T
35883268 TACGTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (15 bp):
TAACAGTTGGGCCCA
Found at i:35887915 original size:7 final size:7
Alignment explanation
Indices: 35887905--35887934 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
35887895 TGAAAGATGA
35887905 GAGGGAT
1 GAGGGAT
35887912 GAGGGAT
1 GAGGGAT
35887919 GAGGGAT
1 GAGGGAT
35887926 GAGGGAT
1 GAGGGAT
35887933 GA
1 GA
35887935 TGTGAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.57, T:0.13
Consensus pattern (7 bp):
GAGGGAT
Found at i:35890772 original size:19 final size:18
Alignment explanation
Indices: 35890726--35890773 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
35890716 CAAGATAAAC
*
35890726 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATACTTAAT
35890743 ATTAAGA-TAATCACTTAAT
1 ATTAA-ATTAAT-ACTTAAT
35890762 ATTAAATTAATA
1 ATTAAATTAATA
35890774 AAATACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 15 0.58
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATACTTAAT
Found at i:35890819 original size:37 final size:38
Alignment explanation
Indices: 35890742--35890827 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
35890732 TTAAATTTAA
*
35890742 TATTAAGATAATCACTTAATATTAAATTAATAAAATAC
1 TATTAAGATAAGCACTTAATATTAAATTAATAAAATAC
* *
35890780 TATTAAGATAAGCA-TTAA-ATTTAATTTAATATTAA-AC
1 TATTAAGATAAGCACTTAATA-TTAAATTAATA-AAATAC
*
35890817 TATTAAAATAA
1 TATTAAGATAA
35890828 TATTATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 1 0.02
37 26 0.62
38 15 0.36
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (38 bp):
TATTAAGATAAGCACTTAATATTAAATTAATAAAATAC
Found at i:35891266 original size:19 final size:19
Alignment explanation
Indices: 35891233--35891272 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
35891223 AAAGTATCAT
*
35891233 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
35891252 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
35891271 AT
1 AT
35891273 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:35904900 original size:21 final size:21
Alignment explanation
Indices: 35904876--35904916 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35904866 TCAAAAAAGC
**
35904876 TCTCAAATTTCTCTTTAAATT
1 TCTCAAAGCTCTCTTTAAATT
35904897 TCTCAAAGCTCTCTTTAAAT
1 TCTCAAAGCTCTCTTTAAAT
35904917 CACAATTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.46
Consensus pattern (21 bp):
TCTCAAAGCTCTCTTTAAATT
Found at i:35905090 original size:18 final size:18
Alignment explanation
Indices: 35905062--35905124 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
35905052 GTAAGGGTTA
35905062 ATTTCAATTTTTTAATATT
1 ATTT-AATTTTTTAATATT
*
35905081 ATTTAATTTTTTTCAT-TT
1 ATTTAA-TTTTTTAATATT
*
35905099 ATGTAATTTTAATTAATATTT
1 ATTTAATTTT--TTAATA-TT
35905120 ATTTA
1 ATTTA
35905125 TGATTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.11
18 9 0.26
19 16 0.46
21 6 0.17
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTAATTTTTTAATATT
Found at i:35906076 original size:7 final size:7
Alignment explanation
Indices: 35906064--35906103 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
35906054 TAGTTGTTTC
35906064 GTATTTA
1 GTATTTA
35906071 GTATTTA
1 GTATTTA
35906078 GTATTTA
1 GTATTTA
35906085 GTATTTA
1 GTATTTA
35906092 GTATTTA
1 GTATTTA
35906099 GTATT
1 GTATT
35906104 ACGTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:35906109 original size:21 final size:22
Alignment explanation
Indices: 35906063--35906109 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
35906053 ATAGTTGTTT
35906063 CGTATTTAGTATTTAGTATTTA
1 CGTATTTAGTATTTAGTATTTA
35906085 -GTATTTAGTATTTAGTA-TTA
1 CGTATTTAGTATTTAGTATTTA
35906105 CGTAT
1 CGTAT
35906110 ATAACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.53
Consensus pattern (22 bp):
CGTATTTAGTATTTAGTATTTA
Found at i:35907164 original size:59 final size:61
Alignment explanation
Indices: 35907072--35907200 Score: 192
Period size: 59 Copynumber: 2.1 Consensus size: 61
35907062 TGTATTGATT
* * *
35907072 TTTTTAATATATTTGTACAAATTGTTTTTATATTGTT-T-C-ATTTAATAAAATATAAGTTG
1 TTTTTAATATATTTGTACAAATTATTTTTATATT-TTGTCCTATTTAATAAAATAGAAGTTC
35907131 TTTTTAATATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAGAAGTTC
1 TTTTTAATATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAGAAGTTC
*
35907192 TTTTGAATA
1 TTTTTAATA
35907201 AGGCAATAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
58 2 0.03
59 34 0.54
60 1 0.02
61 26 0.41
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (61 bp):
TTTTTAATATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAGAAGTTC
Found at i:35910311 original size:25 final size:25
Alignment explanation
Indices: 35910241--35910312 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
35910231 TAACTTCTAC
*
35910241 CTTCTCAACTTCTTTAATTTATAAT
1 CTTCTCAACTTCTTTAATTTCTAAT
* * *
35910266 CTCCTTAACTT-TTTCAATTTCTATT
1 CTTCTCAACTTCTTT-AATTTCTAAT
* *
35910291 CTTCTGAACTTCTCTAATTTCT
1 CTTCTCAACTTCTTTAATTTCT
35910313 TTTACTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 3 0.08
25 33 0.87
26 2 0.05
ACGTcount: A:0.22, C:0.24, G:0.01, T:0.53
Consensus pattern (25 bp):
CTTCTCAACTTCTTTAATTTCTAAT
Found at i:35910608 original size:124 final size:124
Alignment explanation
Indices: 35910380--35910861 Score: 603
Period size: 123 Copynumber: 3.9 Consensus size: 124
35910370 AAGCAGGATG
* * * * * *
35910380 TACTGTAGAAAAAAAGTGTCTAGGTGAGTGTTTTTTTCAATACTTTTGCTGACAGTGCATCC-GA
1 TACTATAGAAAAAGAGTGTCCAGGTGGGAGTTTTTTT-AGTACTTTTGCTGACAGTGCATCCTGA
* ** * *
35910444 CTTGAAGTGTTTTTGACTGTATCTTTTCAGAACCAGCTTCTCAAAATTATTTTTTTAGAAAC
65 -TTGAAGCGTTTTTGACCCTATTTTTTCAGAACCATCTTCTCAAAATTA-TTTTTTAGAAAC
* * *
35910506 TACTATAGAAAAAGAGTGTCCA-GTGGGAGTTTTTTTAGTAATTTTGTTGACAGTGCATCCTGTT
1 TACTATAGAAAAAGAGTGTCCAGGTGGGAGTTTTTTTAGTACTTTTGCTGACAGTGCATCCTGAT
* *
35910570 TGAAGTGTTTTTGACCCTATCTTTTT-AGAATCATCTTCTCAAAATTATTTTTTAGAAAC
66 TGAAGCGTTTTTGACCCTAT-TTTTTCAGAACCATCTTCTCAAAATTATTTTTTAGAAAC
* * * * *
35910629 TACTATA-AAAAAGAGCGTCCAAGTGGGAGCTTTTTTAGTACTTTTGCTGACAATGCATCCTGGT
1 TACTATAGAAAAAGAGTGTCCAGGTGGGAGTTTTTTTAGTACTTTTGCTGACAGTGCATCCTGAT
* * *
35910693 TGAAGCGTTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCAGAAAC
66 TGAAGCGTTTTTGACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTAGAAAC
* * * *
35910752 TACTGTAGAAAAAGAGTGTCTAGGTGGGAGCTTTTTTTAGTACTTTTGTTGACAGTGCATCCTAA
1 TACTATAGAAAAAGAGTGTCCAGGTGGGAG-TTTTTTTAGTACTTTTGCTGACAGTGCATCCTGA
* * * *
35910817 TTGAAACATTTTTTACCCTATTTTTTCAGAACCATCTTTTCAAAA
65 TTGAAGCGTTTTTGACCCTATTTTTTCAGAACCATCTTCTCAAAA
35910862 ACTACAGTAG
Statistics
Matches: 312, Mismatches: 38, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
122 18 0.06
123 110 0.35
124 78 0.25
125 87 0.28
126 19 0.06
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (124 bp):
TACTATAGAAAAAGAGTGTCCAGGTGGGAGTTTTTTTAGTACTTTTGCTGACAGTGCATCCTGAT
TGAAGCGTTTTTGACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTAGAAAC
Found at i:35910689 original size:123 final size:124
Alignment explanation
Indices: 35910411--35911033 Score: 587
Period size: 123 Copynumber: 5.1 Consensus size: 124
35910401 AGGTGAGTGT
* * ** *
35910411 TTTTTTCAATACTTTTGCTGACAGTGCATCC-GACTTGAAGTGTTTTTGACTGTATCTTTTCAGA
1 TTTTTT-AGTACTTTTGCTGACAGTGCATCCTGA-TTGAAGCGTTTTTGACCCTATTTTTTCAGA
* *
35910475 ACCAGCTTCTCAAAATTATTTTTTTAGAAACTACTATAGAAAAAGAGTGTCC-AGTGGGAGT
64 ACCATCTTCTCAAAATTA-TTTTTTAGAAACTACTATAGAAAAAGAGTGTCCAAGTGGGAGC
* * * *
35910536 TTTTTTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGTGTTTTTGACCCTATCTTTTT-AGAA
1 TTTTTTAGTACTTTTGCTGACAGTGCATCCTGATTGAAGCGTTTTTGACCCTAT-TTTTTCAGAA
* *
35910600 TCATCTTCTCAAAATTATTTTTTAGAAACTACTATA-AAAAAGAGCGTCCAAGTGGGAGC
65 CCATCTTCTCAAAATTATTTTTTAGAAACTACTATAGAAAAAGAGTGTCCAAGTGGGAGC
* * * *
35910659 TTTTTTAGTACTTTTGCTGACAATGCATCCTGGTTGAAGCGTTTTTTACACTATTTTTTCAGAAC
1 TTTTTTAGTACTTTTGCTGACAGTGCATCCTGATTGAAGCGTTTTTGACCCTATTTTTTCAGAAC
* * * *
35910724 CATCTTCTCAAAATTATTTTTCAGAAACTACTGTAGAAAAAGAGTGTCTAGGTGGGAGC
66 CATCTTCTCAAAATTATTTTTTAGAAACTACTATAGAAAAAGAGTGTCCAAGTGGGAGC
* * * * *
35910783 TTTTTTTAGTACTTTTGTTGACAGTGCATCCTAATTGAAACATTTTTTACCCTATTTTTTCAGAA
1 -TTTTTTAGTACTTTTGCTGACAGTGCATCCTGATTGAAGCGTTTTTGACCCTATTTTTTCAGAA
* * *
35910848 CCATCTT-T-----TCA------A-AAACTAC-AGTAGAAAAATACGT-T-C-AGCTAGGAGCC
65 CCATCTTCTCAAAATTATTTTTTAGAAACTACTA-TAGAAAAAGA-GTGTCCAAG-TGGGAG-C
* * * * *
35910895 TTTTTCAGTACTTTTGCTGATAGTGCA---T--TTGAAGCCTTTTTTACCCTATTTTATCAGAAC
1 TTTTTTAGTACTTTTGCTGACAGTGCATCCTGATTGAAGCGTTTTTGACCCTATTTTTTCAGAAC
* * * * * * * *
35910955 CATCTTCTCAAAATTAGTTTTTCAGAAACTAGTGTAGAAAAATAGCGTTCAATTGGGAAC
66 CATCTTCTCAAAATTA-TTTTTTAGAAACTACTATAGAAAAAGAGTGTCCAAGTGGGAGC
35911015 TTTTTTCAGTACTTTTGCT
1 TTTTTT-AGTACTTTTGCT
35911034 AACTGAACAA
Statistics
Matches: 418, Mismatches: 51, Indels: 62
0.79 0.10 0.12
Matches are distributed among these distances:
106 35 0.08
107 1 0.00
108 1 0.00
110 1 0.00
111 29 0.07
112 20 0.05
113 3 0.01
119 4 0.01
120 23 0.06
121 17 0.04
122 18 0.04
123 111 0.27
124 80 0.19
125 75 0.18
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (124 bp):
TTTTTTAGTACTTTTGCTGACAGTGCATCCTGATTGAAGCGTTTTTGACCCTATTTTTTCAGAAC
CATCTTCTCAAAATTATTTTTTAGAAACTACTATAGAAAAAGAGTGTCCAAGTGGGAGC
Found at i:35911198 original size:29 final size:29
Alignment explanation
Indices: 35911124--35911258 Score: 109
Period size: 28 Copynumber: 4.7 Consensus size: 29
35911114 ACCTAAAACC
* * *
35911124 CTAAACACAAATTTA-TTTTTAAAAATCC
1 CTAAACCCTAATTTATTTTTTAAAAATCA
35911152 CTAAACCCTAATTTATTTTTTAAAAAT-A
1 CTAAACCCTAATTTATTTTTTAAAAATCA
* *
35911180 TTAAACCCTAATTTAATTTATTTTTTAAAAACCA
1 CTAAACCC-----TAATTTATTTTTTAAAAATCA
* * *
35911214 -TAAACCCTAATTTGTTTTTT--GAATCC
1 CTAAACCCTAATTTATTTTTTAAAAATCA
*
35911240 CTAAACCTTAATTTATTTT
1 CTAAACCCTAATTTATTTT
35911259 CTCCAAAACT
Statistics
Matches: 88, Mismatches: 11, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
26 3 0.03
27 16 0.18
28 32 0.36
29 11 0.12
33 25 0.28
34 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.44
Consensus pattern (29 bp):
CTAAACCCTAATTTATTTTTTAAAAATCA
Found at i:35911202 original size:33 final size:33
Alignment explanation
Indices: 35911160--35911226 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
35911150 CCCTAAACCC
*
35911160 TAATTTATTTTTTAAAAA-TATTAAACCCTAATT
1 TAATTTATTTTTTAAAAACCA-TAAACCCTAATT
35911193 TAATTTATTTTTTAAAAACCATAAACCCTAATT
1 TAATTTATTTTTTAAAAACCATAAACCCTAATT
35911226 T
1 T
35911227 GTTTTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATTTATTTTTTAAAAACCATAAACCCTAATT
Found at i:35914369 original size:93 final size:94
Alignment explanation
Indices: 35914209--35914383 Score: 289
Period size: 93 Copynumber: 1.9 Consensus size: 94
35914199 AGATAAAAAG
*
35914209 AGGATTTGATATATTTCTTATCAGATAAGAAAATAGAATTTAATTATTATTTAAAAGAGTTTTAG
1 AGGATTTGATATATTTCTTATCAAATAAGAAAATAGAATTTAATTATTATTTAAAAGAGTTTTAG
*
35914274 ATAAATAATAATTAAAATTCAAAATCAAA
66 ATAAATAATAAATAAAATTCAAAATCAAA
* * * *
35914303 AGGATTTGATATATTTCTTATCAAATAAG-GAATATAATTTAGTTGTTATTTAAAAGAGTTTTAG
1 AGGATTTGATATATTTCTTATCAAATAAGAAAATAGAATTTAATTATTATTTAAAAGAGTTTTAG
35914367 ATAAATAATAAATAAAA
66 ATAAATAATAAATAAAA
35914384 CATAATTTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
93 47 0.63
94 28 0.37
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.38
Consensus pattern (94 bp):
AGGATTTGATATATTTCTTATCAAATAAGAAAATAGAATTTAATTATTATTTAAAAGAGTTTTAG
ATAAATAATAAATAAAATTCAAAATCAAA
Found at i:35914390 original size:49 final size:48
Alignment explanation
Indices: 35914336--35914462 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 48
35914326 AATAAGGAAT
* * *
35914336 ATAATTTAGTTGTTATTTAAAAGAGTTTTAGATAAATA-ATAAATAAAAC
1 ATAATTTAATTATTATTTAAAAGAGTTTTAAATAAA-AGATAAAT-AAAC
* * *
35914385 ATAATTTAATTATTATTTGAAAGAGTTTTAAATAAAAGATAACTAAAT
1 ATAATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAAATAAAC
*
35914433 AGAATTTAAATTATTATTTAAAAGAGTTTT
1 ATAATTT-AATTATTATTTAAAAGAGTTTT
35914463 TAAAATTCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 10 0.15
49 58 0.85
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (48 bp):
ATAATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAAATAAAC
Found at i:35915403 original size:29 final size:29
Alignment explanation
Indices: 35915371--35915427 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
35915361 CATTTATTTT
*
35915371 AATGCATATATATGATA-CTATGAGTATGG
1 AATGCAT-TAGATGATATCTATGAGTATGG
* *
35915400 AATGCCTTAGATGATATCTATTAGTATG
1 AATGCATTAGATGATATCTATGAGTATG
35915428 TGATACTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (29 bp):
AATGCATTAGATGATATCTATGAGTATGG
Found at i:35927115 original size:21 final size:21
Alignment explanation
Indices: 35927091--35927133 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35927081 TGTGGCTGTG
*
35927091 TTTGATTTTGGTGTGGATGCA
1 TTTGACTTTGGTGTGGATGCA
* *
35927112 TTTGGCTTTGTTGTGGATGCA
1 TTTGACTTTGGTGTGGATGCA
35927133 T
1 T
35927134 CTAAGTACGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.33, T:0.49
Consensus pattern (21 bp):
TTTGACTTTGGTGTGGATGCA
Found at i:35931077 original size:7 final size:7
Alignment explanation
Indices: 35931027--35931061 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
35931017 AGAAAATCAC
35931027 AAAAAAT
1 AAAAAAT
*
35931034 AAAGAAT
1 AAAAAAT
35931041 AAAAAAT
1 AAAAAAT
35931048 AAAAAAT
1 AAAAAAT
35931055 AAAAAAT
1 AAAAAAT
35931062 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:35931090 original size:24 final size:25
Alignment explanation
Indices: 35931042--35931090 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
35931032 ATAAAGAATA
**
35931042 AAAAATAAAAAATAAAAAATTAATT
1 AAAAATAAAAAATAAAAAACAAATT
*
35931067 AAAAAT-AAAAATAAATAACAAATT
1 AAAAATAAAAAATAAAAAACAAATT
35931091 GCAACAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAAATAAAAAATAAAAAACAAATT
Found at i:35931355 original size:16 final size:17
Alignment explanation
Indices: 35931329--35931361 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35931319 AAATAACTTG
*
35931329 ATGCAAAATTATCCTAA
1 ATGCAAAATTAACCTAA
35931346 ATGC-AAATTAACCTAA
1 ATGCAAAATTAACCTAA
35931362 GTGTGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (17 bp):
ATGCAAAATTAACCTAA
Found at i:35941309 original size:3 final size:3
Alignment explanation
Indices: 35941301--35941332 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
35941291 TTTGTCAATG
*
35941301 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35941333 AGTATTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:35943602 original size:12 final size:12
Alignment explanation
Indices: 35943585--35943617 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
35943575 ATTAGAATAG
35943585 TAAAGAAGAAAA
1 TAAAGAAGAAAA
35943597 TAAAGAAGAAAA
1 TAAAGAAGAAAA
*
35943609 CAAAGAAGA
1 TAAAGAAGA
35943618 TAGATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.06
Consensus pattern (12 bp):
TAAAGAAGAAAA
Found at i:35944513 original size:16 final size:17
Alignment explanation
Indices: 35944481--35944514 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35944471 AGATTCATCC
35944481 TCAAATATTGTATTTGA
1 TCAAATATTGTATTTGA
*
35944498 TCAAATCTTG-ATTTGA
1 TCAAATATTGTATTTGA
35944514 T
1 T
35944515 TTGCTTGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (17 bp):
TCAAATATTGTATTTGA
Found at i:35945276 original size:51 final size:51
Alignment explanation
Indices: 35945205--35945308 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
35945195 TTAAATGTTC
35945205 AACTTACCTCTCTCCTACAAGTAAAATCTTCTATCAATGGTAGAGTAATGT
1 AACTTACCTCTCTCCTACAAGTAAAATCTTCTATCAATGGTAGAGTAATGT
35945256 AACTTACCTCTCTCCTACAAGTAAAATCTTCTATCAATGGTAGAGTAATGT
1 AACTTACCTCTCTCCTACAAGTAAAATCTTCTATCAATGGTAGAGTAATGT
35945307 AA
1 AA
35945309 TTGGAAGCTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (51 bp):
AACTTACCTCTCTCCTACAAGTAAAATCTTCTATCAATGGTAGAGTAATGT
Found at i:35947976 original size:45 final size:45
Alignment explanation
Indices: 35947912--35948144 Score: 394
Period size: 45 Copynumber: 5.2 Consensus size: 45
35947902 CATGAAATTA
*
35947912 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35947957 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAAAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35948002 AGGAGGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35948047 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
35948092 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
35948137 AGGAAGCA
1 AGGAAGCA
35948145 CCATGGCCGA
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 177 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:35949028 original size:68 final size:68
Alignment explanation
Indices: 35948919--35949054 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
35948909 TCGATTATCT
35948919 ATAAAACATGGGAAATGAGACTATGTAAGCATAAAATGCTTAGTAAGTTCTTATAACATAAAACA
1 ATAAAACATGGGAAATGAGACTATGTAAGCATAAAATGCTTAGTAAGTTCTTATAACATAAAACA
35948984 CAA
66 CAA
35948987 ATAAAACATGGGAAATGAGACTATGTAAGCATAAAATGCTTAGTAAGTTCTTATAACATAAAACA
1 ATAAAACATGGGAAATGAGACTATGTAAGCATAAAATGCTTAGTAAGTTCTTATAACATAAAACA
35949052 CAA
66 CAA
35949055 CTTACCATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.25
Consensus pattern (68 bp):
ATAAAACATGGGAAATGAGACTATGTAAGCATAAAATGCTTAGTAAGTTCTTATAACATAAAACA
CAA
Found at i:35949463 original size:26 final size:26
Alignment explanation
Indices: 35949425--35949493 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
35949415 CTTACATCGT
* *
35949425 TGCTCACACGAGCTGTGAAATG-GATC
1 TGCTCACATGAGCTGTGAAATGTG-CC
*
35949451 TGCTCACATGAGCTGTAAAATGTGCC
1 TGCTCACATGAGCTGTGAAATGTGCC
*
35949477 TGCTCACATGAGGTGTG
1 TGCTCACATGAGCTGTG
35949494 GGTCGGGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (26 bp):
TGCTCACATGAGCTGTGAAATGTGCC
Found at i:35950884 original size:5 final size:5
Alignment explanation
Indices: 35950870--35950902 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
35950860 GAAATCATAA
35950870 ATAT- ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
35950903 ATGCTATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (5 bp):
ATATG
Found at i:35955364 original size:79 final size:78
Alignment explanation
Indices: 35955262--35955486 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
35955252 GCTCCTCGTT
* *
35955262 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
35955327 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
35955342 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCCG
* *
35955405 GATTTAGTATCTCGTA
63 GATTTAGTAACTCGCA
* * * * *
35955421 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
35955485 GA
63 GA
35955487 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
78 6 0.05
79 63 0.51
80 42 0.34
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:35955446 original size:119 final size:120
Alignment explanation
Indices: 35955262--35955486 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
35955252 GCTCCTCGTT
35955262 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
35955327 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
35955381 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGTACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
35955442 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
35955487 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 8 0.09
119 62 0.68
120 21 0.23
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35955486 original size:40 final size:39
Alignment explanation
Indices: 35955262--35955486 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 39
35955252 GCTCCTCGTT
* *
35955262 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * *
35955302 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
35955342 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* * *
35955381 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
35955421 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
35955462 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35955487 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 116 0.72
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:35960601 original size:18 final size:18
Alignment explanation
Indices: 35960578--35960613 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
35960568 TTTAAATGTC
35960578 ATTAATTT-TAGAAAAGGG
1 ATTAATTTGTA-AAAAGGG
35960596 ATTAATTTGTAAAAAGGG
1 ATTAATTTGTAAAAAGGG
35960614 TCAAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
ATTAATTTGTAAAAAGGG
Found at i:35967613 original size:12 final size:12
Alignment explanation
Indices: 35967598--35967625 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35967588 AAAGAAAATT
35967598 AAAAAAGAAGAA
1 AAAAAAGAAGAA
35967610 AAAAAAGAAGAA
1 AAAAAAGAAGAA
35967622 AAAA
1 AAAA
35967626 GAAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGAA
Found at i:35967700 original size:21 final size:21
Alignment explanation
Indices: 35967676--35967715 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35967666 GAAAGTATGC
* *
35967676 AAGAAACGAGTGTTGTTGAAA
1 AAGAAACGAGAGTAGTTGAAA
35967697 AAGAAACGAGAGTAGTTGA
1 AAGAAACGAGAGTAGTTGA
35967716 GTTTTCTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (21 bp):
AAGAAACGAGAGTAGTTGAAA
Found at i:35969539 original size:22 final size:21
Alignment explanation
Indices: 35969514--35969555 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
35969504 TTAAATAAAT
*
35969514 TTTAGTTAATTTAGTATAAGTA
1 TTTAATTAATTTAGT-TAAGTA
35969536 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
35969556 GTTAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:35987885 original size:21 final size:21
Alignment explanation
Indices: 35987861--35987915 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
35987851 CCCCTTTATT
35987861 AACATAAAAATTTAAATTTTA
1 AACATAAAAATTTAAATTTTA
*
35987882 AACA-AAACAAATTAAATTTTA
1 AACATAAA-AATTTAAATTTTA
35987903 AA-AT-AAAATTTAA
1 AACATAAAAATTTAA
35987916 GTCTTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 6 0.20
20 6 0.20
21 18 0.60
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AACATAAAAATTTAAATTTTA
Found at i:35995997 original size:10 final size:10
Alignment explanation
Indices: 35995982--35996006 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35995972 TTCATGTTCA
35995982 CAATTCAAAT
1 CAATTCAAAT
35995992 CAATTCAAAT
1 CAATTCAAAT
35996002 CAATT
1 CAATT
35996007 TCAATACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (10 bp):
CAATTCAAAT
Found at i:35997736 original size:42 final size:43
Alignment explanation
Indices: 35997653--35997847 Score: 213
Period size: 42 Copynumber: 4.6 Consensus size: 43
35997643 TCGTTACACA
* * *
35997653 GTGGAATCAGTACTTAGCAACCACC-TT-ATAATCAATGATACG
1 GTGGAATCAGCACATAGCAACC-CCTTTCACAATCAATGATACG
* *
35997695 G-GGAATCAGCCCATAACAACCCCTTTCACAATCAATGATACG
1 GTGGAATCAGCACATAGCAACCCCTTTCACAATCAATGATACG
* * *
35997737 GTGGAATCAGCACTTAGCAA-CCATCTT-ATAATCAATGATAC-
1 GTGGAATCAGCACATAGCAACCCCT-TTCACAATCAATGATACG
* * *
35997778 GAGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATATG
1 GTGGAATCAGCACATAGCAACCCCTTTCACAATCAATGATACG
*
35997821 GTGGAATCAGCACTTAGCAACCACCTT
1 GTGGAATCAGCACATAGCAACC-CCTT
35997848 ATAATTAATG
Statistics
Matches: 127, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.02
41 38 0.30
42 46 0.36
43 37 0.29
44 4 0.03
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
GTGGAATCAGCACATAGCAACCCCTTTCACAATCAATGATACG
Found at i:35997799 original size:84 final size:84
Alignment explanation
Indices: 35997653--35997861 Score: 346
Period size: 84 Copynumber: 2.5 Consensus size: 84
35997643 TCGTTACACA
* * *
35997653 GTGGAATCAGTACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCCCATAACAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACATAACAACCCC
*
35997718 TTTCACAATCAATGATACG
66 TTTCACAATCAAGGATACG
* *
35997737 GTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACGAGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACATAACAACCCC
*
35997802 TTTCACAATCAAGGATATG
66 TTTCACAATCAAGGATACG
*
35997821 GTGGAATCAGCACTTAGCAACCACCTTATAATTAATGATAC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC
35997862 CGGTTCACAT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 116 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACATAACAACCCC
TTTCACAATCAAGGATACG
Found at i:36006019 original size:24 final size:25
Alignment explanation
Indices: 36005991--36006041 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
36005981 CAACTCATTT
*
36005991 GAGCTTACCAATTT-GAGCTCGTGA
1 GAGCTTACCAATTTACAGCTCGTGA
*
36006015 GAGCTTACCGATTTACAGCTCGTGA
1 GAGCTTACCAATTTACAGCTCGTGA
36006040 GA
1 GA
36006042 TCATATCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCGTGA
Found at i:36006059 original size:25 final size:25
Alignment explanation
Indices: 36006006--36006060 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
36005996 TACCAATTTG
* *
36006006 AGCTCGTGAGAGCTTACCGATTTAC
1 AGCTCGTGAGAGCATACCGATTCAC
* * *
36006031 AGCTCGTGAGATCATATCGATTCAT
1 AGCTCGTGAGAGCATACCGATTCAC
36006056 AGCTC
1 AGCTC
36006061 CTATAAGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTCAC
Found at i:36015389 original size:25 final size:25
Alignment explanation
Indices: 36015355--36015422 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
36015345 TTTACATCGT
36015355 TGCTCACACGAGCTGTGAATGGGCC
1 TGCTCACACGAGCTGTGAATGGGCC
*
36015380 TGCTCACACGAACTGTGAATGGGCC
1 TGCTCACACGAGCTGTGAATGGGCC
36015405 TGCTCACACGAGCTGTGA
1 TGCTCACACGAGCTGTGA
36015423 GTTAGAATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.21
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATGGGCC
Found at i:36021385 original size:27 final size:27
Alignment explanation
Indices: 36021355--36021532 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
36021345 ATATTGAGTC
* *
36021355 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36021382 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36021409 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36021437 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36021464 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36021491 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36021518 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
36021533 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36021494 original size:82 final size:81
Alignment explanation
Indices: 36021376--36021531 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36021366 TGCTATATAA
* * *
36021376 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
36021441 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36021458 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
36021522 CACTTAGTGC
65 CACTTAGTGC
36021532 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:36029458 original size:27 final size:27
Alignment explanation
Indices: 36029428--36029604 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
36029418 ATATTGAGTC
* *
36029428 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36029455 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36029482 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36029510 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36029537 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36029564 CGCACAC-TAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36029590 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
36029605 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 20 0.16
27 83 0.66
28 23 0.18
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36029520 original size:55 final size:54
Alignment explanation
Indices: 36029428--36029604 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
36029418 ATATTGAGTC
* * * * *
36029428 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
36029482 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
36029537 CGCACACTTAGTGC-ATCATATTCATTTCGCACAC-TAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
36029590 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
36029605 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 28 0.27
54 30 0.29
55 45 0.44
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:36029567 original size:82 final size:80
Alignment explanation
Indices: 36029449--36029603 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
36029439 TGCTATATAA
* * *
36029449 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACAC-TAGTGCAACATAGTCAAA-TCACA
36029514 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * **
36029531 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTAGTGCAACATAGTCAAATCACAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTAGTGCAACATAGTCAAATCACAC
36029595 ACTTAGTGC
65 ACTTAGTGC
36029604 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 18 0.28
82 33 0.51
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTAGTGCAACATAGTCAAATCACACA
CTTAGTGCCGCATGG
Found at i:36033720 original size:31 final size:31
Alignment explanation
Indices: 36033682--36033745 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
36033672 GTACTCAAAG
36033682 CAGAGTTGAAAAACTCATCAAAGGGAAATTC
1 CAGAGTTGAAAAACTCATCAAAGGGAAATTC
*
36033713 CAGAGTTGAAAAATTCATCAAAGGGAAATTC
1 CAGAGTTGAAAAACTCATCAAAGGGAAATTC
36033744 CA
1 CA
36033746 TGTAAGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGAGTTGAAAAACTCATCAAAGGGAAATTC
Found at i:36041099 original size:56 final size:56
Alignment explanation
Indices: 36041008--36041117 Score: 193
Period size: 56 Copynumber: 2.0 Consensus size: 56
36040998 TTACACATTT
* *
36041008 TGATCCCATGTTTACTATCCTGGCAGACTTTATATGTTGCCATAGCCCAGCTATTA
1 TGATCCCATGTTTACTACCCTGGCAGACTTCATATGTTGCCATAGCCCAGCTATTA
*
36041064 TGATCCTATGTTTACTACCCTGGCAGACTTCATATGTTGCCATAGCCCAGCTAT
1 TGATCCCATGTTTACTACCCTGGCAGACTTCATATGTTGCCATAGCCCAGCTAT
36041118 GGTCTTACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (56 bp):
TGATCCCATGTTTACTACCCTGGCAGACTTCATATGTTGCCATAGCCCAGCTATTA
Found at i:36041990 original size:42 final size:42
Alignment explanation
Indices: 36041944--36042024 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
36041934 TGTGCTCACC
* * *
36041944 CGTGTAACTCACTGAGTTGCCCCACATGCCTGTGTGCCAAGT
1 CGTGTAACTCACTGAGTTGACACACATGCCCGTGTGCCAAGT
**
36041986 CGTGTAACTCTTTGAGTTGACACACATGCCCGTGTGCCA
1 CGTGTAACTCACTGAGTTGACACACATGCCCGTGTGCCA
36042025 GGCAATGTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (42 bp):
CGTGTAACTCACTGAGTTGACACACATGCCCGTGTGCCAAGT
Found at i:36042802 original size:20 final size:20
Alignment explanation
Indices: 36042740--36042803 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
36042730 AAGTGCAAAT
*
36042740 GGGGCAAGTATGTGCATTCA
1 GGGGCACGTATGTGCATTCA
* * * *
36042760 GGGGTACCG-AAGTACAAAT-A
1 GGGGCA-CGTATGTGC-ATTCA
36042780 GGGGCACGTATGTGCATTCA
1 GGGGCACGTATGTGCATTCA
36042800 GGGG
1 GGGG
36042804 TAACTAAGTA
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 3 0.10
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.20
Consensus pattern (20 bp):
GGGGCACGTATGTGCATTCA
Found at i:36042963 original size:20 final size:20
Alignment explanation
Indices: 36042938--36043003 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
36042928 AAAGTACAAA
36042938 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* ** * ** *
36042958 CAGGGGTACCAAAGTATAAAT
1 CAGGGGCACGTATGT-GCATT
36042979 -AGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
36042998 CAGGGG
1 CAGGGG
36043004 TAATTATCTA
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:36043017 original size:40 final size:40
Alignment explanation
Indices: 36042716--36043005 Score: 386
Period size: 40 Copynumber: 7.3 Consensus size: 40
36042706 ATACTATTTG
* * *
36042716 ATTCAGGGTTACCAAAGTGCAAAT-GGGGCAAGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
*
36042755 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
* * * * *
36042795 ATTCAGGGGTAACTAAGTACAAATAGGGGAATGTATATGC
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
* * * *
36042835 ATTTAAGGGTACCAAACTACAAATAGGGGCACATATGCT-C
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATG-TGC
* *
36042875 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
* * *
36042915 ATTTAGAGGTACCAAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
*
36042955 ATTCAGGGGTACCAAAGTATAAATAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
36042995 ATTCAGGGGTA
1 ATTCAGGGGTA
36043006 ATTATCTATA
Statistics
Matches: 217, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
39 22 0.10
40 194 0.89
41 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGC
Found at i:36048127 original size:49 final size:47
Alignment explanation
Indices: 36048013--36048182 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
36048003 TATTTGAATA
36048013 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
36048062 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
36048109 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
36048156 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
36048183 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 99 0.89
49 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:36049655 original size:43 final size:43
Alignment explanation
Indices: 36049607--36049752 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
36049597 TTGGTTTTCA
*
36049607 GCACTAAATGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
36049650 GCACTAAGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
36049693 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
36049736 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
36049753 TTGAAATGCA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:36049769 original size:29 final size:29
Alignment explanation
Indices: 36049734--36049807 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36049724 GTTGTGAGAT
* *
36049734 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36049763 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36049792 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36049808 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36050243 original size:40 final size:40
Alignment explanation
Indices: 36050120--36050395 Score: 272
Period size: 40 Copynumber: 6.9 Consensus size: 40
36050110 TCGAATGATG
** *
36050120 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
36050160 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
36050200 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
36050240 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
36050280 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
36050320 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
36050360 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
36050396 CGTGTATTCG
Statistics
Matches: 200, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.00
40 181 0.90
41 18 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:36050336 original size:120 final size:121
Alignment explanation
Indices: 36050120--36050396 Score: 310
Period size: 120 Copynumber: 2.3 Consensus size: 121
36050110 TCGAATGATG
**
36050120 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
* * ** *
36050183 TGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
65 TCGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
** * *
36050240 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAG-GCAT
* * * * * * * *
36050304 TCGTGCTAGTGA-TATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
65 TCGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
* * *
36050360 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
36050397 GTGTATTCGG
Statistics
Matches: 131, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
120 105 0.80
121 20 0.15
122 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
Found at i:36064624 original size:13 final size:13
Alignment explanation
Indices: 36064608--36064666 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
36064598 AAAAAAAATC
36064608 AAAAAAAATTCGA
1 AAAAAAAATTCGA
*
36064621 AAAAAAAATTTGA
1 AAAAAAAATTCGA
36064634 TTGAAAAAAAATTC-A
1 ---AAAAAAAATTCGA
* *
36064649 TAAAAAAAGT-GA
1 AAAAAAAATTCGA
36064661 AAAAAA
1 AAAAAA
36064667 TCGAGCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
12 14 0.38
13 12 0.32
15 1 0.03
16 10 0.27
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:36065764 original size:6 final size:6
Alignment explanation
Indices: 36065745--36065841 Score: 61
Period size: 6 Copynumber: 15.7 Consensus size: 6
36065735 AAAGAAATTG
** * **
36065745 AAAGAA AACA-AA AAAGAA AAAGAA ATTGCA AAAGAA AAAGAA ATCGAA
1 AAAGAA AA-AGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** * * *
36065793 AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA AAAGAA AAAG
36065842 CGAAAAAAGA
Statistics
Matches: 66, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
5 1 0.02
6 53 0.80
7 8 0.12
8 4 0.06
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:36065795 original size:18 final size:18
Alignment explanation
Indices: 36065745--36065796 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
36065735 AAAGAAATTG
* *
36065745 AAAGAAAACAAAAAAGAA
1 AAAGAAATCGAAAAAGAA
* *
36065763 AAAGAAATTGCAAAAGAA
1 AAAGAAATCGAAAAAGAA
36065781 AAAGAAATCGAAAAAG
1 AAAGAAATCGAAAAAG
36065797 TGAGAGAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (18 bp):
AAAGAAATCGAAAAAGAA
Found at i:36065823 original size:14 final size:13
Alignment explanation
Indices: 36065802--36065839 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
36065792 AAAAGTGAGA
36065802 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
36065814 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
36065829 GAAAAAGAAAA
1 GAAAAAGAAAA
36065840 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:36065853 original size:21 final size:21
Alignment explanation
Indices: 36065746--36065853 Score: 51
Period size: 24 Copynumber: 4.9 Consensus size: 21
36065736 AAGAAATTGA
*
36065746 AAGAAAACAAAAAAGAAAAAG
1 AAGAAAAGAAAAAAGAAAAAG
**
36065767 AAATTGCAAAAG-AAAAAGAAATCG
1 -AA--G-AAAAGAAAAAAGAAAAAG
*
36065791 AA-AAAGTGAGAGAAAAAGAAAATG
1 AAGAAA---AGA-AAAAAGAAAAAG
**
36065815 AAGAAAAGAAAATTGAAAAAG
1 AAGAAAAGAAAAAAGAAAAAG
*
36065836 AA-AAAGCGAAAAAAGAAA
1 AAGAAA-AGAAAAAAGAAA
36065854 TTGAAAGAGA
Statistics
Matches: 65, Mismatches: 11, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
19 3 0.05
20 3 0.05
21 20 0.31
22 7 0.11
23 2 0.03
24 23 0.35
25 7 0.11
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (21 bp):
AAGAAAAGAAAAAAGAAAAAG
Found at i:36065893 original size:33 final size:33
Alignment explanation
Indices: 36065856--36065918 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
36065846 AAAAGAAATT
36065856 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
36065889 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
36065919 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:36072865 original size:13 final size:13
Alignment explanation
Indices: 36072849--36072878 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36072839 TTTAAACAAA
*
36072849 TTAATTAACTTAT
1 TTAATTAACTAAT
36072862 TTAATTAACTAAT
1 TTAATTAACTAAT
36072875 TTAA
1 TTAA
36072879 AAATATGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:36076143 original size:26 final size:27
Alignment explanation
Indices: 36076114--36076178 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
36076104 TTTGACTTCT
36076114 TTTTTCTTTTTCTCAA-TGTTCTT-TTC
1 TTTTTC-TTTTCTCAATTGTTCTTGTTC
*
36076140 TTTTTCTTTT-TCAATTTTTCTTGTTC
1 TTTTTCTTTTCTCAATTGTTCTTGTTC
36076166 TTTTTCCTTTTCT
1 TTTTT-CTTTTCT
36076179 TTTTCCAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 4 0.12
25 10 0.29
26 14 0.41
27 5 0.15
28 1 0.03
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.72
Consensus pattern (27 bp):
TTTTTCTTTTCTCAATTGTTCTTGTTC
Found at i:36076144 original size:6 final size:6
Alignment explanation
Indices: 36076135--36076183 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
36076125 CTCAATGTTC
* *
36076135 TTTTCT TTTTCT TTTTCAAT TTTTCT TGTTCT TTTTCC TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTC--T TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
36076184 CAAGGACTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 31 0.84
8 6 0.16
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:36079402 original size:12 final size:12
Alignment explanation
Indices: 36079385--36079417 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
36079375 TTTTCTTTTT
36079385 GCTTTTT-AAAG
1 GCTTTTTCAAAG
36079396 GCTTTTTCAAAG
1 GCTTTTTCAAAG
36079408 GCTTTTTCAA
1 GCTTTTTCAA
36079418 GTTCTCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (12 bp):
GCTTTTTCAAAG
Found at i:36079494 original size:6 final size:6
Alignment explanation
Indices: 36079478--36079527 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
36079468 TTTCTTTTTA
*
36079478 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
36079527 T
1 T
36079528 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:36079510 original size:37 final size:37
Alignment explanation
Indices: 36079467--36079537 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
36079457 CTTGCCTCTC
36079467 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
36079504 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
36079538 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:36079538 original size:16 final size:16
Alignment explanation
Indices: 36079463--36079523 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
36079453 GCCTCTTGCC
*
36079463 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
36079479 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
36079495 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
36079511 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
36079524 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:36080482 original size:11 final size:10
Alignment explanation
Indices: 36080467--36080496 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
36080457 TTTTTTGTCA
36080467 CTTTTTTTTT
1 CTTTTTTTTT
36080477 CTTTTTTTTT
1 CTTTTTTTTT
36080487 CTTTTTTTTT
1 CTTTTTTTTT
36080497 GAATTTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:36082265 original size:30 final size:30
Alignment explanation
Indices: 36082231--36082327 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
36082221 TAAACTAAAA
*
36082231 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
36082261 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
36082291 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
36082320 ATGAGCTA
1 -TGAGCTA
36082328 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:36086180 original size:33 final size:34
Alignment explanation
Indices: 36086138--36086201 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
36086128 AAATCGTAGC
*
36086138 TTCGAAAAAAAAAAAA-GTAAAAAAAAAAAAAGT
1 TTCGAAAAAAAAAAAATCTAAAAAAAAAAAAAGT
*
36086171 TTCGAAAAAAAAAAAATCTGAAAAAAAAAAA
1 TTCGAAAAAAAAAAAATCTAAAAAAAAAAAA
36086202 GAGAAGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.75, C:0.05, G:0.08, T:0.12
Consensus pattern (34 bp):
TTCGAAAAAAAAAAAATCTAAAAAAAAAAAAAGT
Found at i:36086237 original size:15 final size:14
Alignment explanation
Indices: 36086143--36086235 Score: 69
Period size: 15 Copynumber: 6.0 Consensus size: 14
36086133 GTAGCTTCGA
**
36086143 AAAAAAAAAAAGTAA
1 AAAAAAAAAAA-TTG
36086158 AAAAAAAAAAAGTTTCG
1 AAAAAAAAAAA--TT-G
36086175 AAAAAAAAAAAATCTG
1 -AAAAAAAAAAAT-TG
**
36086191 AAAAAAAAAAAGAG
1 AAAAAAAAAAATTG
36086205 AAGGAAAAAAAAATTG
1 AA--AAAAAAAAATTG
36086221 CAAAAAAAAAAATTG
1 -AAAAAAAAAAATTG
36086236 CATACGGTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
14 3 0.05
15 34 0.53
16 13 0.20
17 3 0.05
18 11 0.17
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (14 bp):
AAAAAAAAAAATTG
Found at i:36087298 original size:18 final size:18
Alignment explanation
Indices: 36087260--36087301 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36087250 AAATCGAAAG
* **
36087260 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
36087278 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
36087296 AAAAGA
1 AAAAGA
36087302 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:36099120 original size:52 final size:52
Alignment explanation
Indices: 36099037--36099137 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
36099027 TAAGGAAACG
* *
36099037 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
36099089 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
36099138 TATGTGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:36100186 original size:10 final size:10
Alignment explanation
Indices: 36100171--36100197 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
36100161 CGCAATTTCA
36100171 AAAAAAAAAC
1 AAAAAAAAAC
36100181 AAAAAAAAAC
1 AAAAAAAAAC
36100191 AAAAAAA
1 AAAAAAA
36100198 CAAAAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:36114054 original size:17 final size:18
Alignment explanation
Indices: 36114032--36114065 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36114022 ACAACACTCC
*
36114032 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
36114049 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
36114066 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:36115140 original size:16 final size:17
Alignment explanation
Indices: 36115107--36115144 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36115097 TTTAACTTGA
* *
36115107 TTTTTTTGGTCGCCTTT
1 TTTTTTTGCTCGCATTT
36115124 TTTTTTTGCTCG-ATTT
1 TTTTTTTGCTCGCATTT
36115140 TTTTT
1 TTTTT
36115145 CACTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.03, C:0.13, G:0.13, T:0.71
Consensus pattern (17 bp):
TTTTTTTGCTCGCATTT
Found at i:36115188 original size:12 final size:12
Alignment explanation
Indices: 36115136--36115194 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
36115126 TTTTTGCTCG
36115136 ATTTTTTTTC-A
1 ATTTTTTTTCGA
*
36115147 CTTTTTTTT-GA
1 ATTTTTTTTCGA
*
36115158 ATTTTTTTTTCAATCA
1 A-TTTTTTTTC---GA
36115174 ATTTTTTTTCGA
1 ATTTTTTTTCGA
36115186 ATTTTTTTT
1 ATTTTTTTT
36115195 TTGATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
11 9 0.24
12 18 0.47
15 9 0.24
16 2 0.05
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.71
Consensus pattern (12 bp):
ATTTTTTTTCGA
Found at i:36115201 original size:12 final size:13
Alignment explanation
Indices: 36115148--36115206 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 13
36115138 TTTTTTTCAC
36115148 TTTTTTTT-GAAT
1 TTTTTTTTCGAAT
36115160 TTTTTTTTC-AAT
1 TTTTTTTTCGAAT
36115172 CAATTTTTTTTCGAAT
1 ---TTTTTTTTCGAAT
*
36115188 TTTTTTTTTG-AT
1 TTTTTTTTCGAAT
36115200 TTTTTTT
1 TTTTTTT
36115207 GTTACTCCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
12 20 0.49
13 9 0.22
15 9 0.22
16 3 0.07
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCGAAT
Found at i:36117245 original size:23 final size:22
Alignment explanation
Indices: 36117194--36117245 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
36117184 CCTCGTCTTT
*
36117194 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
36117216 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
36117239 TTCTTTT
1 TTCTTTT
36117246 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:36121377 original size:20 final size:20
Alignment explanation
Indices: 36121354--36121407 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
36121344 AGTTTTTCCC
*
36121354 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
36121374 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
36121394 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
36121408 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:36121389 original size:30 final size:30
Alignment explanation
Indices: 36121354--36121427 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
36121344 AGTTTTTCCC
36121354 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
36121384 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
36121414 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
36121428 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:36121417 original size:20 final size:20
Alignment explanation
Indices: 36121354--36121418 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
36121344 AGTTTTTCCC
* * * *
36121354 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
36121374 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
36121393 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
36121414 AGCTC
1 AGCTC
36121419 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:36123027 original size:11 final size:11
Alignment explanation
Indices: 36123011--36123040 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
36123001 TTGGAGTAAT
36123011 AAAAAAATCAA
1 AAAAAAATCAA
*
36123022 AAAAAATTCAA
1 AAAAAAATCAA
36123033 AAAAAAAT
1 AAAAAAAT
36123041 TTGATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:36123065 original size:11 final size:11
Alignment explanation
Indices: 36123049--36123105 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 11
36123039 ATTTGATTGA
*
36123049 AAAAAAAAATT
1 AAAAAAAAATG
36123060 AAAAAAAAAGTG
1 AAAAAAAAA-TG
36123072 AAAAAAAAATCG
1 AAAAAAAAAT-G
36123084 AGCAAAAAAAA-G
1 A--AAAAAAAATG
36123096 AAAAGAAAAA
1 AAAA-AAAAA
36123106 AAGGTGAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 14 0.35
14 8 0.20
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:36123075 original size:12 final size:12
Alignment explanation
Indices: 36123046--36123106 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
36123036 AAAATTTGAT
36123046 TGAAAAAAAAAA
1 TGAAAAAAAAAA
* *
36123058 TTAAAAAAAAAG
1 TGAAAAAAAAAA
36123070 TG-AAAAAAAAA
1 TGAAAAAAAAAA
*
36123081 TCGAGCAAAAAAAA
1 T-GA-AAAAAAAAA
36123095 -GAAAAGAAAAAA
1 TGAAAA-AAAAAA
36123107 AGGTGAGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 11 0.28
12 20 0.51
14 8 0.21
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.08
Consensus pattern (12 bp):
TGAAAAAAAAAA
Done.